diff --git a/Framework/API/inc/MantidAPI/ITransformScale.h b/Framework/API/inc/MantidAPI/ITransformScale.h
index d13af449f046120f40869cb0f8d2208312c60088..18832392062ceba43c5749aed0ea7201681dfaab 100644
--- a/Framework/API/inc/MantidAPI/ITransformScale.h
+++ b/Framework/API/inc/MantidAPI/ITransformScale.h
@@ -8,6 +8,7 @@
#include <boost/shared_ptr.hpp>
#endif
+#include <string>
#include <vector>
#include "MantidAPI/DllConfig.h"
diff --git a/Framework/API/src/AlgorithmFactory.cpp b/Framework/API/src/AlgorithmFactory.cpp
index b208e36ca7348261cf51e35b625d0882debb3e21..c21455f254585879e0b78e04fc8916841c370a6a 100644
--- a/Framework/API/src/AlgorithmFactory.cpp
+++ b/Framework/API/src/AlgorithmFactory.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include <sstream>
#include "MantidAPI/AlgorithmFactory.h"
#include "MantidAPI/Algorithm.h"
diff --git a/Framework/API/src/Axis.cpp b/Framework/API/src/Axis.cpp
index 025e8fac19de6807b41c3ba71800e66e229f5275..6f8abc8a5af84d90791a8898728fc123952ebe21 100644
--- a/Framework/API/src/Axis.cpp
+++ b/Framework/API/src/Axis.cpp
@@ -5,8 +5,6 @@
#include "MantidKernel/Exception.h"
#include "MantidKernel/UnitFactory.h"
-#include <iostream>
-
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/Column.cpp b/Framework/API/src/Column.cpp
index 2611772b53561e078740201f67477f571b6de634..1be47194e896a6b7479bdb0d87ff0fdca4feb730 100644
--- a/Framework/API/src/Column.cpp
+++ b/Framework/API/src/Column.cpp
@@ -1,9 +1,10 @@
-#include "MantidAPI/Column.h"
-#include "MantidKernel/Logger.h"
#include <algorithm>
#include <iostream>
#include <stdexcept>
+#include "MantidAPI/Column.h"
+#include "MantidKernel/Logger.h"
+
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/ColumnFactory.cpp b/Framework/API/src/ColumnFactory.cpp
index 313dc12290c22ffccf517331d7ef977ee017078e..0ccf9d87644f9eae8158c54502a796b056126038 100644
--- a/Framework/API/src/ColumnFactory.cpp
+++ b/Framework/API/src/ColumnFactory.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <sstream>
#include "MantidAPI/ColumnFactory.h"
#include "MantidAPI/Column.h"
diff --git a/Framework/API/src/CompositeFunction.cpp b/Framework/API/src/CompositeFunction.cpp
index 1f4481e9a01d8316695b22e86fb998f5bd6fbf79..cc2c652fffb579a8086f05f21de5f029e484dbf5 100644
--- a/Framework/API/src/CompositeFunction.cpp
+++ b/Framework/API/src/CompositeFunction.cpp
@@ -11,7 +11,6 @@
#include <boost/lexical_cast.hpp>
#include <boost/shared_array.hpp>
#include <sstream>
-#include <iostream>
#include <algorithm>
namespace Mantid {
diff --git a/Framework/API/src/CostFunctionFactory.cpp b/Framework/API/src/CostFunctionFactory.cpp
index 4037501fa47806b583a605dc79316dba74ac59df..ea0e131e3a024925ddd078ceea612d507ba7759f 100644
--- a/Framework/API/src/CostFunctionFactory.cpp
+++ b/Framework/API/src/CostFunctionFactory.cpp
@@ -1,7 +1,6 @@
#include "MantidAPI/CostFunctionFactory.h"
#include "MantidAPI/ICostFunction.h"
#include "MantidKernel/LibraryManager.h"
-#include <iostream>
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/Expression.cpp b/Framework/API/src/Expression.cpp
index 6343c71404475aeece8d891908fe62bacf0089a6..011dd6d1de37fb0187e93af12e4c6bdf8b95edc6 100644
--- a/Framework/API/src/Expression.cpp
+++ b/Framework/API/src/Expression.cpp
@@ -1,11 +1,11 @@
+#include <iostream>
+#include <locale>
+#include <sstream>
+
#include "MantidAPI/Expression.h"
#include <Poco/StringTokenizer.h>
-#include <sstream>
-#include <iostream>
-#include <locale>
-
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/FileProperty.cpp b/Framework/API/src/FileProperty.cpp
index 064edc4553be3c77255fa167f621d6a2ce83321f..c7baf7b1e2c0920184154db3e92d28a60526fe1a 100644
--- a/Framework/API/src/FileProperty.cpp
+++ b/Framework/API/src/FileProperty.cpp
@@ -13,7 +13,6 @@
#include <Poco/File.h>
#include <cctype>
#include <algorithm>
-#include <iostream>
namespace Mantid {
diff --git a/Framework/API/src/FunctionDomain1D.cpp b/Framework/API/src/FunctionDomain1D.cpp
index 30f8bf1d7d62a1e804ba52781e0bbfefd1f0ccb8..bf466655d6aa17cb8f04bfd4fc5b184b239dcfde 100644
--- a/Framework/API/src/FunctionDomain1D.cpp
+++ b/Framework/API/src/FunctionDomain1D.cpp
@@ -2,7 +2,6 @@
// Includes
//----------------------------------------------------------------------
#include "MantidAPI/FunctionDomain1D.h"
-#include <iostream>
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/FunctionValues.cpp b/Framework/API/src/FunctionValues.cpp
index 0cc95afbdf7ef211be473d844fa13a78fe766e0d..ac8552df041cb1594354e36b4f3c567b1ef4d501 100644
--- a/Framework/API/src/FunctionValues.cpp
+++ b/Framework/API/src/FunctionValues.cpp
@@ -2,7 +2,6 @@
// Includes
//----------------------------------------------------------------------
#include "MantidAPI/FunctionValues.h"
-#include <iostream>
#include <algorithm>
namespace Mantid {
diff --git a/Framework/API/src/GridDomain.cpp b/Framework/API/src/GridDomain.cpp
index 05fafaaf9e6a04f27bfba49accdfaa3891c7f8f6..0d8ed05ee4bfc4e91790da93778e2813c2c82d58 100644
--- a/Framework/API/src/GridDomain.cpp
+++ b/Framework/API/src/GridDomain.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include <numeric>
#include <stdexcept>
diff --git a/Framework/API/src/GridDomain1D.cpp b/Framework/API/src/GridDomain1D.cpp
index 3c9422233f79c4030a38360a040daddb41430bad..a85cf8693256fa8a2462cddaa866d4ede1f44a7c 100644
--- a/Framework/API/src/GridDomain1D.cpp
+++ b/Framework/API/src/GridDomain1D.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include <numeric>
#include "MantidAPI/GridDomain1D.h"
diff --git a/Framework/API/src/IFunction.cpp b/Framework/API/src/IFunction.cpp
index 539b092f3158b652bdc4b3090d57174d106108d8..379ee94adba1b572e0e2f4da29316a1854c2431b 100644
--- a/Framework/API/src/IFunction.cpp
+++ b/Framework/API/src/IFunction.cpp
@@ -28,7 +28,6 @@
#include <limits>
#include <sstream>
-#include <iostream>
#include <algorithm>
namespace Mantid {
diff --git a/Framework/API/src/IFunction1D.cpp b/Framework/API/src/IFunction1D.cpp
index bbab2daccede26d7164e3695574b88a2b04a267b..17bf113464a603be78a63c4b8695f9ec361ade43 100644
--- a/Framework/API/src/IFunction1D.cpp
+++ b/Framework/API/src/IFunction1D.cpp
@@ -23,7 +23,6 @@
#include <boost/lexical_cast.hpp>
#include <sstream>
-#include <iostream>
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/IFunctionMD.cpp b/Framework/API/src/IFunctionMD.cpp
index 83d2d3d433cbad0800754bac801948d0e8127376..6eaacaedfe19bf4119467d3484ee5c61e5c893b1 100644
--- a/Framework/API/src/IFunctionMD.cpp
+++ b/Framework/API/src/IFunctionMD.cpp
@@ -15,7 +15,6 @@
#include <boost/lambda/lambda.hpp>
#include <sstream>
-#include <iostream>
#include <algorithm>
#include <functional>
#include <iterator>
diff --git a/Framework/API/src/IFunctionMW.cpp b/Framework/API/src/IFunctionMW.cpp
index a0c5793f76ac11db357a1182bf87982ed6b343fc..9797475d1d8a0b7a1e60d753a47c4bf2d02dc708 100644
--- a/Framework/API/src/IFunctionMW.cpp
+++ b/Framework/API/src/IFunctionMW.cpp
@@ -4,8 +4,6 @@
#include "MantidAPI/IFunctionMW.h"
#include "MantidAPI/MatrixWorkspace.h"
-#include <iostream>
-
namespace Mantid {
namespace API {
using namespace Geometry;
diff --git a/Framework/API/src/LinearScale.cpp b/Framework/API/src/LinearScale.cpp
index 4d11c0fb96276eec88ab36a6ab73b0f90e16cb8f..4c44e30a040b6730956a30d724482503e512dfd6 100644
--- a/Framework/API/src/LinearScale.cpp
+++ b/Framework/API/src/LinearScale.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include "MantidAPI/LinearScale.h"
#include "MantidAPI/TransformScaleFactory.h"
diff --git a/Framework/API/src/LogarithmScale.cpp b/Framework/API/src/LogarithmScale.cpp
index 1e4abfdd83cf4cd95d0c3f74af6ea6d478c86380..a5eda36399eb32cacca6a4269fc0d435ae948e99 100644
--- a/Framework/API/src/LogarithmScale.cpp
+++ b/Framework/API/src/LogarithmScale.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include <cmath>
#include <stdexcept>
diff --git a/Framework/API/src/ParamFunction.cpp b/Framework/API/src/ParamFunction.cpp
index 8d58067639d218b408ffc3d5b75e281c1e5d5054..2d43466f5d74e0bdace00ac4b65d87091bca9664 100644
--- a/Framework/API/src/ParamFunction.cpp
+++ b/Framework/API/src/ParamFunction.cpp
@@ -11,7 +11,6 @@
#include <boost/math/special_functions/fpclassify.hpp>
#include <sstream>
-#include <iostream>
#include <limits>
namespace Mantid {
diff --git a/Framework/API/src/PeakFunctionIntegrator.cpp b/Framework/API/src/PeakFunctionIntegrator.cpp
index b36896423ffc1f0df2c1a70f2e2409e0d0a2737f..c2dc90a12cb3c1c3e17d42997952a70db00505c8 100644
--- a/Framework/API/src/PeakFunctionIntegrator.cpp
+++ b/Framework/API/src/PeakFunctionIntegrator.cpp
@@ -2,7 +2,6 @@
#include "MantidAPI/FunctionDomain1D.h"
#include "gsl/gsl_errno.h"
-#include <iostream>
#include <iomanip>
namespace Mantid {
diff --git a/Framework/API/src/SpectraAxis.cpp b/Framework/API/src/SpectraAxis.cpp
index ebd17d4b814863a7c485aebd7bcd53028d615b96..43db4d278296bde473f968c07439ed419dac33ca 100644
--- a/Framework/API/src/SpectraAxis.cpp
+++ b/Framework/API/src/SpectraAxis.cpp
@@ -9,7 +9,6 @@
#include "MantidKernel/Unit.h"
#include <boost/lexical_cast.hpp>
-#include <iostream>
namespace Mantid {
namespace API {
diff --git a/Framework/API/src/TempFunction.cpp b/Framework/API/src/TempFunction.cpp
index 4f95ae8ecadf1d6e4c1bd9f6ac5ed4ca09487abf..2e7e30e8f059ed54c476c3826a4a56e933d63962 100644
--- a/Framework/API/src/TempFunction.cpp
+++ b/Framework/API/src/TempFunction.cpp
@@ -8,7 +8,6 @@
#include "MantidAPI/ParameterTie.h"
#include <sstream>
-#include <iostream>
namespace Mantid {
namespace API {
diff --git a/Framework/API/test/AlgorithmPropertyTest.h b/Framework/API/test/AlgorithmPropertyTest.h
index e4f151be0b90b3cb651f69ffbc927b4b132b67db..9d60a2b1cf91eac964a79c32e371cd85156dd2f9 100644
--- a/Framework/API/test/AlgorithmPropertyTest.h
+++ b/Framework/API/test/AlgorithmPropertyTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/AlgorithmProperty.h"
#include "MantidAPI/AlgorithmHasProperty.h"
diff --git a/Framework/API/test/AsynchronousTest.h b/Framework/API/test/AsynchronousTest.h
index 07d419957def311b17ae628b22ec2ad9a22d7ed2..8fa819cea2aa758d9d33218629f3817e6b526f3c 100644
--- a/Framework/API/test/AsynchronousTest.h
+++ b/Framework/API/test/AsynchronousTest.h
@@ -7,7 +7,6 @@
#include <Poco/ActiveResult.h>
#include <Poco/NObserver.h>
#include <Poco/Thread.h>
-#include <iostream>
using namespace Mantid::Kernel;
using namespace Mantid::API;
diff --git a/Framework/API/test/CoordTransformTest.h b/Framework/API/test/CoordTransformTest.h
index 7ce04f333e9bb5231b87e9a69f89d92b207acd5b..8f8e2fc42a00ae3712d8fcafdfcb4b517a42fb6f 100644
--- a/Framework/API/test/CoordTransformTest.h
+++ b/Framework/API/test/CoordTransformTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidAPI/CoordTransform.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
diff --git a/Framework/API/test/DataProcessorAlgorithmTest.h b/Framework/API/test/DataProcessorAlgorithmTest.h
index 804ca82f23e26c0b7ef4be0708aaa112229e0bb4..a3c689e8603c6571ba42fca3897c00ee1b8f06c0 100644
--- a/Framework/API/test/DataProcessorAlgorithmTest.h
+++ b/Framework/API/test/DataProcessorAlgorithmTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/DataProcessorAlgorithm.h"
#include "MantidTestHelpers/FakeObjects.h"
diff --git a/Framework/API/test/EnabledWhenWorkspaceIsTypeTest.h b/Framework/API/test/EnabledWhenWorkspaceIsTypeTest.h
index 5df2c41eb7718f0b4c700be482d9d024717d71db..790b55da1cd11f1a09fb4686ce73669a113d2c23 100644
--- a/Framework/API/test/EnabledWhenWorkspaceIsTypeTest.h
+++ b/Framework/API/test/EnabledWhenWorkspaceIsTypeTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/EnabledWhenWorkspaceIsType.h"
#include "MantidKernel/PropertyManagerOwner.h"
diff --git a/Framework/API/test/FermiChopperModelTest.h b/Framework/API/test/FermiChopperModelTest.h
index 35e1ae34c2f93fb4fb305913f3d5185625f16489..527a4c39080c18287032ac7242f7913378380252 100644
--- a/Framework/API/test/FermiChopperModelTest.h
+++ b/Framework/API/test/FermiChopperModelTest.h
@@ -7,7 +7,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
#include <boost/make_shared.hpp>
-#include <iomanip>
class FermiChopperModelTest : public CxxTest::TestSuite {
typedef boost::shared_ptr<Mantid::API::FermiChopperModel>
diff --git a/Framework/API/test/FrameworkManagerTest.h b/Framework/API/test/FrameworkManagerTest.h
index fedbaf2891fc0ba1610469fcbf937719b6c79439..3f1b01767973cf26e96b0c981b75524d6637a4cd 100644
--- a/Framework/API/test/FrameworkManagerTest.h
+++ b/Framework/API/test/FrameworkManagerTest.h
@@ -7,7 +7,6 @@
#include "MantidAPI/Algorithm.h"
#include "MantidAPI/AlgorithmFactory.h"
#include <stdexcept>
-#include <iostream>
using namespace Mantid::Kernel;
using namespace Mantid::API;
diff --git a/Framework/API/test/FunctionDomainTest.h b/Framework/API/test/FunctionDomainTest.h
index 46c8dbbadf6e28456a3c968385ce00daca2d4ee8..cd9d99bfe53cc630a2ef9e7724eb54661fbb2d50 100644
--- a/Framework/API/test/FunctionDomainTest.h
+++ b/Framework/API/test/FunctionDomainTest.h
@@ -6,7 +6,6 @@
#include "MantidAPI/WorkspaceFactory.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/API/test/FunctionValuesTest.h b/Framework/API/test/FunctionValuesTest.h
index ece5090d9bd93389cef3a8c2661370baf6b9357e..30cf805f718630b56445ef5023770a961ee242af 100644
--- a/Framework/API/test/FunctionValuesTest.h
+++ b/Framework/API/test/FunctionValuesTest.h
@@ -5,7 +5,6 @@
#include "MantidAPI/FunctionValues.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/API/test/IEventListTest.h b/Framework/API/test/IEventListTest.h
index ab960042e57a6ba53e51287cc9325f68772665b8..334ed6e3fa4a86071df3fddd7fdcab48e346b52f 100644
--- a/Framework/API/test/IEventListTest.h
+++ b/Framework/API/test/IEventListTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/IEventList.h"
diff --git a/Framework/API/test/IFunction1DTest.h b/Framework/API/test/IFunction1DTest.h
index b2b55489f115efe91733659fbfcc976894144d12..0eabfc571e2426ff5d88daf58194b5b44b483af0 100644
--- a/Framework/API/test/IFunction1DTest.h
+++ b/Framework/API/test/IFunction1DTest.h
@@ -7,7 +7,6 @@
#include "MantidAPI/FunctionValues.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/API/test/IFunctionMDTest.h b/Framework/API/test/IFunctionMDTest.h
index 7e21a71544b6c00d753d3c84569ff0d39f030718..e3f563fc1b2ae5abf73f25c641ddd945b92231ef 100644
--- a/Framework/API/test/IFunctionMDTest.h
+++ b/Framework/API/test/IFunctionMDTest.h
@@ -3,7 +3,6 @@
#include "MantidAPI/IFunctionMD.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/API/test/ISpectrumTest.h b/Framework/API/test/ISpectrumTest.h
index fea22024ddb8eb5f10fff49c0b779e37b8847b62..625bb42f14effd62927747b787daf18bc68e7560 100644
--- a/Framework/API/test/ISpectrumTest.h
+++ b/Framework/API/test/ISpectrumTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/ISpectrum.h"
#include "MantidTestHelpers/FakeObjects.h"
diff --git a/Framework/API/test/ImplicitFunctionFactoryTest.h b/Framework/API/test/ImplicitFunctionFactoryTest.h
index abcea3ce1f0f072d8cf59902a1c46fd0328a3130..1b1ef4b16c3edec28973ea152eac3c2d655d4662 100644
--- a/Framework/API/test/ImplicitFunctionFactoryTest.h
+++ b/Framework/API/test/ImplicitFunctionFactoryTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <vector>
-#include <iostream>
#include <gmock/gmock.h>
#include <gtest/gtest.h>
#include "MantidAPI/ImplicitFunctionParameterParserFactory.h"
diff --git a/Framework/API/test/ImplicitFunctionParameterParserFactoryTest.h b/Framework/API/test/ImplicitFunctionParameterParserFactoryTest.h
index 2362545a857d9eb24b4fe7c6c24a96967247ff16..976ea132f0f0f15ebe5ece1a549f9316f02503c8 100644
--- a/Framework/API/test/ImplicitFunctionParameterParserFactoryTest.h
+++ b/Framework/API/test/ImplicitFunctionParameterParserFactoryTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <vector>
-#include <iostream>
#include "MantidAPI/ImplicitFunctionParameterParserFactory.h"
#include "MantidKernel/ConfigService.h"
diff --git a/Framework/API/test/ImplicitFunctionParserFactoryTest.h b/Framework/API/test/ImplicitFunctionParserFactoryTest.h
index 009e0409d808a776f71167bfeafc787c23144933..4cee2938158750b662185866d43df80864ccaee5 100644
--- a/Framework/API/test/ImplicitFunctionParserFactoryTest.h
+++ b/Framework/API/test/ImplicitFunctionParserFactoryTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <vector>
-#include <iostream>
#include "MantidAPI/ImplicitFunctionParserFactory.h"
#include "MantidKernel/ConfigService.h"
diff --git a/Framework/API/test/InstrumentDataServiceTest.h b/Framework/API/test/InstrumentDataServiceTest.h
index 27b411e76d9f18c3cc391d3e442040255d443177..034b18bd9e3e82e909e45ebd6126a6385e930378 100644
--- a/Framework/API/test/InstrumentDataServiceTest.h
+++ b/Framework/API/test/InstrumentDataServiceTest.h
@@ -6,7 +6,6 @@
#include "MantidAPI/InstrumentDataService.h"
#include "MantidGeometry/Instrument.h"
#include "MantidKernel/Exception.h"
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Geometry;
diff --git a/Framework/API/test/MDGeometryTest.h b/Framework/API/test/MDGeometryTest.h
index 126b2e28d6d673775b4ad5c2846bffb305e80b67..a933cffc4b1c7135d5d45caf1c2ad7a91196e7fc 100644
--- a/Framework/API/test/MDGeometryTest.h
+++ b/Framework/API/test/MDGeometryTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidKernel/VMD.h"
#include "MantidAPI/IMDWorkspace.h"
#include "MantidTestHelpers/FakeObjects.h"
diff --git a/Framework/API/test/MultiDomainFunctionTest.h b/Framework/API/test/MultiDomainFunctionTest.h
index 87109b8220ae6c9f94d091b4f71d324c735d6d8e..933a23c22919bdcc74644e49d0e01380f70e581b 100644
--- a/Framework/API/test/MultiDomainFunctionTest.h
+++ b/Framework/API/test/MultiDomainFunctionTest.h
@@ -12,7 +12,6 @@
#include <cxxtest/TestSuite.h>
#include <boost/make_shared.hpp>
#include <algorithm>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/API/test/MultipleExperimentInfosTest.h b/Framework/API/test/MultipleExperimentInfosTest.h
index 3fce4df593320f676185a5ae235905f31198423f..8198fa528b1dd7ba8cd6857d51b54146a5853e10 100644
--- a/Framework/API/test/MultipleExperimentInfosTest.h
+++ b/Framework/API/test/MultipleExperimentInfosTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/MultipleExperimentInfos.h"
#include "MantidAPI/ExperimentInfo.h"
diff --git a/Framework/API/test/MultipleFilePropertyTest.h b/Framework/API/test/MultipleFilePropertyTest.h
index 2ce77d3b8b50206a702c91cd360d098b2cd8f601..77497dad7d45281d627dca5d0365d68e5122f8b9 100644
--- a/Framework/API/test/MultipleFilePropertyTest.h
+++ b/Framework/API/test/MultipleFilePropertyTest.h
@@ -8,8 +8,6 @@
#include "MantidKernel/Logger.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/Path.h>
#include <Poco/File.h>
diff --git a/Framework/API/test/PropertyManagerDataServiceTest.h b/Framework/API/test/PropertyManagerDataServiceTest.h
index 6596e9bb84d4dabe351351fdd5836b0ce35f833f..77063af16abb294dac4c712d26bf36f8a8b730a9 100644
--- a/Framework/API/test/PropertyManagerDataServiceTest.h
+++ b/Framework/API/test/PropertyManagerDataServiceTest.h
@@ -6,7 +6,6 @@
#include "MantidAPI/PropertyManagerDataService.h"
#include "MantidKernel/PropertyManager.h"
#include "MantidKernel/Exception.h"
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/Framework/API/test/PropertyNexusTest.h b/Framework/API/test/PropertyNexusTest.h
index ce4c2492ec4923855f7644efb63fad97440979d1..7d21f82e8d1e445695fd63d528c71965c92a90a0 100644
--- a/Framework/API/test/PropertyNexusTest.h
+++ b/Framework/API/test/PropertyNexusTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidTestHelpers/NexusTestHelper.h"
#include "MantidKernel/PropertyWithValue.h"
#include "MantidKernel/TimeSeriesProperty.h"
diff --git a/Framework/API/test/WorkspaceFactoryTest.h b/Framework/API/test/WorkspaceFactoryTest.h
index a3aa58f0d0f8a116a7bdc00c70a7f382550a0b1e..8ec2978f7ba3d5ec9d557c22b7e20cce5a98939d 100644
--- a/Framework/API/test/WorkspaceFactoryTest.h
+++ b/Framework/API/test/WorkspaceFactoryTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <vector>
-#include <iostream>
#include "MantidAPI/MatrixWorkspace.h"
#include "MantidAPI/WorkspaceFactory.h"
diff --git a/Framework/API/test/WorkspaceGroupTest.h b/Framework/API/test/WorkspaceGroupTest.h
index 1feaa40e635b349a92063823ee8e65be0763c03b..f14a8d18889924d490797a14eac2981f925c289d 100644
--- a/Framework/API/test/WorkspaceGroupTest.h
+++ b/Framework/API/test/WorkspaceGroupTest.h
@@ -10,8 +10,6 @@
#include <boost/shared_ptr.hpp>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <gmock/gmock.h>
#include <gtest/gtest.h>
diff --git a/Framework/Algorithms/src/ApplyDeadTimeCorr.cpp b/Framework/Algorithms/src/ApplyDeadTimeCorr.cpp
index 965faf0ceef9ded21cb212d42aabd907ce5afba8..dc16356c68ae91486b5b8bd4ef90c9de1f890ca2 100644
--- a/Framework/Algorithms/src/ApplyDeadTimeCorr.cpp
+++ b/Framework/Algorithms/src/ApplyDeadTimeCorr.cpp
@@ -10,7 +10,6 @@
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/TableRow.h"
-#include <iostream>
#include <cmath>
using std::string;
diff --git a/Framework/Algorithms/src/ApplyDetailedBalance.cpp b/Framework/Algorithms/src/ApplyDetailedBalance.cpp
index 2b90b823acdeba3ed5cc7c0bbef913a6ce99822f..c5fdf2865461f3cc9e980fff8852b5752c050111 100644
--- a/Framework/Algorithms/src/ApplyDetailedBalance.cpp
+++ b/Framework/Algorithms/src/ApplyDetailedBalance.cpp
@@ -3,7 +3,6 @@
#include "MantidKernel/TimeSeriesProperty.h"
#include "MantidKernel/PropertyWithValue.h"
#include "boost/lexical_cast.hpp"
-#include <iostream>
#include <cmath>
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidKernel/PhysicalConstants.h"
diff --git a/Framework/Algorithms/src/ConvertUnits.cpp b/Framework/Algorithms/src/ConvertUnits.cpp
index d2148cfe5d8abd26e8e9700d57ca93b2369ef7aa..5a3012b50bf12fd6d09b9c2ec60fa77d618e4450 100644
--- a/Framework/Algorithms/src/ConvertUnits.cpp
+++ b/Framework/Algorithms/src/ConvertUnits.cpp
@@ -12,7 +12,6 @@
#include <boost/bind.hpp>
#include <boost/math/special_functions/fpclassify.hpp>
#include <cfloat>
-#include <iostream>
#include <limits>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
diff --git a/Framework/Algorithms/src/ConvertUnitsUsingDetectorTable.cpp b/Framework/Algorithms/src/ConvertUnitsUsingDetectorTable.cpp
index d358c6406bce6bfd00151a615d4660cae9e9e663..33c06ad4900fe13d0916b6ad17ddba9f0de2b792 100644
--- a/Framework/Algorithms/src/ConvertUnitsUsingDetectorTable.cpp
+++ b/Framework/Algorithms/src/ConvertUnitsUsingDetectorTable.cpp
@@ -20,7 +20,6 @@
#include <boost/bind.hpp>
#include <boost/math/special_functions/fpclassify.hpp>
#include <cfloat>
-#include <iostream>
#include <limits>
#include <vector>
#include <algorithm>
diff --git a/Framework/Algorithms/src/CopyInstrumentParameters.cpp b/Framework/Algorithms/src/CopyInstrumentParameters.cpp
index bef54b26b61d390de90d3235d31ca33e96ed63fa..2eacc15ba853740c203f3637ffc7799c849f1eb8 100644
--- a/Framework/Algorithms/src/CopyInstrumentParameters.cpp
+++ b/Framework/Algorithms/src/CopyInstrumentParameters.cpp
@@ -3,7 +3,6 @@
//----------------------------------------------------------------------
#include "MantidAlgorithms/CopyInstrumentParameters.h"
#include "MantidAPI/WorkspaceValidators.h"
-#include <iostream>
#include "MantidAPI/MemoryManager.h"
#include "MantidGeometry/Instrument/ParameterMap.h"
diff --git a/Framework/Algorithms/src/CreateCalFileByNames.cpp b/Framework/Algorithms/src/CreateCalFileByNames.cpp
index 2f4abb226ec85f5aef08cc5223318f131eb40ab7..67e006535d12ca43b1fb4eafdb6e54221b0039fc 100644
--- a/Framework/Algorithms/src/CreateCalFileByNames.cpp
+++ b/Framework/Algorithms/src/CreateCalFileByNames.cpp
@@ -11,7 +11,6 @@
#include <boost/algorithm/string/detail/classification.hpp>
#include <boost/algorithm/string/split.hpp>
#include <fstream>
-#include <iomanip>
#include <queue>
using namespace Mantid::API;
diff --git a/Framework/Algorithms/src/CreateDummyCalFile.cpp b/Framework/Algorithms/src/CreateDummyCalFile.cpp
index f64c069ce29a67747a3be06f9851b44958b5ea43..d7c9020aaf9ecfded65339768e765ff11d20f89b 100644
--- a/Framework/Algorithms/src/CreateDummyCalFile.cpp
+++ b/Framework/Algorithms/src/CreateDummyCalFile.cpp
@@ -10,7 +10,6 @@
#include <queue>
#include <fstream>
-#include <iomanip>
#include <Poco/DOM/DOMParser.h>
#include <Poco/DOM/Document.h>
#include <Poco/DOM/Element.h>
diff --git a/Framework/Algorithms/src/CreateLogTimeCorrection.cpp b/Framework/Algorithms/src/CreateLogTimeCorrection.cpp
index 7bab28c41c75aeadf727acba8ff964ee218bc009..61264770e98c0f19d4d10fa338cb55089cdc61cc 100644
--- a/Framework/Algorithms/src/CreateLogTimeCorrection.cpp
+++ b/Framework/Algorithms/src/CreateLogTimeCorrection.cpp
@@ -5,7 +5,6 @@
#include "MantidAPI/WorkspaceValidators.h"
#include <fstream>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/src/CropWorkspace.cpp b/Framework/Algorithms/src/CropWorkspace.cpp
index c37de109ab25f84bed0ed13def1e260481e364ec..3107951ca432f29feac24ceccab5fc3f58e8f14e 100644
--- a/Framework/Algorithms/src/CropWorkspace.cpp
+++ b/Framework/Algorithms/src/CropWorkspace.cpp
@@ -7,7 +7,6 @@
#include "MantidAPI/NumericAxis.h"
#include "MantidAPI/TextAxis.h"
#include "MantidKernel/VectorHelper.h"
-#include <iostream>
#include "MantidAPI/MemoryManager.h"
#include "MantidKernel/BoundedValidator.h"
diff --git a/Framework/Algorithms/src/DiffractionEventCalibrateDetectors.cpp b/Framework/Algorithms/src/DiffractionEventCalibrateDetectors.cpp
index e27473a81d6a40dc83dbd48e4ffa764a9ae6c76b..050b93edf61f6f0828e8575212e2fef0bb6385f9 100644
--- a/Framework/Algorithms/src/DiffractionEventCalibrateDetectors.cpp
+++ b/Framework/Algorithms/src/DiffractionEventCalibrateDetectors.cpp
@@ -16,7 +16,6 @@
#include "MantidKernel/Exception.h"
#include "MantidKernel/UnitFactory.h"
#include <cmath>
-#include <iomanip>
#include <numeric>
#include <Poco/File.h>
#include <sstream>
diff --git a/Framework/Algorithms/src/ExtractSpectra.cpp b/Framework/Algorithms/src/ExtractSpectra.cpp
index d342b94ce3d687354bc9e51ab1dd04b73aa0c595..c797b9b7bcc98937545883f26f19445063a055fe 100644
--- a/Framework/Algorithms/src/ExtractSpectra.cpp
+++ b/Framework/Algorithms/src/ExtractSpectra.cpp
@@ -9,7 +9,6 @@
#include "MantidKernel/VectorHelper.h"
#include <algorithm>
-#include <iostream>
namespace {
/// The percentage 'fuzziness' to use when comparing to bin boundaries
diff --git a/Framework/Algorithms/src/FFTSmooth.cpp b/Framework/Algorithms/src/FFTSmooth.cpp
index 9069be1a52b98c0c5a031aaaa63f29c3ab59f907..6f7291d1a208763a3da79b6080807cfb5159a19a 100644
--- a/Framework/Algorithms/src/FFTSmooth.cpp
+++ b/Framework/Algorithms/src/FFTSmooth.cpp
@@ -4,7 +4,6 @@
#include "MantidAlgorithms/FFTSmooth.h"
#include "MantidKernel/Exception.h"
-#include <iostream>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
diff --git a/Framework/Algorithms/src/FFTSmooth2.cpp b/Framework/Algorithms/src/FFTSmooth2.cpp
index 745441a1a978f70d2bb620b9aef5093fd7987b93..88c68e75e13ed5e324dfa660dd30ee2f716587e9 100644
--- a/Framework/Algorithms/src/FFTSmooth2.cpp
+++ b/Framework/Algorithms/src/FFTSmooth2.cpp
@@ -6,7 +6,6 @@
#include <boost/algorithm/string/split.hpp>
#include <boost/algorithm/string/detail/classification.hpp>
-#include <iostream>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
diff --git a/Framework/Algorithms/src/FindCenterOfMassPosition.cpp b/Framework/Algorithms/src/FindCenterOfMassPosition.cpp
index 726ed0e305dc1fd1dffe4db680eb579e1ea90248..20964f31e5edb860cb8fe394702e34a10fd2bf40 100644
--- a/Framework/Algorithms/src/FindCenterOfMassPosition.cpp
+++ b/Framework/Algorithms/src/FindCenterOfMassPosition.cpp
@@ -10,7 +10,6 @@
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/TableRow.h"
-#include <iostream>
#include <vector>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/NullValidator.h"
diff --git a/Framework/Algorithms/src/FindCenterOfMassPosition2.cpp b/Framework/Algorithms/src/FindCenterOfMassPosition2.cpp
index 3a69693e0496f0caf17d79596191e88b393c4816..76bb448c085867c580f713ca6f2cac06bf06b5d0 100644
--- a/Framework/Algorithms/src/FindCenterOfMassPosition2.cpp
+++ b/Framework/Algorithms/src/FindCenterOfMassPosition2.cpp
@@ -10,7 +10,6 @@
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/TableRow.h"
-#include <iostream>
#include <vector>
#include "MantidDataObjects/EventWorkspace.h"
#include "MantidDataObjects/EventList.h"
diff --git a/Framework/Algorithms/src/FindPeaks.cpp b/Framework/Algorithms/src/FindPeaks.cpp
index d352b14d85dc025fc8fdf57b416c08c3286f20f5..5273c255ad5a789f30717cbfeeecadd6d5e8a8ba 100644
--- a/Framework/Algorithms/src/FindPeaks.cpp
+++ b/Framework/Algorithms/src/FindPeaks.cpp
@@ -15,7 +15,6 @@
#include "MantidKernel/VectorHelper.h"
#include <boost/algorithm/string.hpp>
-#include <iostream>
#include <numeric>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
diff --git a/Framework/Algorithms/src/GetDetOffsetsMultiPeaks.cpp b/Framework/Algorithms/src/GetDetOffsetsMultiPeaks.cpp
index 871287bc800a8a738f7b1fa3df3092281f236a9d..07e9673ba2151c55e0ce2beec63f3c18a07106b6 100644
--- a/Framework/Algorithms/src/GetDetOffsetsMultiPeaks.cpp
+++ b/Framework/Algorithms/src/GetDetOffsetsMultiPeaks.cpp
@@ -18,7 +18,6 @@
#include "MantidKernel/Statistics.h"
#include <boost/math/special_functions/fpclassify.hpp>
#include <fstream>
-#include <iomanip>
#include <ostream>
#include <sstream>
diff --git a/Framework/Algorithms/src/GetDetectorOffsets.cpp b/Framework/Algorithms/src/GetDetectorOffsets.cpp
index 0739b7dcb86840ed71bd514ddc3f68474ef34b40..86b595c4c5f14faae0dbdcaa28a8cc7e20b7390b 100644
--- a/Framework/Algorithms/src/GetDetectorOffsets.cpp
+++ b/Framework/Algorithms/src/GetDetectorOffsets.cpp
@@ -9,7 +9,6 @@
#include "MantidDataObjects/MaskWorkspace.h"
#include <boost/math/special_functions/fpclassify.hpp>
#include <fstream>
-#include <iomanip>
#include <ostream>
#include <sstream>
#include "MantidKernel/BoundedValidator.h"
diff --git a/Framework/Algorithms/src/MaskDetectorsIf.cpp b/Framework/Algorithms/src/MaskDetectorsIf.cpp
index e1000af59a0619c255f70bb0fb43a623f8df18d3..209f7a9873e4ecf268d92c43d65b3c901946a116 100644
--- a/Framework/Algorithms/src/MaskDetectorsIf.cpp
+++ b/Framework/Algorithms/src/MaskDetectorsIf.cpp
@@ -5,7 +5,6 @@
#include "MantidAPI/FileProperty.h"
#include "MantidAPI/WorkspaceValidators.h"
#include <fstream>
-#include <iomanip>
#include "MantidKernel/ListValidator.h"
namespace Mantid {
diff --git a/Framework/Algorithms/src/MultipleScatteringCylinderAbsorption.cpp b/Framework/Algorithms/src/MultipleScatteringCylinderAbsorption.cpp
index 8196bf18e08d6754edea5470996e378104f0ff87..5008df1b96ebf2bd8e1614d101794a1e297f951d 100644
--- a/Framework/Algorithms/src/MultipleScatteringCylinderAbsorption.cpp
+++ b/Framework/Algorithms/src/MultipleScatteringCylinderAbsorption.cpp
@@ -7,7 +7,6 @@
#include "MantidKernel/Exception.h"
#include "MantidKernel/PhysicalConstants.h"
-#include <iostream>
#include <stdexcept>
namespace Mantid {
diff --git a/Framework/Algorithms/src/NormaliseToMonitor.cpp b/Framework/Algorithms/src/NormaliseToMonitor.cpp
index 82031ba8347b9eb2ddd7937f7cf2cb77187c3407..d870469b1b28ec7a149c662388c9c2b5a19582f4 100644
--- a/Framework/Algorithms/src/NormaliseToMonitor.cpp
+++ b/Framework/Algorithms/src/NormaliseToMonitor.cpp
@@ -11,7 +11,6 @@
#include "MantidKernel/BoundedValidator.h"
#include <cfloat>
-#include <iomanip>
#include "MantidDataObjects/EventWorkspace.h"
#include "MantidKernel/IPropertyManager.h"
diff --git a/Framework/Algorithms/src/Q1DTOF.cpp b/Framework/Algorithms/src/Q1DTOF.cpp
index 955a8a9fccf0cf05d4b31a9d545874766024681f..50108eb2adb7980284588e2ae4b304820d968277 100644
--- a/Framework/Algorithms/src/Q1DTOF.cpp
+++ b/Framework/Algorithms/src/Q1DTOF.cpp
@@ -9,7 +9,6 @@
#include "MantidKernel/VectorHelper.h"
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidDataObjects/Histogram1D.h"
-#include <iostream>
#include <vector>
namespace Mantid {
diff --git a/Framework/Algorithms/src/Q1DWeighted.cpp b/Framework/Algorithms/src/Q1DWeighted.cpp
index dcae515bf495122405f6551b330227e5e7004369..daa445af929575b29064d677926b51b6809aef40 100644
--- a/Framework/Algorithms/src/Q1DWeighted.cpp
+++ b/Framework/Algorithms/src/Q1DWeighted.cpp
@@ -9,7 +9,6 @@
#include "MantidKernel/VectorHelper.h"
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidDataObjects/Histogram1D.h"
-#include <iostream>
#include <vector>
#include "MantidKernel/BoundedValidator.h"
diff --git a/Framework/Algorithms/src/RealFFT.cpp b/Framework/Algorithms/src/RealFFT.cpp
index dd320924de112004568649095472b726f0a27175..db2466098cdddc8f484617e71753980efc541489 100644
--- a/Framework/Algorithms/src/RealFFT.cpp
+++ b/Framework/Algorithms/src/RealFFT.cpp
@@ -20,7 +20,6 @@
#include <functional>
#include <cmath>
-#include <iostream>
#include "MantidKernel/BoundedValidator.h"
#include "MantidKernel/ListValidator.h"
diff --git a/Framework/Algorithms/src/Regroup.cpp b/Framework/Algorithms/src/Regroup.cpp
index 6d966fdc523f27770b3b91f94ba667295a878c57..b3997f78f68c2899f31e85d3f23a45da697091dc 100644
--- a/Framework/Algorithms/src/Regroup.cpp
+++ b/Framework/Algorithms/src/Regroup.cpp
@@ -12,8 +12,6 @@
#include <functional>
#include <cmath>
-#include <iostream>
-
namespace Mantid {
namespace Algorithms {
diff --git a/Framework/Algorithms/src/SANSDirectBeamScaling.cpp b/Framework/Algorithms/src/SANSDirectBeamScaling.cpp
index a9fb178f996daab9131644466dbc848194ccc28d..f603aaed91cd7ed1293125ae4dbe3e8ff5713713 100644
--- a/Framework/Algorithms/src/SANSDirectBeamScaling.cpp
+++ b/Framework/Algorithms/src/SANSDirectBeamScaling.cpp
@@ -9,7 +9,6 @@
#include "MantidKernel/VectorHelper.h"
#include "MantidAPI/WorkspaceValidators.h"
#include "MantidDataObjects/Histogram1D.h"
-#include <iostream>
#include <vector>
#include "MantidKernel/BoundedValidator.h"
diff --git a/Framework/Algorithms/src/SaveGSASInstrumentFile.cpp b/Framework/Algorithms/src/SaveGSASInstrumentFile.cpp
index 4416295a73bb03f8bb68cd77b2462f3793be2672..8fc922fe4b86c0cb05f950d0b1c1e4dcb56f8633 100644
--- a/Framework/Algorithms/src/SaveGSASInstrumentFile.cpp
+++ b/Framework/Algorithms/src/SaveGSASInstrumentFile.cpp
@@ -7,7 +7,6 @@
#include "MantidAPI/TableRow.h"
#include <stdio.h>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/src/SolidAngle.cpp b/Framework/Algorithms/src/SolidAngle.cpp
index e5d33e7c4ea19d7e870f3e8dab416de32957dcaf..43b76ee1ee8f49476722d268e6d5b66e4a705ed5 100644
--- a/Framework/Algorithms/src/SolidAngle.cpp
+++ b/Framework/Algorithms/src/SolidAngle.cpp
@@ -6,7 +6,6 @@
#include "MantidAPI/AlgorithmFactory.h"
#include "MantidKernel/UnitFactory.h"
#include <cfloat>
-#include <iostream>
#include "MantidKernel/BoundedValidator.h"
namespace Mantid {
diff --git a/Framework/Algorithms/src/SpatialGrouping.cpp b/Framework/Algorithms/src/SpatialGrouping.cpp
index 4d53df627419b0f09deb592e119f74a57722f2b5..bfc5744a0057e65726562e3ea35f78cf57fdcaea 100644
--- a/Framework/Algorithms/src/SpatialGrouping.cpp
+++ b/Framework/Algorithms/src/SpatialGrouping.cpp
@@ -12,7 +12,6 @@
#include <map>
#include <fstream>
-#include <iostream>
#include <algorithm>
#include "MantidAPI/ISpectrum.h"
diff --git a/Framework/Algorithms/test/AddLogDerivativeTest.h b/Framework/Algorithms/test/AddLogDerivativeTest.h
index 696e229ef732202944c3ca59c3ee35e4cf802bab..4d83e735cc5a6c71f92b432f70c620b418e92612 100644
--- a/Framework/Algorithms/test/AddLogDerivativeTest.h
+++ b/Framework/Algorithms/test/AddLogDerivativeTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidKernel/TimeSeriesProperty.h"
#include "MantidAPI/Run.h"
diff --git a/Framework/Algorithms/test/AddPeakTest.h b/Framework/Algorithms/test/AddPeakTest.h
index b534469ba4a7dd882a055477a1723d877e767a89..230ff5a306dd0ad8b440eafb01b6a138a7eb6636 100644
--- a/Framework/Algorithms/test/AddPeakTest.h
+++ b/Framework/Algorithms/test/AddPeakTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Algorithms;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/test/ApplyDetailedBalanceTest.h b/Framework/Algorithms/test/ApplyDetailedBalanceTest.h
index da83e4b77c51d3251aa5d34e9371ce4946ff9528..e3880bcc1be4d6bd7fdb4ecb90d162340e6ef62f 100644
--- a/Framework/Algorithms/test/ApplyDetailedBalanceTest.h
+++ b/Framework/Algorithms/test/ApplyDetailedBalanceTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/AlgorithmManager.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidDataObjects/Workspace2D.h"
diff --git a/Framework/Algorithms/test/BinaryOperateMasksTest.h b/Framework/Algorithms/test/BinaryOperateMasksTest.h
index f60456beac5c99231392d52d9992c7f7a7228317..3218fb7d2004334ffd9924da9dcb0f329759f3be 100644
--- a/Framework/Algorithms/test/BinaryOperateMasksTest.h
+++ b/Framework/Algorithms/test/BinaryOperateMasksTest.h
@@ -9,8 +9,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidGeometry/Instrument.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::Algorithms;
diff --git a/Framework/Algorithms/test/ChangeBinOffsetTest.h b/Framework/Algorithms/test/ChangeBinOffsetTest.h
index faa21e602c8c705beaa8618303f3a9614946623a..04c89a554fa00f98635771a6689eede83947a549 100644
--- a/Framework/Algorithms/test/ChangeBinOffsetTest.h
+++ b/Framework/Algorithms/test/ChangeBinOffsetTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <sstream>
#include <string>
diff --git a/Framework/Algorithms/test/ChangePulsetimeTest.h b/Framework/Algorithms/test/ChangePulsetimeTest.h
index 17f8e42eecfb1a142f4ffadb772318c09f3ba037..b7a80e0d95fd2d025637be98fac7a12db7d7a441 100644
--- a/Framework/Algorithms/test/ChangePulsetimeTest.h
+++ b/Framework/Algorithms/test/ChangePulsetimeTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/ChangePulsetime.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/Algorithms/test/ConvertToEventWorkspaceTest.h b/Framework/Algorithms/test/ConvertToEventWorkspaceTest.h
index d37652d9f1e0785210cf4725324aea08bdf5aae1..f32dac5f19a814a9a4a18cd6cffcaf96b7f63aa3 100644
--- a/Framework/Algorithms/test/ConvertToEventWorkspaceTest.h
+++ b/Framework/Algorithms/test/ConvertToEventWorkspaceTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/ConvertToEventWorkspace.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/Algorithms/test/CountEventsInPulsesTest.h b/Framework/Algorithms/test/CountEventsInPulsesTest.h
index b3db88e1ac1097e93eed54b00efe117180c76f45..1b49e7ebe0b8ab3575d0a3216ade2182ffcd87f4 100644
--- a/Framework/Algorithms/test/CountEventsInPulsesTest.h
+++ b/Framework/Algorithms/test/CountEventsInPulsesTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/CountEventsInPulses.h"
#include "MantidKernel/TimeSeriesProperty.h"
diff --git a/Framework/Algorithms/test/CreateGroupingWorkspaceTest.h b/Framework/Algorithms/test/CreateGroupingWorkspaceTest.h
index 2854070451cbc5344e3a04442d38b0ad323de981..2b4f978934c39683d39cf19fa83376d8392b353e 100644
--- a/Framework/Algorithms/test/CreateGroupingWorkspaceTest.h
+++ b/Framework/Algorithms/test/CreateGroupingWorkspaceTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidAPI/FrameworkManager.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Algorithms;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/test/CreatePeaksWorkspaceTest.h b/Framework/Algorithms/test/CreatePeaksWorkspaceTest.h
index 7d8e9eebeb17f66a2b2402c349ee3e0a54cdf5bc..fb822c6164ebbbadbabd9a0d2122949994cd6cc2 100644
--- a/Framework/Algorithms/test/CreatePeaksWorkspaceTest.h
+++ b/Framework/Algorithms/test/CreatePeaksWorkspaceTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Algorithms;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/test/DetectorEfficiencyVariationTest.h b/Framework/Algorithms/test/DetectorEfficiencyVariationTest.h
index d7fee9f63a94238ce292056e2639e3645b26fe0e..182decc0f49d5d126bac8e09d779e1700a1e2b0d 100644
--- a/Framework/Algorithms/test/DetectorEfficiencyVariationTest.h
+++ b/Framework/Algorithms/test/DetectorEfficiencyVariationTest.h
@@ -14,8 +14,6 @@
#include <boost/lexical_cast.hpp>
#include <Poco/Path.h>
#include <cmath>
-#include <iomanip>
-#include <iostream>
#include <sstream>
#include <fstream>
#include <ios>
diff --git a/Framework/Algorithms/test/DiffractionEventCalibrateDetectorsTest.h b/Framework/Algorithms/test/DiffractionEventCalibrateDetectorsTest.h
index 0823a4f301089d49f318dabca7f530a59011d876..41a0dfbd9d22b7841d0f5f01d9509ae410ba25e5 100644
--- a/Framework/Algorithms/test/DiffractionEventCalibrateDetectorsTest.h
+++ b/Framework/Algorithms/test/DiffractionEventCalibrateDetectorsTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Algorithms/test/EditInstrumentGeometryTest.h b/Framework/Algorithms/test/EditInstrumentGeometryTest.h
index d801edecc2755a6cd031a6cc9c6e3f5692c9f4da..f0ba68a4ee1ab17000994576f0c510f38bb09431 100644
--- a/Framework/Algorithms/test/EditInstrumentGeometryTest.h
+++ b/Framework/Algorithms/test/EditInstrumentGeometryTest.h
@@ -10,8 +10,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::Algorithms;
diff --git a/Framework/Algorithms/test/ElasticWindowTest.h b/Framework/Algorithms/test/ElasticWindowTest.h
index babe4b95bd131a07883da6bb3c49af63cfb9c7fd..6d9d4c8ecd9a58b3940de945b0cfd37f2a6632bf 100644
--- a/Framework/Algorithms/test/ElasticWindowTest.h
+++ b/Framework/Algorithms/test/ElasticWindowTest.h
@@ -3,8 +3,6 @@
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/FrameworkManager.h"
#include "MantidKernel/System.h"
diff --git a/Framework/Algorithms/test/ExportTimeSeriesLogTest.h b/Framework/Algorithms/test/ExportTimeSeriesLogTest.h
index 2d2f8e21e48afd6d1f8b2b897271d0245c072f91..95ffd2e77abaebfd73a6528e367e4f30676c2239 100644
--- a/Framework/Algorithms/test/ExportTimeSeriesLogTest.h
+++ b/Framework/Algorithms/test/ExportTimeSeriesLogTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include <cmath>
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Algorithms/test/FilterEventsTest.h b/Framework/Algorithms/test/FilterEventsTest.h
index 4de2165a833de3082420c1ed531c733531d794ce..ab3c1343d287cc4a5da8bbe0f354604f32d8b52b 100644
--- a/Framework/Algorithms/test/FilterEventsTest.h
+++ b/Framework/Algorithms/test/FilterEventsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/FilterEvents.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/Algorithms/test/GenerateEventsFilterTest.h b/Framework/Algorithms/test/GenerateEventsFilterTest.h
index abdd7afa091f1ed4bec2897bd740b9ccc842012e..c6520fbca5c429f4dacae7cedffd1fd28824c626 100644
--- a/Framework/Algorithms/test/GenerateEventsFilterTest.h
+++ b/Framework/Algorithms/test/GenerateEventsFilterTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include <cmath>
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Algorithms/test/GenerateIPythonNotebookTest.h b/Framework/Algorithms/test/GenerateIPythonNotebookTest.h
index 0e3d5fbe3ed31a075123e48bc6085c1ccebb0ed1..290f11a2dde2d1022382acc6b9b11c5479a24338 100644
--- a/Framework/Algorithms/test/GenerateIPythonNotebookTest.h
+++ b/Framework/Algorithms/test/GenerateIPythonNotebookTest.h
@@ -4,9 +4,7 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <fstream>
-#include <iomanip>
#include <boost/regex.hpp>
#include "MantidAlgorithms/GenerateIPythonNotebook.h"
diff --git a/Framework/Algorithms/test/GeneratePeaksTest.h b/Framework/Algorithms/test/GeneratePeaksTest.h
index b524ac99fbf283cf9d626a279e271cf19f213357..d25985d93b0d30d9da5e043e24d5532b50dc78b4 100644
--- a/Framework/Algorithms/test/GeneratePeaksTest.h
+++ b/Framework/Algorithms/test/GeneratePeaksTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/GeneratePeaks.h"
#include "MantidDataObjects/TableWorkspace.h"
diff --git a/Framework/Algorithms/test/GeneratePythonScriptTest.h b/Framework/Algorithms/test/GeneratePythonScriptTest.h
index 9d8c2860adcf9b5e32dcef36837da5169f075c3a..48234f28bf76ae0973f0b87bf6de72455c33a770 100644
--- a/Framework/Algorithms/test/GeneratePythonScriptTest.h
+++ b/Framework/Algorithms/test/GeneratePythonScriptTest.h
@@ -4,9 +4,7 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <fstream>
-#include <iomanip>
#include <boost/regex.hpp>
#include "MantidAlgorithms/GeneratePythonScript.h"
diff --git a/Framework/Algorithms/test/GetTimeSeriesLogInformationTest.h b/Framework/Algorithms/test/GetTimeSeriesLogInformationTest.h
index ea6f2cfff30bf446081f1c588035cc29d0baf815..237f5ab7a6d2120a3b044afe31bec41c4b9f5244 100644
--- a/Framework/Algorithms/test/GetTimeSeriesLogInformationTest.h
+++ b/Framework/Algorithms/test/GetTimeSeriesLogInformationTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include <cmath>
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Algorithms/test/InvertMaskTest.h b/Framework/Algorithms/test/InvertMaskTest.h
index 2ddb4be78ec41d6ac821ad8b1d6162c4e2aa32ba..422422e53fdcd67113f75685e0eab062da2e5194 100644
--- a/Framework/Algorithms/test/InvertMaskTest.h
+++ b/Framework/Algorithms/test/InvertMaskTest.h
@@ -8,8 +8,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidGeometry/Instrument.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/InvertMask.h"
diff --git a/Framework/Algorithms/test/MaskBinsFromTableTest.h b/Framework/Algorithms/test/MaskBinsFromTableTest.h
index fbac8eab834ab98d99d81c807c1248b247d67dae..72e265cbfa7753823d58d3d0ef7efeb67295b2f9 100644
--- a/Framework/Algorithms/test/MaskBinsFromTableTest.h
+++ b/Framework/Algorithms/test/MaskBinsFromTableTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidAlgorithms/MaskBinsFromTable.h"
diff --git a/Framework/Algorithms/test/MedianDetectorTestTest.h b/Framework/Algorithms/test/MedianDetectorTestTest.h
index bb69f74a2f355cfe7663e2660abb31faaf5b4d79..da4fd49def2968c6cf2742c9571cc59ceaa87625 100644
--- a/Framework/Algorithms/test/MedianDetectorTestTest.h
+++ b/Framework/Algorithms/test/MedianDetectorTestTest.h
@@ -16,7 +16,6 @@
#include <Poco/File.h>
#include <Poco/Path.h>
#include <cmath>
-#include <iostream>
#include <sstream>
#include <fstream>
#include <ios>
diff --git a/Framework/Algorithms/test/NormaliseByDetectorTest.h b/Framework/Algorithms/test/NormaliseByDetectorTest.h
index 8f32e4747e6c06e27e88597805d1acae3868273a..f2a3086001076a8dca7a2a65983ec9d8db19a8d0 100644
--- a/Framework/Algorithms/test/NormaliseByDetectorTest.h
+++ b/Framework/Algorithms/test/NormaliseByDetectorTest.h
@@ -16,7 +16,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidTestHelpers/ScopedFileHelper.h"
#include "MantidKernel/ConfigService.h"
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::Algorithms;
diff --git a/Framework/Algorithms/test/PDFFourierTransformTest.h b/Framework/Algorithms/test/PDFFourierTransformTest.h
index 6b72b4f7b4bc04a2a8d48d2510f7214e49288f1d..724358a188011d84ec7c9458369957a1ccd9127e 100644
--- a/Framework/Algorithms/test/PDFFourierTransformTest.h
+++ b/Framework/Algorithms/test/PDFFourierTransformTest.h
@@ -11,8 +11,6 @@
#include "MantidAPI/WorkspaceFactory.h"
#include "MantidAPI/AnalysisDataService.h"
#include "MantidAPI/IAlgorithm.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/PDFFourierTransform.h"
diff --git a/Framework/Algorithms/test/PauseTest.h b/Framework/Algorithms/test/PauseTest.h
index 8ab460600349ef0b98e5448294325f6ca1571a16..4caceae6c1f902c4d78c72ef2b68c61640ddec3e 100644
--- a/Framework/Algorithms/test/PauseTest.h
+++ b/Framework/Algorithms/test/PauseTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/Pause.h"
diff --git a/Framework/Algorithms/test/PlotAsymmetryByLogValueTest.h b/Framework/Algorithms/test/PlotAsymmetryByLogValueTest.h
index e7ab84fb34d0e17577abdc42ba07fb9d7120d377..8f7648d74fcc93ee8ff291a8fc0dec5f5eab191f 100644
--- a/Framework/Algorithms/test/PlotAsymmetryByLogValueTest.h
+++ b/Framework/Algorithms/test/PlotAsymmetryByLogValueTest.h
@@ -13,7 +13,6 @@
#include "MantidDataHandling/LoadInstrument.h"
#include "MantidDataHandling/SaveNexus.h"
-#include <iostream>
#include <Poco/File.h>
using namespace Mantid::API;
diff --git a/Framework/Algorithms/test/Q1DWeightedTest.h b/Framework/Algorithms/test/Q1DWeightedTest.h
index 0555cf4adf2287754dec61f27212f0db4644a0ae..6abd0718970d3084d54eb7a1695b75f939d050f6 100644
--- a/Framework/Algorithms/test/Q1DWeightedTest.h
+++ b/Framework/Algorithms/test/Q1DWeightedTest.h
@@ -5,7 +5,6 @@
#include "MantidAlgorithms/Q1DWeighted.h"
#include "MantidDataHandling/LoadSpice2D.h"
#include "MantidDataHandling/MoveInstrumentComponent.h"
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/Framework/Algorithms/test/RayTracerTesterTest.h b/Framework/Algorithms/test/RayTracerTesterTest.h
index 5b643f7871c08f35a427b55bacf6a21a9bae3662..9f9e6972af7bfd70bb5d5e1e30f5f10381a34025 100644
--- a/Framework/Algorithms/test/RayTracerTesterTest.h
+++ b/Framework/Algorithms/test/RayTracerTesterTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/RayTracerTester.h"
diff --git a/Framework/Algorithms/test/RegroupTest.h b/Framework/Algorithms/test/RegroupTest.h
index 3c49bc8e7738146b1e260b04f0ff3bb2de8046c9..fd329c37d4f9aa5b7bda8685ced9616a9f72bbfd 100644
--- a/Framework/Algorithms/test/RegroupTest.h
+++ b/Framework/Algorithms/test/RegroupTest.h
@@ -8,8 +8,6 @@
#include "MantidAlgorithms/Regroup.h"
#include "MantidAPI/WorkspaceProperty.h"
-#include <iostream>
-
using namespace Mantid::Kernel;
using namespace Mantid::DataObjects;
using namespace Mantid::API;
diff --git a/Framework/Algorithms/test/RemoveBinsTest.h b/Framework/Algorithms/test/RemoveBinsTest.h
index 0eb0444239da3c9b5f3b915f1b6e65b0bf2fc005..e4dd7d4d22f3bff0e8e02d9fbef41d0656ab7c4a 100644
--- a/Framework/Algorithms/test/RemoveBinsTest.h
+++ b/Framework/Algorithms/test/RemoveBinsTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <sstream>
#include <string>
#include <stdexcept>
diff --git a/Framework/Algorithms/test/RemoveLowResTOFTest.h b/Framework/Algorithms/test/RemoveLowResTOFTest.h
index 2c4117254f2a41c4f33f1f8a86d2a032ad0e8fd0..151e8c9694c50d2ec363a9f1f3a743e29edce805 100644
--- a/Framework/Algorithms/test/RemoveLowResTOFTest.h
+++ b/Framework/Algorithms/test/RemoveLowResTOFTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/UnitFactory.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
-#include <iostream>
-#include <iomanip>
#include <set>
#include <string>
diff --git a/Framework/Algorithms/test/RemovePromptPulseTest.h b/Framework/Algorithms/test/RemovePromptPulseTest.h
index f4500225d70fac0a2bb46474f99b8d21476e00ba..0675bf25926ce6292f20fc27f6f5628dc8c71c73 100644
--- a/Framework/Algorithms/test/RemovePromptPulseTest.h
+++ b/Framework/Algorithms/test/RemovePromptPulseTest.h
@@ -2,8 +2,6 @@
#define MANTID_ALGORITHMS_REMOVEPROMPTPULSETEST_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include "MantidAPI/AnalysisDataService.h"
#include "MantidDataObjects/EventWorkspace.h"
#include "MantidKernel/System.h"
diff --git a/Framework/Algorithms/test/ResetNegativesTest.h b/Framework/Algorithms/test/ResetNegativesTest.h
index 7db37fd2283726a289b11cc0b4ccd62dbcac5104..f9bbbec67ed1105b96ec17e832db47687be348b4 100644
--- a/Framework/Algorithms/test/ResetNegativesTest.h
+++ b/Framework/Algorithms/test/ResetNegativesTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
-#include <iostream>
-#include <iomanip>
#include <string>
#include "MantidAlgorithms/ResetNegatives.h"
diff --git a/Framework/Algorithms/test/ResizeRectangularDetectorTest.h b/Framework/Algorithms/test/ResizeRectangularDetectorTest.h
index 588a827ad4f94710b79f6aa659218e6e4752c8b0..c7fe587a3bfa55887dae0542fa7f95393fd08a16 100644
--- a/Framework/Algorithms/test/ResizeRectangularDetectorTest.h
+++ b/Framework/Algorithms/test/ResizeRectangularDetectorTest.h
@@ -11,8 +11,6 @@
#include "MantidKernel/V3D.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidGeometry/Instrument/RectangularDetectorPixel.h"
using namespace Mantid;
diff --git a/Framework/Algorithms/test/ShiftLogTimeTest.h b/Framework/Algorithms/test/ShiftLogTimeTest.h
index 45b0ceee013cf535d849a0d51302e29fbba270bb..fff95c4817c5a2e86af7c5f655a9ff06c96e53f0 100644
--- a/Framework/Algorithms/test/ShiftLogTimeTest.h
+++ b/Framework/Algorithms/test/ShiftLogTimeTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include "MantidKernel/TimeSeriesProperty.h"
-#include <iostream>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::Algorithms;
diff --git a/Framework/Algorithms/test/SignalOverErrorTest.h b/Framework/Algorithms/test/SignalOverErrorTest.h
index 7887d9c45237c7c66cdb9a20d0ebf0c77a97b779..be31dec152265817744963a41cde36f70e33be81 100644
--- a/Framework/Algorithms/test/SignalOverErrorTest.h
+++ b/Framework/Algorithms/test/SignalOverErrorTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Algorithms;
diff --git a/Framework/Algorithms/test/SmoothNeighboursTest.h b/Framework/Algorithms/test/SmoothNeighboursTest.h
index 9fc602a9e04a335675c26068e739adec4f19cf58..2dab29faed28f25443c5bb139b8985b5d841c44f 100644
--- a/Framework/Algorithms/test/SmoothNeighboursTest.h
+++ b/Framework/Algorithms/test/SmoothNeighboursTest.h
@@ -14,8 +14,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
using namespace Mantid;
using namespace Mantid::Kernel;
diff --git a/Framework/Algorithms/test/UnwrapSNSTest.h b/Framework/Algorithms/test/UnwrapSNSTest.h
index 68ae1ed6d58a699380332052430270414097e040..7fa34a7772f2b1c1c67b2c3f96d12360c5711b5d 100644
--- a/Framework/Algorithms/test/UnwrapSNSTest.h
+++ b/Framework/Algorithms/test/UnwrapSNSTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/UnitFactory.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
-#include <iostream>
-#include <iomanip>
#include <string>
#include "MantidAlgorithms/UnwrapSNS.h"
diff --git a/Framework/Algorithms/test/WeightingStrategyTest.h b/Framework/Algorithms/test/WeightingStrategyTest.h
index 01c8b69bc460004398f4b0727d04e2cc8d83cf96..c3515c98c80ec431cecbe579476037ee5b8a799d 100644
--- a/Framework/Algorithms/test/WeightingStrategyTest.h
+++ b/Framework/Algorithms/test/WeightingStrategyTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidAlgorithms/WeightingStrategy.h"
diff --git a/Framework/Algorithms/test/WorkspaceCreationHelperTest.h b/Framework/Algorithms/test/WorkspaceCreationHelperTest.h
index 3cc5b4bc7968cb9606cb0d5ae3f8611cab17f8fe..a1c3804687da72b281ab281d8f95d8d425f72a42 100644
--- a/Framework/Algorithms/test/WorkspaceCreationHelperTest.h
+++ b/Framework/Algorithms/test/WorkspaceCreationHelperTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidAPI/SpectraDetectorTypes.h"
using namespace Mantid;
diff --git a/Framework/Crystal/test/AnvredCorrectionTest.h b/Framework/Crystal/test/AnvredCorrectionTest.h
index 860322223cd3d9069b2b7ba7157628520ba40927..6b5b5376fbc6c3bb25c93fdb5c1fce93fea15048 100644
--- a/Framework/Crystal/test/AnvredCorrectionTest.h
+++ b/Framework/Crystal/test/AnvredCorrectionTest.h
@@ -18,8 +18,6 @@
#include <boost/random/variate_generator.hpp>
#include <math.h>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/CalculateUMatrixTest.h b/Framework/Crystal/test/CalculateUMatrixTest.h
index bfd583addb80341f5c25371d86ffd9ad75188f17..1541caefccd4b15bb0934c9ec5cbe1c425cc7bb5 100644
--- a/Framework/Crystal/test/CalculateUMatrixTest.h
+++ b/Framework/Crystal/test/CalculateUMatrixTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/CalculateUMatrix.h"
#include "MantidGeometry/Crystal/OrientedLattice.h"
diff --git a/Framework/Crystal/test/CentroidPeaksTest.h b/Framework/Crystal/test/CentroidPeaksTest.h
index 653179954cc0cb0ea0a7b1fcbd2cdcba15332487..4843512cbdbc6a34455cc9ff7325eae9e53e0db2 100644
--- a/Framework/Crystal/test/CentroidPeaksTest.h
+++ b/Framework/Crystal/test/CentroidPeaksTest.h
@@ -18,8 +18,6 @@
#include <boost/random/variate_generator.hpp>
#include <math.h>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/FindUBUsingFFTTest.h b/Framework/Crystal/test/FindUBUsingFFTTest.h
index 0c9e5c5dc851658279d0a0b2ad6818a45361a9b2..ecc480cb46709c11f98e9c56a7f3309337b6b7dc 100644
--- a/Framework/Crystal/test/FindUBUsingFFTTest.h
+++ b/Framework/Crystal/test/FindUBUsingFFTTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/FindUBUsingFFT.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/FindUBUsingIndexedPeaksTest.h b/Framework/Crystal/test/FindUBUsingIndexedPeaksTest.h
index 3c3da2ce273a44cfcaeef89d1b7cef2614c3a0f1..843071413a8854b218c2cc42ae14f0e755c17c85 100644
--- a/Framework/Crystal/test/FindUBUsingIndexedPeaksTest.h
+++ b/Framework/Crystal/test/FindUBUsingIndexedPeaksTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/FindUBUsingIndexedPeaks.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/FindUBUsingLatticeParametersTest.h b/Framework/Crystal/test/FindUBUsingLatticeParametersTest.h
index 1cef9de875a70cd6be271b68fa70ec16f8a872f4..4f25945262e0acc68bbcbe1fd00b9e785d40db7a 100644
--- a/Framework/Crystal/test/FindUBUsingLatticeParametersTest.h
+++ b/Framework/Crystal/test/FindUBUsingLatticeParametersTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/FindUBUsingLatticeParameters.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/FindUBUsingMinMaxDTest.h b/Framework/Crystal/test/FindUBUsingMinMaxDTest.h
index 63ffb2254a1bf0f45c5fed7d46340ab4cbf23b89..58934d00d7f2ce538c78d234b033e0b0602a673c 100644
--- a/Framework/Crystal/test/FindUBUsingMinMaxDTest.h
+++ b/Framework/Crystal/test/FindUBUsingMinMaxDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/FindUBUsingMinMaxD.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/IndexPeaksTest.h b/Framework/Crystal/test/IndexPeaksTest.h
index 748bc85b78c3dddf16585b10339378d79b3ab042..a9085df9d0e9019931da7e44ce518d0aa235bf81 100644
--- a/Framework/Crystal/test/IndexPeaksTest.h
+++ b/Framework/Crystal/test/IndexPeaksTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/IndexPeaks.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/LoadHKLTest.h b/Framework/Crystal/test/LoadHKLTest.h
index b4a255d7e268ccd191ea211e896dfa0270534afe..df8f5eb183b6a486e89612b400f13ec2734ced36 100644
--- a/Framework/Crystal/test/LoadHKLTest.h
+++ b/Framework/Crystal/test/LoadHKLTest.h
@@ -10,8 +10,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Crystal/test/LoadIsawPeaksTest.h b/Framework/Crystal/test/LoadIsawPeaksTest.h
index 8d40b021e447a87c99a6c8af8c9efafc79a2f793..57cde40ffec075c23623f56444c411f44be551db 100644
--- a/Framework/Crystal/test/LoadIsawPeaksTest.h
+++ b/Framework/Crystal/test/LoadIsawPeaksTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/LoadIsawSpectrumTest.h b/Framework/Crystal/test/LoadIsawSpectrumTest.h
index 1beed81dcc2d6e53ccef1d212425f33b52098954..2754a7760068ff0e86673ed3dcf6a2b43799c0f8 100644
--- a/Framework/Crystal/test/LoadIsawSpectrumTest.h
+++ b/Framework/Crystal/test/LoadIsawSpectrumTest.h
@@ -10,8 +10,6 @@
#include "MantidGeometry/Crystal/OrientedLattice.h"
#include "MantidAPI/FrameworkManager.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Crystal;
using namespace Mantid::API;
diff --git a/Framework/Crystal/test/LoadIsawUBTest.h b/Framework/Crystal/test/LoadIsawUBTest.h
index a15fb23b6785e498c4fe034ca3107ea796b19240..8123d2272b27415eb9f57b951e60f41fd30ed14c 100644
--- a/Framework/Crystal/test/LoadIsawUBTest.h
+++ b/Framework/Crystal/test/LoadIsawUBTest.h
@@ -11,8 +11,6 @@
#include "MantidGeometry/Crystal/OrientedLattice.h"
#include "MantidAPI/FrameworkManager.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Crystal;
using namespace Mantid::API;
diff --git a/Framework/Crystal/test/NormaliseVanadiumTest.h b/Framework/Crystal/test/NormaliseVanadiumTest.h
index ddda1f89f4852bfe05e6e000a2bbb981fd17e04b..4d52925b22f4b7abfd7d3f2680330949a3af7ac5 100644
--- a/Framework/Crystal/test/NormaliseVanadiumTest.h
+++ b/Framework/Crystal/test/NormaliseVanadiumTest.h
@@ -16,8 +16,6 @@
#include <boost/random/variate_generator.hpp>
#include <math.h>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/OptimizeLatticeForCellTypeTest.h b/Framework/Crystal/test/OptimizeLatticeForCellTypeTest.h
index 52d91d88e90b58e3868ebca7030f0af2fa119802..cfb878810325628d3fbc91d0004c44d8f4653f20 100644
--- a/Framework/Crystal/test/OptimizeLatticeForCellTypeTest.h
+++ b/Framework/Crystal/test/OptimizeLatticeForCellTypeTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/OptimizeLatticeForCellType.h"
#include "MantidCrystal/FindUBUsingFFT.h"
diff --git a/Framework/Crystal/test/PeakIntegrationTest.h b/Framework/Crystal/test/PeakIntegrationTest.h
index 2801488ecac725c61137663b6dacd2a8aa0fc87b..a34be8927d45e43d347563d18dba877f998dba4d 100644
--- a/Framework/Crystal/test/PeakIntegrationTest.h
+++ b/Framework/Crystal/test/PeakIntegrationTest.h
@@ -18,8 +18,6 @@
#include <boost/random/variate_generator.hpp>
#include <math.h>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/PeakIntensityVsRadiusTest.h b/Framework/Crystal/test/PeakIntensityVsRadiusTest.h
index 5e560b92b22c143754b9d7557b7a489c9194d749..e9b5733569bbc94b772a1aff5d7e1d2a74ff7659 100644
--- a/Framework/Crystal/test/PeakIntensityVsRadiusTest.h
+++ b/Framework/Crystal/test/PeakIntensityVsRadiusTest.h
@@ -11,8 +11,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include "MantidAPI/FrameworkManager.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Crystal;
diff --git a/Framework/Crystal/test/PredictPeaksTest.h b/Framework/Crystal/test/PredictPeaksTest.h
index 6234ee18989727368dec0b5576f51c237cd0eff3..01401b993b2c54838c5b49dc96a73cb2e3c19fc5 100644
--- a/Framework/Crystal/test/PredictPeaksTest.h
+++ b/Framework/Crystal/test/PredictPeaksTest.h
@@ -9,8 +9,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidKernel/V3D.h"
#include "MantidGeometry/IDTypes.h"
diff --git a/Framework/Crystal/test/SaveHKLTest.h b/Framework/Crystal/test/SaveHKLTest.h
index a7dba0a6a1328c62c10f5bf97d1213bcfe297a1e..80b747709416c8be4aa158ec3e213bc4d1509530 100644
--- a/Framework/Crystal/test/SaveHKLTest.h
+++ b/Framework/Crystal/test/SaveHKLTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Crystal/test/SaveIsawPeaksTest.h b/Framework/Crystal/test/SaveIsawPeaksTest.h
index 62766e5826a417130ffb9681505de2c2c68858b8..53bd33d0cb1fc07e55af1de26a442cf828a183ec 100644
--- a/Framework/Crystal/test/SaveIsawPeaksTest.h
+++ b/Framework/Crystal/test/SaveIsawPeaksTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/File.h>
using namespace Mantid;
diff --git a/Framework/Crystal/test/SaveIsawUBTest.h b/Framework/Crystal/test/SaveIsawUBTest.h
index 3e781524bb32a81e067402bff791a35dbaac31a9..77b9ce5e690cf6b1e5d5e6a432459dacf592f8b3 100644
--- a/Framework/Crystal/test/SaveIsawUBTest.h
+++ b/Framework/Crystal/test/SaveIsawUBTest.h
@@ -19,7 +19,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <fstream>
#include <stdio.h>
#include <stdlib.h>
diff --git a/Framework/Crystal/test/SaveLauenormTest.h b/Framework/Crystal/test/SaveLauenormTest.h
index ffa2ff24f389c393a234867e749cda2cde13c6c3..d5c88b526cd20cd496abfe6b1bdcf71589bdd1de 100644
--- a/Framework/Crystal/test/SaveLauenormTest.h
+++ b/Framework/Crystal/test/SaveLauenormTest.h
@@ -9,8 +9,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Crystal/test/SavePeaksFileTest.h b/Framework/Crystal/test/SavePeaksFileTest.h
index f6fe4353c75cdaec961e6b6f4d600ce80d454bd9..4de6a339657af611b9f3b9d3becdd5ca8d568ff6 100644
--- a/Framework/Crystal/test/SavePeaksFileTest.h
+++ b/Framework/Crystal/test/SavePeaksFileTest.h
@@ -8,8 +8,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/File.h>
using namespace Mantid::Kernel;
diff --git a/Framework/Crystal/test/SelectCellOfTypeTest.h b/Framework/Crystal/test/SelectCellOfTypeTest.h
index 918286b3bd1d21e993e630fc72b94e2f4c4d4827..0e67f114ccc4a50c097399ad188f45503fbfdb9d 100644
--- a/Framework/Crystal/test/SelectCellOfTypeTest.h
+++ b/Framework/Crystal/test/SelectCellOfTypeTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/SelectCellOfType.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/SelectCellWithFormTest.h b/Framework/Crystal/test/SelectCellWithFormTest.h
index a711dd4f7fd32a9ffb170eb5afd11f5b383850a3..77cc15c40b3f37000f743a6ce37d8dd305a95e3b 100644
--- a/Framework/Crystal/test/SelectCellWithFormTest.h
+++ b/Framework/Crystal/test/SelectCellWithFormTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/SelectCellWithForm.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/SetGoniometerTest.h b/Framework/Crystal/test/SetGoniometerTest.h
index dfd07fce6c8c666e7fda9d61ddaf2547f9138679..7380082ff01a431c1cb76887ca0fecbdb95b610f 100644
--- a/Framework/Crystal/test/SetGoniometerTest.h
+++ b/Framework/Crystal/test/SetGoniometerTest.h
@@ -9,8 +9,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidAPI/FrameworkManager.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidKernel/V3D.h"
#include "MantidKernel/Matrix.h"
diff --git a/Framework/Crystal/test/SetUBTest.h b/Framework/Crystal/test/SetUBTest.h
index 801dc6bb3bece6803265013f11a166036ef1be6b..2b86a2180d31de449324674e7dec10710cbb3ef3 100644
--- a/Framework/Crystal/test/SetUBTest.h
+++ b/Framework/Crystal/test/SetUBTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/SetUB.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/Crystal/test/ShowPossibleCellsTest.h b/Framework/Crystal/test/ShowPossibleCellsTest.h
index 5a623a0cbaf17f5480f968415cff8afc7bd61968..4e731455a5261df21112de0eb0ee34d70c26551a 100644
--- a/Framework/Crystal/test/ShowPossibleCellsTest.h
+++ b/Framework/Crystal/test/ShowPossibleCellsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/ShowPossibleCells.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/Crystal/test/SortHKLTest.h b/Framework/Crystal/test/SortHKLTest.h
index 72b6ea2fd61b7309e23e253e3bed34941b2acdb8..656a41076d7319f6bfd9da2db2c6aece29f6839d 100644
--- a/Framework/Crystal/test/SortHKLTest.h
+++ b/Framework/Crystal/test/SortHKLTest.h
@@ -10,8 +10,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include "MantidGeometry/Crystal/OrientedLattice.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Crystal/test/StatisticsOfPeaksWorkspaceTest.h b/Framework/Crystal/test/StatisticsOfPeaksWorkspaceTest.h
index 0499b1711c84e9da0b538df8e963d2a5121bda9c..ee57d99bb1738c40f9ab25d9c29d932e4665f7e7 100644
--- a/Framework/Crystal/test/StatisticsOfPeaksWorkspaceTest.h
+++ b/Framework/Crystal/test/StatisticsOfPeaksWorkspaceTest.h
@@ -10,8 +10,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include "MantidGeometry/Crystal/OrientedLattice.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <fstream>
#include <Poco/File.h>
diff --git a/Framework/Crystal/test/TransformHKLTest.h b/Framework/Crystal/test/TransformHKLTest.h
index c958842c007a17729ecc54da3d52c7fee8337da6..05acb7732de32b10683693ac24dcfb77255638ee 100644
--- a/Framework/Crystal/test/TransformHKLTest.h
+++ b/Framework/Crystal/test/TransformHKLTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCrystal/TransformHKL.h"
#include "MantidCrystal/LoadIsawPeaks.h"
diff --git a/Framework/CurveFitting/src/BSpline.cpp b/Framework/CurveFitting/src/BSpline.cpp
index b174fdc184dedc64f68525912eddf8103fde4e81..787672bc570ab733dbe80a12c44a3384c6b0468a 100644
--- a/Framework/CurveFitting/src/BSpline.cpp
+++ b/Framework/CurveFitting/src/BSpline.cpp
@@ -7,7 +7,6 @@
#include "MantidAPI/FunctionFactory.h"
#include <boost/lexical_cast.hpp>
-#include <iostream>
namespace Mantid {
namespace CurveFitting {
diff --git a/Framework/CurveFitting/src/BivariateNormal.cpp b/Framework/CurveFitting/src/BivariateNormal.cpp
index f9cae2a8038f071c747db3f76be879e2778e15d7..d48ab8555eaea9ff6adf1d9cd15e72e9d496f628 100644
--- a/Framework/CurveFitting/src/BivariateNormal.cpp
+++ b/Framework/CurveFitting/src/BivariateNormal.cpp
@@ -9,7 +9,6 @@
#include <fstream>
#include <algorithm>
#include <math.h>
-#include <iostream>
#include <sstream>
#include <string>
#include <cstdio>
diff --git a/Framework/CurveFitting/src/CostFuncLeastSquares.cpp b/Framework/CurveFitting/src/CostFuncLeastSquares.cpp
index e1fa52338bf531753909c036c1de96881be22f2f..f0ada5744ed566b685c54fcba4fd7d3decfcb637 100644
--- a/Framework/CurveFitting/src/CostFuncLeastSquares.cpp
+++ b/Framework/CurveFitting/src/CostFuncLeastSquares.cpp
@@ -10,8 +10,6 @@
#include "MantidKernel/Logger.h"
#include "MantidKernel/MultiThreaded.h"
-#include <iomanip>
-
namespace Mantid {
namespace CurveFitting {
namespace {
diff --git a/Framework/CurveFitting/src/CostFuncRwp.cpp b/Framework/CurveFitting/src/CostFuncRwp.cpp
index c72d9d3d4a1487df71590914057100a46c4c9eab..0bd327fd7ea90312d76e38fc29e53f60dc16b137 100644
--- a/Framework/CurveFitting/src/CostFuncRwp.cpp
+++ b/Framework/CurveFitting/src/CostFuncRwp.cpp
@@ -9,7 +9,6 @@
#include "MantidAPI/FunctionValues.h"
#include <cmath>
-#include <iomanip>
namespace Mantid {
namespace CurveFitting {
diff --git a/Framework/CurveFitting/src/CostFuncUnweightedLeastSquares.cpp b/Framework/CurveFitting/src/CostFuncUnweightedLeastSquares.cpp
index da4e2bd1170ff07e4dba224179e1d2a8e33d58b8..278e5c6b9bd3421817651ed8d8565c14bece862a 100644
--- a/Framework/CurveFitting/src/CostFuncUnweightedLeastSquares.cpp
+++ b/Framework/CurveFitting/src/CostFuncUnweightedLeastSquares.cpp
@@ -1,7 +1,6 @@
#include "MantidCurveFitting/CostFuncUnweightedLeastSquares.h"
#include "MantidKernel/Logger.h"
-#include <iomanip>
#include <cmath>
namespace Mantid {
diff --git a/Framework/CurveFitting/src/CubicSpline.cpp b/Framework/CurveFitting/src/CubicSpline.cpp
index 6b0d2815989e52ae26cf5f7be2a1fe47f8df31e9..b955d04215d02d904e00193dfd0cddfeba7079f4 100644
--- a/Framework/CurveFitting/src/CubicSpline.cpp
+++ b/Framework/CurveFitting/src/CubicSpline.cpp
@@ -7,7 +7,6 @@
#include <algorithm>
#include <boost/lexical_cast.hpp>
-#include <iostream>
#include <stdexcept>
#include <vector>
diff --git a/Framework/CurveFitting/src/FABADAMinimizer.cpp b/Framework/CurveFitting/src/FABADAMinimizer.cpp
index 8e8f7e3d70838d4d8dfaa06d2010a61b5954d7bc..f6c47ccff74677882e6f1b74ca874124be32baa0 100644
--- a/Framework/CurveFitting/src/FABADAMinimizer.cpp
+++ b/Framework/CurveFitting/src/FABADAMinimizer.cpp
@@ -26,7 +26,6 @@
#include <boost/version.hpp>
#include <boost/math/special_functions/fpclassify.hpp>
-#include <iostream>
#include <ctime>
namespace Mantid {
diff --git a/Framework/CurveFitting/src/Fit1D.cpp b/Framework/CurveFitting/src/Fit1D.cpp
index f4c054ddc095e1976d0812b46d7c2373ed6bc562..d6db35e872a292e107331397fa707c1a23b3e5bd 100644
--- a/Framework/CurveFitting/src/Fit1D.cpp
+++ b/Framework/CurveFitting/src/Fit1D.cpp
@@ -5,7 +5,6 @@
#include <sstream>
#include <numeric>
#include <cmath>
-#include <iomanip>
#include "MantidKernel/Exception.h"
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/TableRow.h"
diff --git a/Framework/CurveFitting/src/FitPowderDiffPeaks.cpp b/Framework/CurveFitting/src/FitPowderDiffPeaks.cpp
index b5ad39301ddcb5b6156ab72e7ec20a3482d7e7c8..e24430a6d96c91e439b21d0938cc7e25b45582ab 100644
--- a/Framework/CurveFitting/src/FitPowderDiffPeaks.cpp
+++ b/Framework/CurveFitting/src/FitPowderDiffPeaks.cpp
@@ -31,7 +31,6 @@
#include <boost/algorithm/string/split.hpp>
#include <fstream>
-#include <iomanip>
#include <gsl/gsl_sf_erf.h>
#include <cmath>
diff --git a/Framework/CurveFitting/src/LeBailFit.cpp b/Framework/CurveFitting/src/LeBailFit.cpp
index 0ea5ae09288890fe5860669c91f206aa621a0f9d..9996f8049856bb1e88c279037da696b41d2c2f57 100644
--- a/Framework/CurveFitting/src/LeBailFit.cpp
+++ b/Framework/CurveFitting/src/LeBailFit.cpp
@@ -17,7 +17,6 @@
#include <boost/algorithm/string.hpp>
#include <boost/algorithm/string/split.hpp>
-#include <iomanip>
#include <fstream>
diff --git a/Framework/CurveFitting/src/LevenbergMarquardtMDMinimizer.cpp b/Framework/CurveFitting/src/LevenbergMarquardtMDMinimizer.cpp
index 11793321b58aa4f52d8d51db2238f6f28ab41022..78c90dca7c807df0c1c6f18caedc0d2817164fa1 100644
--- a/Framework/CurveFitting/src/LevenbergMarquardtMDMinimizer.cpp
+++ b/Framework/CurveFitting/src/LevenbergMarquardtMDMinimizer.cpp
@@ -12,7 +12,6 @@
#include <boost/lexical_cast.hpp>
#include <gsl/gsl_blas.h>
-#include <iostream>
#include <cmath>
namespace Mantid {
diff --git a/Framework/CurveFitting/src/LevenbergMarquardtMinimizer.cpp b/Framework/CurveFitting/src/LevenbergMarquardtMinimizer.cpp
index 7e5614689298bb76705e4f6fed28472a1eab3ff5..19bfbdc7c06d05379ce612f5cc73f35144e46564 100644
--- a/Framework/CurveFitting/src/LevenbergMarquardtMinimizer.cpp
+++ b/Framework/CurveFitting/src/LevenbergMarquardtMinimizer.cpp
@@ -13,7 +13,6 @@
#include <boost/lexical_cast.hpp>
#include <gsl/gsl_blas.h>
-#include <iostream>
namespace Mantid {
namespace CurveFitting {
diff --git a/Framework/CurveFitting/src/MultiBG.cpp b/Framework/CurveFitting/src/MultiBG.cpp
index 284b6ce33908b4cf7b664d8e0af7f513123eac64..d0cc9705068359f16f2b8232816514899a2ea14c 100644
--- a/Framework/CurveFitting/src/MultiBG.cpp
+++ b/Framework/CurveFitting/src/MultiBG.cpp
@@ -12,7 +12,6 @@
#include <boost/lexical_cast.hpp>
#include <sstream>
-#include <iostream>
#include <algorithm>
#include <iterator>
#include <float.h>
diff --git a/Framework/CurveFitting/src/PlotPeakByLogValue.cpp b/Framework/CurveFitting/src/PlotPeakByLogValue.cpp
index f380f15c43c792e136b2fa2f5451103819fb68b2..152331bab772848b2fb6d7efc2446d16b335564e 100644
--- a/Framework/CurveFitting/src/PlotPeakByLogValue.cpp
+++ b/Framework/CurveFitting/src/PlotPeakByLogValue.cpp
@@ -3,7 +3,6 @@
//----------------------------------------------------------------------
#include <cmath>
#include <vector>
-#include <iostream>
#include <fstream>
#include <sstream>
#include <algorithm>
diff --git a/Framework/CurveFitting/src/RefinePowderInstrumentParameters.cpp b/Framework/CurveFitting/src/RefinePowderInstrumentParameters.cpp
index 56a400e3b11d329ebde5463760d0e7e9b4c5e117..f47bdf5eac157d3ebd042ce8bcabb098e9374eca 100644
--- a/Framework/CurveFitting/src/RefinePowderInstrumentParameters.cpp
+++ b/Framework/CurveFitting/src/RefinePowderInstrumentParameters.cpp
@@ -26,7 +26,6 @@
#include <boost/algorithm/string/split.hpp>
#include <fstream>
-#include <iomanip>
#include <gsl/gsl_sf_erf.h>
diff --git a/Framework/CurveFitting/test/BSplineTest.h b/Framework/CurveFitting/test/BSplineTest.h
index 0b5e362ab4cca0afec2ef9c0a487f5ff97dbcdd2..b71c15a4ae356f0c2b8cc7afba484930f1b84e53 100644
--- a/Framework/CurveFitting/test/BSplineTest.h
+++ b/Framework/CurveFitting/test/BSplineTest.h
@@ -11,7 +11,6 @@
#include <cxxtest/TestSuite.h>
#include <boost/lexical_cast.hpp>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/CurveFitting/test/BivariateNormalTest.h b/Framework/CurveFitting/test/BivariateNormalTest.h
index d3f8c5bd6c010c21a801f7cd55f12defb17f37d9..9645cd95927d825c4400c83f291f898497ae93a9 100644
--- a/Framework/CurveFitting/test/BivariateNormalTest.h
+++ b/Framework/CurveFitting/test/BivariateNormalTest.h
@@ -21,7 +21,6 @@
#include "MantidCurveFitting/GSLFunctions.h"
#include "MantidKernel/UnitFactory.h"
*/
-#include <iostream>
#include <cmath>
#include <stdio.h>
#include <stdlib.h>
diff --git a/Framework/CurveFitting/test/Bk2BkExpConvPVTest.h b/Framework/CurveFitting/test/Bk2BkExpConvPVTest.h
index 9897818fbc4b5e631475ca687260b7cca4cb135d..46cb015c0f921e2af7a4bcf3accee7348be2bafb 100644
--- a/Framework/CurveFitting/test/Bk2BkExpConvPVTest.h
+++ b/Framework/CurveFitting/test/Bk2BkExpConvPVTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include "MantidCurveFitting/Bk2BkExpConvPV.h"
diff --git a/Framework/CurveFitting/test/CubicSplineTest.h b/Framework/CurveFitting/test/CubicSplineTest.h
index 4412cd13f5e308158cf79a9eeb48732ddae05bc0..f9a21e89591d04d0afa1c2943e88446a098a47e0 100644
--- a/Framework/CurveFitting/test/CubicSplineTest.h
+++ b/Framework/CurveFitting/test/CubicSplineTest.h
@@ -4,7 +4,6 @@
#include <boost/scoped_array.hpp>
#include <cmath>
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include "MantidCurveFitting/CubicSpline.h"
#include "MantidCurveFitting/Fit.h"
diff --git a/Framework/CurveFitting/test/DiffSphereTest.h b/Framework/CurveFitting/test/DiffSphereTest.h
index 45ef43ca1072ea36e61282e52501506d296c26c3..17d2e95afd9b115fcab90a1a311baa33d63013ab 100644
--- a/Framework/CurveFitting/test/DiffSphereTest.h
+++ b/Framework/CurveFitting/test/DiffSphereTest.h
@@ -1,7 +1,6 @@
#ifndef DIFFSPHERETEST_H_
#define DIFFSPHERETEST_H_
-#include <iostream>
#include <fstream>
#include <limits>
#include <numeric>
diff --git a/Framework/CurveFitting/test/FlatBackgroundTest.h b/Framework/CurveFitting/test/FlatBackgroundTest.h
index a93d1a379247bb7222bb0af32ee6889c581f9ad7..bc0dd6bbe920f081dfd366d54a2a61c04448c220 100644
--- a/Framework/CurveFitting/test/FlatBackgroundTest.h
+++ b/Framework/CurveFitting/test/FlatBackgroundTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidCurveFitting/FlatBackground.h"
diff --git a/Framework/CurveFitting/test/LeBailFitTest.h b/Framework/CurveFitting/test/LeBailFitTest.h
index 367da9173d58de7fbc930245072ebf27239bca6a..0a680a21882ea35e5dd8b40b6be94e28635dc523 100644
--- a/Framework/CurveFitting/test/LeBailFitTest.h
+++ b/Framework/CurveFitting/test/LeBailFitTest.h
@@ -8,8 +8,6 @@
#include "MantidCurveFitting/LeBailFit.h"
#include "MantidDataHandling/LoadAscii.h"
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/CurveFitting/test/LeBailFunctionTest.h b/Framework/CurveFitting/test/LeBailFunctionTest.h
index af5ecb5b30b30784720c1e4c0ce9945d0f35f34e..c4f22cd43abfd1af0e8d693dfe58b3d07a6968f8 100644
--- a/Framework/CurveFitting/test/LeBailFunctionTest.h
+++ b/Framework/CurveFitting/test/LeBailFunctionTest.h
@@ -5,8 +5,6 @@
#include "MantidAPI/WorkspaceFactory.h"
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include <fstream>
#include "MantidCurveFitting/LeBailFunction.h"
diff --git a/Framework/CurveFitting/test/MultiDomainCreatorTest.h b/Framework/CurveFitting/test/MultiDomainCreatorTest.h
index 83eafed823d50e2c85f4faf697a3271c4d50aa29..96f3dbab2de5fe35887c085723e248f5d63407bd 100644
--- a/Framework/CurveFitting/test/MultiDomainCreatorTest.h
+++ b/Framework/CurveFitting/test/MultiDomainCreatorTest.h
@@ -20,7 +20,6 @@
#include <cxxtest/TestSuite.h>
#include <boost/make_shared.hpp>
#include <algorithm>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/CurveFitting/test/MultiDomainFunctionTest.h b/Framework/CurveFitting/test/MultiDomainFunctionTest.h
index f99acf8e0d5ff8e99d07a562e4e5a0510e7fae9b..afc12650780ca6f0e630e1e0a5dae6083a6d3a1f 100644
--- a/Framework/CurveFitting/test/MultiDomainFunctionTest.h
+++ b/Framework/CurveFitting/test/MultiDomainFunctionTest.h
@@ -18,7 +18,6 @@
#include <cxxtest/TestSuite.h>
#include <boost/make_shared.hpp>
#include <algorithm>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/CurveFitting/test/ThermalNeutronBk2BkExpConvPVoigtTest.h b/Framework/CurveFitting/test/ThermalNeutronBk2BkExpConvPVoigtTest.h
index 4c4aaccc8a542460d3dc7441f8515ef72ef252a4..0be6d35d56e5ee0d15c12d432c080c335aaf0964 100644
--- a/Framework/CurveFitting/test/ThermalNeutronBk2BkExpConvPVoigtTest.h
+++ b/Framework/CurveFitting/test/ThermalNeutronBk2BkExpConvPVoigtTest.h
@@ -2,7 +2,6 @@
#define MANTID_CURVEFITTING_THERMALNEUTRONBK2BKEXPCONVPVTEST_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <fstream>
#include <cmath>
diff --git a/Framework/CurveFitting/test/ThermalNeutronDtoTOFFunctionTest.h b/Framework/CurveFitting/test/ThermalNeutronDtoTOFFunctionTest.h
index 991cb0884f577e89b5bd47513ec117d8c12ad4a1..e24ea0b0262732010a508f4e85abeb1dacfa30d8 100644
--- a/Framework/CurveFitting/test/ThermalNeutronDtoTOFFunctionTest.h
+++ b/Framework/CurveFitting/test/ThermalNeutronDtoTOFFunctionTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <math.h>
#include <fstream>
diff --git a/Framework/DataHandling/inc/MantidDataHandling/LoadANSTOHelper.h b/Framework/DataHandling/inc/MantidDataHandling/LoadANSTOHelper.h
index 7776187428c496f80e7c7011322cb10a5be3ddfa..134809d2757324a1e06eb5ab96e667ced139839e 100644
--- a/Framework/DataHandling/inc/MantidDataHandling/LoadANSTOHelper.h
+++ b/Framework/DataHandling/inc/MantidDataHandling/LoadANSTOHelper.h
@@ -22,6 +22,7 @@
namespace Mantid {
namespace DataHandling {
namespace ANSTO {
+
/// pointer to the vector of events
typedef std::vector<DataObjects::TofEvent> *EventVector_pt;
@@ -47,61 +48,75 @@ public:
void complete();
};
-class EventCounter {
-private:
+class EventProcessor {
+protected:
// fields
- std::vector<size_t> &m_eventCounts;
- const std::vector<bool> &m_mask;
- const std::vector<int> &m_offsets;
+ const std::vector<bool> &m_roi;
const size_t m_stride;
- const size_t m_pixelsCutOffL;
- const size_t m_tubeBinning;
- const size_t m_finalBinsY;
- // tof boundaries
- double m_tofMin;
- double m_tofMax;
- // correction
+ // tof correction
const double m_period;
const double m_phase;
+ // boundaries
+ const double m_tofMinBoundary;
+ const double m_tofMaxBoundary;
+
+ // methods
+ virtual void endOfFrameImpl() = 0;
+ virtual void addEventImpl(size_t id, double tof) = 0;
public:
// construction
- EventCounter(std::vector<size_t> &eventCounts, const std::vector<bool> &mask,
- const std::vector<int> &offsets, size_t stride,
- size_t pixelsCutOffL, size_t tubeBinning, size_t finalBinsY,
- double periode, double phase);
-
- // properties
- double tofMin() const;
- double tofMax() const;
+ EventProcessor(const std::vector<bool> &roi, const size_t stride,
+ const double period, const double phase,
+ const double tofMinBoundary, const double tofMaxBoundary);
// methods
+ void endOfFrame();
void addEvent(size_t x, size_t y, double tof);
};
-class EventAssigner {
-private:
+class EventCounter : public EventProcessor {
+protected:
// fields
- std::vector<EventVector_pt> &m_eventVectors;
- const std::vector<bool> &m_mask;
- const std::vector<int> &m_offsets;
- const size_t m_stride;
- const size_t m_pixelsCutOffL;
- const size_t m_tubeBinning;
- const size_t m_finalBinsY;
- // correction
- const double m_period;
- const double m_phase;
+ std::vector<size_t> &m_eventCounts;
+ // number of frames
+ size_t m_numFrames;
+ // tof
+ double m_tofMin;
+ double m_tofMax;
+
+ // methods
+ virtual void endOfFrameImpl();
+ virtual void addEventImpl(size_t id, double tof);
public:
// construction
- EventAssigner(std::vector<EventVector_pt> &eventVectors,
- const std::vector<bool> &mask, const std::vector<int> &offsets,
- size_t stride, size_t pixelsCutOffL, size_t tubeBinning,
- size_t finalBinsY, double periode, double phase);
+ EventCounter(const std::vector<bool> &roi, const size_t stride,
+ const double period, const double phase,
+ const double tofMinBoundary, const double tofMaxBoundary,
+ std::vector<size_t> &eventCounts);
+
+ // properties
+ size_t numFrames() const;
+ double tofMin() const;
+ double tofMax() const;
+};
+
+class EventAssigner : public EventProcessor {
+protected:
+ // fields
+ std::vector<EventVector_pt> &m_eventVectors;
// methods
- void addEvent(size_t x, size_t y, double tof);
+ virtual void endOfFrameImpl();
+ virtual void addEventImpl(size_t id, double tof);
+
+public:
+ // construction
+ EventAssigner(const std::vector<bool> &roi, const size_t stride,
+ const double period, const double phase,
+ const double tofMinBoundary, const double tofMaxBoundary,
+ std::vector<EventVector_pt> &eventVectors);
};
class FastReadOnlyFile {
@@ -125,6 +140,7 @@ public:
};
namespace Tar {
+
struct EntryHeader {
// cppcheck-suppress unusedStructMember
char FileName[100];
@@ -158,8 +174,6 @@ struct EntryHeader {
char FilenamePrefix[155];
};
-template <size_t N> int64_t octalToInt(char(&str)[N]);
-
class File {
static const auto BUFFER_SIZE = 4096;
@@ -206,8 +220,10 @@ public:
size_t read(void *dst, size_t size);
int read_byte();
};
-}
-}
-}
-}
+
+} // Tar
+} // ANSTO
+} // DataHandling
+} // Mantid
+
#endif // DATAHANDING_ANSTO_H_
\ No newline at end of file
diff --git a/Framework/DataHandling/inc/MantidDataHandling/LoadBBY.h b/Framework/DataHandling/inc/MantidDataHandling/LoadBBY.h
index 75c9c4f54e4a70d0c700cc4efd5ec45e89962667..37cfc22c64995142aff1445f08cc7d68b660b4fd 100644
--- a/Framework/DataHandling/inc/MantidDataHandling/LoadBBY.h
+++ b/Framework/DataHandling/inc/MantidDataHandling/LoadBBY.h
@@ -15,8 +15,7 @@ namespace Mantid {
namespace DataHandling {
/**
Loads a Bilby data file. Implements API::IFileLoader and its file check methods
-to
-recognise a file as the one containing Bilby data.
+to recognise a file as the one containing Bilby data.
@author David Mannicke (ANSTO), Anders Markvardsen (ISIS), Roman Tolchenov
(Tessella plc)
@@ -34,7 +33,7 @@ the Free Software Foundation; either version 3 of the License, or
Mantid is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
-MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
@@ -45,6 +44,32 @@ Code Documentation is available at: <http://doxygen.mantidproject.org>
*/
class DLLExport LoadBBY : public API::IFileLoader<Kernel::FileDescriptor> {
+
+ struct InstrumentInfo {
+ //
+ int32_t bm_counts;
+ int32_t att_pos;
+ //
+ double period_master;
+ double period_slave;
+ double phase_slave;
+ //
+ double L1_chopper_value;
+ double L2_det_value;
+ //
+ double L2_curtainl_value;
+ double L2_curtainr_value;
+ double L2_curtainu_value;
+ double L2_curtaind_value;
+ //
+ double D_det_value;
+ //
+ double D_curtainl_value;
+ double D_curtainr_value;
+ double D_curtainu_value;
+ double D_curtaind_value;
+ };
+
public:
// construction
LoadBBY() {}
@@ -68,26 +93,26 @@ protected:
virtual void exec();
private:
+ // region of intreset
+ static std::vector<bool> createRoiVector(const std::string &maskfile);
+
// instrument creation
- Geometry::Instrument_sptr
- createInstrument(ANSTO::Tar::File &tarFile, size_t pixelsCutOffL,
- size_t pixelsCutOffH, size_t tubeBinning, size_t finalBinsY);
+ Geometry::Instrument_sptr createInstrument(ANSTO::Tar::File &tarFile,
+ InstrumentInfo &instrumentInfo);
// load nx dataset
template <class T>
- static bool loadNXDataSet(T &value, NeXus::NXEntry &entry,
- const std::string &path);
+ static bool loadNXDataSet(NeXus::NXEntry &entry, const std::string &path,
+ T &value);
// binary file access
- template <class Counter>
+ template <class EventProcessor>
static void loadEvents(API::Progress &prog, const char *progMsg,
- ANSTO::Tar::File &file, const double tofMinBoundary,
- const double tofMaxBoundary, Counter &counter);
- static std::vector<bool> createMaskVector(const std::string &filename,
- bool &fileLoaded);
- static std::vector<int> createOffsetVector(const std::string &filename,
- bool &fileLoaded);
+ ANSTO::Tar::File &tarFile,
+ EventProcessor &eventProcessor);
};
-}
-}
+
+} // DataHandling
+} // Mantid
+
#endif // DATAHANDING_LOADBBY_H_
\ No newline at end of file
diff --git a/Framework/DataHandling/src/FilterEventsByLogValuePreNexus.cpp b/Framework/DataHandling/src/FilterEventsByLogValuePreNexus.cpp
index 3684648d6bb8b1eaee1361bd746a1860eb5ce325..78f98e8ac21bdebfd1cfc1142000ad17c84845b8 100644
--- a/Framework/DataHandling/src/FilterEventsByLogValuePreNexus.cpp
+++ b/Framework/DataHandling/src/FilterEventsByLogValuePreNexus.cpp
@@ -3,7 +3,6 @@
#include <sstream>
#include <stdexcept>
#include <functional>
-#include <iostream>
#include <set>
#include <vector>
#include <Poco/File.h>
diff --git a/Framework/DataHandling/src/FindDetectorsPar.cpp b/Framework/DataHandling/src/FindDetectorsPar.cpp
index a47d89cc73190dcc42beab2306c15fa242ec62ae..ebf13530cb10af84b215944a36f5ec26b906d378 100644
--- a/Framework/DataHandling/src/FindDetectorsPar.cpp
+++ b/Framework/DataHandling/src/FindDetectorsPar.cpp
@@ -13,7 +13,6 @@
#include <Poco/File.h>
#include <limits>
-#include <iostream>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/ISISDataArchive.cpp b/Framework/DataHandling/src/ISISDataArchive.cpp
index cf814ef149f66db057e227949477c6cddbcad672..033e7187378799512317c1a90cf582ac62de2f57 100644
--- a/Framework/DataHandling/src/ISISDataArchive.cpp
+++ b/Framework/DataHandling/src/ISISDataArchive.cpp
@@ -12,7 +12,6 @@
#include <Poco/Exception.h>
#include <sstream>
-#include <iostream>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/LoadANSTOHelper.cpp b/Framework/DataHandling/src/LoadANSTOHelper.cpp
index 55394d84ab274c7aac5c9d744bd0d1a87e73d274..2e539fb756adc0e48415746d9fcd9bbb5229d2e1 100644
--- a/Framework/DataHandling/src/LoadANSTOHelper.cpp
+++ b/Framework/DataHandling/src/LoadANSTOHelper.cpp
@@ -9,11 +9,10 @@
#include "MantidGeometry/Objects/ShapeFactory.h"
#include "MantidNexus/NexusClasses.h"
-//#include <Poco/File.h>
-
namespace Mantid {
namespace DataHandling {
namespace ANSTO {
+
// ProgressTracker
ProgressTracker::ProgressTracker(API::Progress &progBar, const char *msg,
int64_t target, size_t count)
@@ -49,26 +48,16 @@ void ProgressTracker::complete() {
}
}
-// EventCounter
-EventCounter::EventCounter(std::vector<size_t> &eventCounts,
- const std::vector<bool> &mask,
- const std::vector<int> &offsets, size_t stride,
- size_t pixelsCutOffL, size_t tubeBinning,
- size_t finalBinsY, double periode, double phase)
- : m_eventCounts(eventCounts), m_mask(mask), m_offsets(offsets),
- m_stride(stride), m_pixelsCutOffL(pixelsCutOffL),
- m_tubeBinning(tubeBinning), m_finalBinsY(finalBinsY),
- m_tofMin(std::numeric_limits<double>::max()),
- m_tofMax(std::numeric_limits<double>::min()), m_period(periode),
- m_phase(phase) {}
-double EventCounter::tofMin() const {
- return m_tofMin <= m_tofMax ? m_tofMin : 0.0;
-}
-double EventCounter::tofMax() const {
- return m_tofMin <= m_tofMax ? m_tofMax : 0.0;
-}
-void EventCounter::addEvent(size_t x, size_t y, double tof) {
- // correction
+// EventProcessor
+EventProcessor::EventProcessor(const std::vector<bool> &roi,
+ const size_t stride, const double period,
+ const double phase, const double tofMinBoundary,
+ const double tofMaxBoundary)
+ : m_roi(roi), m_stride(stride), m_period(period), m_phase(phase),
+ m_tofMinBoundary(tofMinBoundary), m_tofMaxBoundary(tofMaxBoundary) {}
+void EventProcessor::endOfFrame() { endOfFrameImpl(); }
+void EventProcessor::addEvent(size_t x, size_t y, double tof) {
+ // tof correction
if (m_period > 0.0) {
tof += m_phase;
while (tof > m_period)
@@ -77,51 +66,61 @@ void EventCounter::addEvent(size_t x, size_t y, double tof) {
tof += m_period;
}
- y = y + (size_t)m_offsets[x];
- if (y < m_stride) { // sufficient because yNew is size_t
- if (m_mask[m_stride * x + y]) {
- if (m_tofMin > tof)
- m_tofMin = tof;
- if (m_tofMax < tof)
- m_tofMax = tof;
+ // check if event is in valid range
+ if ((y < m_stride) && (m_tofMinBoundary <= tof) &&
+ (tof <= m_tofMaxBoundary)) {
- // transformation to bin index
- size_t j = (y - m_pixelsCutOffL) / m_tubeBinning;
+ // detector id
+ size_t id = m_stride * x + y;
- m_eventCounts[m_finalBinsY * x + j]++;
- }
+ // check if neutron is in region of intreset
+ if (m_roi[id])
+ addEventImpl(id, tof);
}
}
-// EventAssigner
-EventAssigner::EventAssigner(std::vector<EventVector_pt> &eventVectors,
- const std::vector<bool> &mask,
- const std::vector<int> &offsets, size_t stride,
- size_t pixelsCutOffL, size_t tubeBinning,
- size_t finalBinsY, double periode, double phase)
- : m_eventVectors(eventVectors), m_mask(mask), m_offsets(offsets),
- m_stride(stride), m_pixelsCutOffL(pixelsCutOffL),
- m_tubeBinning(tubeBinning), m_finalBinsY(finalBinsY), m_period(periode),
- m_phase(phase) {}
-void EventAssigner::addEvent(size_t x, size_t y, double tof) {
- // correction
- if (m_period > 0.0) {
- tof += m_phase;
- while (tof > m_period)
- tof -= m_period;
- while (tof < 0)
- tof += m_period;
- }
-
- y = y + (size_t)m_offsets[x];
- if (y < m_stride) { // sufficient because yNew is size_t
- if (m_mask[m_stride * x + y]) {
- // transformation to bin index
- size_t j = (y - m_pixelsCutOffL) / m_tubeBinning;
+// EventCounter
+EventCounter::EventCounter(const std::vector<bool> &roi, const size_t stride,
+ const double period, const double phase,
+ const double tofMinBoundary,
+ const double tofMaxBoundary,
+ std::vector<size_t> &eventCounts)
+ : EventProcessor(roi, stride, period, phase, tofMinBoundary,
+ tofMaxBoundary),
+ m_eventCounts(eventCounts), m_numFrames(0),
+ m_tofMin(std::numeric_limits<double>::max()),
+ m_tofMax(std::numeric_limits<double>::min()) {}
+size_t EventCounter::numFrames() const { return m_numFrames; }
+double EventCounter::tofMin() const {
+ return m_tofMin <= m_tofMax ? m_tofMin : 0.0;
+}
+double EventCounter::tofMax() const {
+ return m_tofMin <= m_tofMax ? m_tofMax : 0.0;
+}
+void EventCounter::endOfFrameImpl() { m_numFrames++; }
+void EventCounter::addEventImpl(size_t id, double tof) {
+ if (m_tofMin > tof)
+ m_tofMin = tof;
+ if (m_tofMax < tof)
+ m_tofMax = tof;
+
+ m_eventCounts[id]++;
+}
- m_eventVectors[m_finalBinsY * x + j]->push_back(tof);
- }
- }
+// EventAssigner
+EventAssigner::EventAssigner(const std::vector<bool> &roi, const size_t stride,
+ const double period, const double phase,
+ const double tofMinBoundary,
+ const double tofMaxBoundary,
+ std::vector<EventVector_pt> &eventVectors)
+ : EventProcessor(roi, stride, period, phase, tofMinBoundary,
+ tofMaxBoundary),
+ m_eventVectors(eventVectors) {}
+void EventAssigner::endOfFrameImpl() {
+ // ignore
+}
+void EventAssigner::addEventImpl(size_t id, double tof) {
+ m_eventVectors[id]->push_back(tof);
}
// FastReadOnlyFile
@@ -332,7 +331,8 @@ int File::read_byte() {
m_position++;
return m_buffer[m_bufferPosition++];
}
-}
-}
-} // namespace
-} // namespace
\ No newline at end of file
+
+} // Tar
+} // ANSTO
+} // DataHandling
+} // Mantid
\ No newline at end of file
diff --git a/Framework/DataHandling/src/LoadBBY.cpp b/Framework/DataHandling/src/LoadBBY.cpp
index 8697cb516daf673774849deae53ec9430ff138a2..5c670badbacd110171d22b117186b3d4f9f54c32 100644
--- a/Framework/DataHandling/src/LoadBBY.cpp
+++ b/Framework/DataHandling/src/LoadBBY.cpp
@@ -1,5 +1,6 @@
#include "MantidDataHandling/LoadBBY.h"
#include "MantidDataObjects/EventWorkspace.h"
+#include "MantidKernel/PropertyWithValue.h"
#include "MantidAPI/FileProperty.h"
#include "MantidAPI/RegisterFileLoader.h"
#include "MantidAPI/WorkspaceValidators.h"
@@ -10,9 +11,12 @@
#include "MantidNexus/NexusClasses.h"
#include <Poco/TemporaryFile.h>
+#include <math.h>
+#include <stdio.h>
namespace Mantid {
namespace DataHandling {
+
// register the algorithm into the AlgorithmFactory
DECLARE_FILELOADER_ALGORITHM(LoadBBY)
@@ -20,11 +24,37 @@ DECLARE_FILELOADER_ALGORITHM(LoadBBY)
static const size_t HISTO_BINS_X = 240;
static const size_t HISTO_BINS_Y = 256;
// 100 = 40 + 20 + 40
-static const size_t Progress_LoadBinFile = 40;
-static const size_t Progress_ReserveMemory = 20;
+static const size_t Progress_LoadBinFile = 48;
+static const size_t Progress_ReserveMemory = 4;
+static const size_t Progress_Total =
+ 2 * Progress_LoadBinFile + Progress_ReserveMemory;
+
+static char const *const FilenameStr = "Filename";
+static char const *const MaskStr = "Mask";
+
+static char const *const PeriodMasterStr = "PeriodMaster";
+static char const *const PeriodSlaveStr = "PeriodSlave";
+static char const *const PhaseSlaveStr = "PhaseSlave";
+
+static char const *const FilterByTofMinStr = "FilterByTofMin";
+static char const *const FilterByTofMaxStr = "FilterByTofMax";
using ANSTO::EventVector_pt;
+template <typename TYPE>
+void AddSinglePointTimeSeriesProperty(API::LogManager &logManager,
+ const std::string &time,
+ const std::string &name,
+ const TYPE value) {
+ // create time series property and add single value
+ Kernel::TimeSeriesProperty<TYPE> *p =
+ new Kernel::TimeSeriesProperty<TYPE>(name);
+ p->addValue(time, value);
+
+ // add to log manager
+ logManager.addProperty(p);
+}
+
class BbyDetectorBankFactory {
private:
// fields
@@ -83,7 +113,7 @@ int LoadBBY::confidence(Kernel::FileDescriptor &descriptor) const {
* read from after the execution (output).
*/
void LoadBBY::init() {
- // Specify file extensions which can be associated with a BBY file.
+ // Specify file extensions which can be associated with a specific file.
std::vector<std::string> exts;
// Declare the Filename algorithm property. Mandatory. Sets the path to the
@@ -91,181 +121,110 @@ void LoadBBY::init() {
exts.clear();
exts.push_back(".tar");
declareProperty(
- new API::FileProperty("Filename", "", API::FileProperty::Load, exts),
+ new API::FileProperty(FilenameStr, "", API::FileProperty::Load, exts),
"The input filename of the stored data");
// mask
exts.clear();
exts.push_back(".xml");
declareProperty(
- new API::FileProperty("Mask", "", API::FileProperty::OptionalLoad, exts),
+ new API::FileProperty(MaskStr, "", API::FileProperty::OptionalLoad, exts),
"The input filename of the mask data");
- // offsets
- exts.clear();
- exts.push_back(".csv");
- declareProperty(new API::FileProperty("TubeOffsets", "",
- API::FileProperty::OptionalLoad, exts),
- "The input filename of the tube offset data");
-
+ // OutputWorkspace
declareProperty(new API::WorkspaceProperty<API::IEventWorkspace>(
"OutputWorkspace", "", Kernel::Direction::Output));
- declareProperty(new Kernel::PropertyWithValue<size_t>(
- "TubeBinning", 1, Kernel::Direction::Input),
- "Default: 1");
-
+ // FilterByTofMin
declareProperty(new Kernel::PropertyWithValue<double>(
- "FilterByTofMin", 0, Kernel::Direction::Input),
+ FilterByTofMinStr, 0, Kernel::Direction::Input),
"Optional: To exclude events that do not fall within a range "
"of times-of-flight. "
"This is the minimum accepted value in microseconds. Keep "
"blank to load all events.");
+
+ // FilterByTofMax
declareProperty(new Kernel::PropertyWithValue<double>(
- "FilterByTofMax", 50000000, Kernel::Direction::Input),
+ FilterByTofMaxStr, EMPTY_DBL(), Kernel::Direction::Input),
"Optional: To exclude events that do not fall within a range "
"of times-of-flight. "
"This is the maximum accepted value in microseconds. Keep "
"blank to load all events.");
+
+ // FilterByTimeStart
declareProperty(
new Kernel::PropertyWithValue<double>("FilterByTimeStart", EMPTY_DBL(),
Kernel::Direction::Input),
"Optional: To only include events after the provided start time, in "
"seconds (relative to the start of the run).");
+
+ // FilterByTimeStop
declareProperty(
new Kernel::PropertyWithValue<double>("FilterByTimeStop", EMPTY_DBL(),
Kernel::Direction::Input),
"Optional: To only include events before the provided stop time, in "
"seconds (relative to the start of the run).");
+ // period and phase
declareProperty(new Kernel::PropertyWithValue<double>(
- "PeriodMaster", 0.0, Kernel::Direction::Input),
- "Optional:");
+ PeriodMasterStr, EMPTY_DBL(), Kernel::Direction::Input),
+ "Optional");
declareProperty(new Kernel::PropertyWithValue<double>(
- "PeriodSlave", 0.0, Kernel::Direction::Input),
- "Optional:");
+ PeriodSlaveStr, EMPTY_DBL(), Kernel::Direction::Input),
+ "Optional");
declareProperty(new Kernel::PropertyWithValue<double>(
- "PhaseSlave", 0.0, Kernel::Direction::Input),
- "Optional:");
+ PhaseSlaveStr, EMPTY_DBL(), Kernel::Direction::Input),
+ "Optional");
- std::string grpOptional = "Optional";
- setPropertyGroup("TubeBinning", grpOptional);
- setPropertyGroup("FilterByTofMin", grpOptional);
- setPropertyGroup("FilterByTofMax", grpOptional);
+ std::string grpOptional = "Filters";
+ setPropertyGroup(FilterByTofMinStr, grpOptional);
+ setPropertyGroup(FilterByTofMaxStr, grpOptional);
setPropertyGroup("FilterByTimeStart", grpOptional);
setPropertyGroup("FilterByTimeStop", grpOptional);
std::string grpPhaseCorrection = "Phase Correction";
- setPropertyGroup("PeriodMaster", grpPhaseCorrection);
- setPropertyGroup("PeriodSlave", grpPhaseCorrection);
- setPropertyGroup("PhaseSlave", grpPhaseCorrection);
+ setPropertyGroup(PeriodMasterStr, grpPhaseCorrection);
+ setPropertyGroup(PeriodSlaveStr, grpPhaseCorrection);
+ setPropertyGroup(PhaseSlaveStr, grpPhaseCorrection);
}
/**
* Execute the algorithm.
*/
void LoadBBY::exec() {
-
// Delete the output workspace name if it existed
std::string outName = getPropertyValue("OutputWorkspace");
if (API::AnalysisDataService::Instance().doesExist(outName))
API::AnalysisDataService::Instance().remove(outName);
// Get the name of the data file.
- std::string filename = getPropertyValue("Filename");
- ANSTO::Tar::File file(filename);
- if (!file.good())
- return;
+ std::string filename = getPropertyValue(FilenameStr);
+ ANSTO::Tar::File tarFile(filename);
+ if (!tarFile.good())
+ throw std::invalid_argument("invalid BBY file");
- // load mask file
- bool maskFileLoaded = false;
- std::vector<bool> mask =
- createMaskVector(getPropertyValue("Mask"), maskFileLoaded);
-
- // load tube offsets
- bool offsetFileLoaded = false;
- std::vector<int> offsets =
- createOffsetVector(getPropertyValue("TubeOffsets"), offsetFileLoaded);
- for (size_t x = 0; x != HISTO_BINS_X; x++) {
- int offset = offsets[x];
- if (offset != 0) {
- maskFileLoaded = true;
-
- size_t s0 = HISTO_BINS_Y * x;
- if (offset > 0) {
- for (int y = 0; y != offset; y++)
- mask[s0 + (size_t)y] = false;
- } else { // if (offset < 0)
- for (size_t y = HISTO_BINS_Y + static_cast<size_t>(offset);
- y != HISTO_BINS_Y; y++)
- mask[s0 + y] = false;
- }
- }
- }
+ // region of intreset
+ std::vector<bool> roi = createRoiVector(getPropertyValue(MaskStr));
- size_t nBins = 1;
-
- size_t tubeBinning = getProperty("TubeBinning");
- if (tubeBinning < 1)
- tubeBinning = 1;
- else if (tubeBinning > HISTO_BINS_Y)
- tubeBinning = HISTO_BINS_Y;
-
- size_t finalBinsY = HISTO_BINS_Y / tubeBinning;
- size_t pixelsCutOff = HISTO_BINS_Y % tubeBinning;
- size_t pixelsCutOffH = pixelsCutOff / 2;
- size_t pixelsCutOffL = pixelsCutOff - pixelsCutOffH;
-
- // update masking
- if (tubeBinning > 1)
- for (size_t x = 0; x != HISTO_BINS_X; x++) {
- size_t s0 = HISTO_BINS_Y * x;
-
- // mask out cut off pixels (low)
- for (size_t y = 0; y < pixelsCutOffL; y++)
- mask[s0 + y] = false;
-
- // mask out cut off pixels (high)
- for (size_t y = HISTO_BINS_Y - pixelsCutOffH; y < HISTO_BINS_Y; y++)
- mask[s0 + y] = false;
-
- // if one pixel is masked then all pixels in that binning group have to be
- // masked
- for (size_t j = 0; j < finalBinsY; j++) {
- size_t y0 = j * tubeBinning + pixelsCutOffL;
- for (size_t dy = 0; dy < tubeBinning; dy++)
- // if one pixel is masked ...
- if (!mask[s0 + y0 + dy]) {
- for (dy = 0; dy < tubeBinning; dy++)
- mask[s0 + y0 + dy] = false; // ... mask all pixels
- break;
- }
- }
- }
+ double tofMinBoundary = getProperty(FilterByTofMinStr);
+ double tofMaxBoundary = getProperty(FilterByTofMaxStr);
- double tofMinBoundary = getProperty("FilterByTofMin");
- double tofMaxBoundary = getProperty("FilterByTofMax");
-
- // "loading neutron counts", "creating neutron event lists" and "loading
- // neutron events"
- API::Progress prog(this, 0.0, 1.0, Progress_LoadBinFile +
- Progress_ReserveMemory +
- Progress_LoadBinFile);
+ API::Progress prog(this, 0.0, 1.0, Progress_Total);
prog.doReport("creating instrument");
// create workspace
DataObjects::EventWorkspace_sptr eventWS =
boost::make_shared<DataObjects::EventWorkspace>();
- eventWS->initialize(finalBinsY * HISTO_BINS_X,
- nBins + 1, // number of TOF bin boundaries
- nBins);
+ eventWS->initialize(HISTO_BINS_Y * HISTO_BINS_X,
+ 2, // number of TOF bin boundaries
+ 1);
// set the units
eventWS->getAxis(0)->unit() = Kernel::UnitFactory::Instance().create("TOF");
eventWS->setYUnit("Counts");
// set title
- const std::vector<std::string> &subFiles = file.files();
+ const std::vector<std::string> &subFiles = tarFile.files();
for (auto itr = subFiles.begin(); itr != subFiles.end(); ++itr)
if (itr->compare(0, 3, "BBY") == 0) {
std::string title = *itr;
@@ -280,66 +239,73 @@ void LoadBBY::exec() {
break;
}
- // set auxiliaries
- eventWS->mutableRun().addProperty("Filename", filename);
- // eventWS->mutableRun().addProperty("run_number", 1);
- // eventWS->mutableRun().addProperty("run_start", "1991-01-01T00:00:00", true
- // );
- // eventWS->mutableRun().addProperty("duration", duration[0], units);
-
// create instrument
- Geometry::Instrument_sptr instrument = createInstrument(
- file, pixelsCutOffL, pixelsCutOffH, tubeBinning, finalBinsY);
- eventWS->setInstrument(instrument);
+ InstrumentInfo instrumentInfo;
- // load events
+ // Geometry::Instrument_sptr instrument =
+ createInstrument(tarFile, /* ref */ instrumentInfo);
+ // eventWS->setInstrument(instrument);
+ // load events
size_t numberHistograms = eventWS->getNumberHistograms();
std::vector<EventVector_pt> eventVectors(numberHistograms, NULL);
std::vector<size_t> eventCounts(numberHistograms, 0);
- std::vector<detid_t> detIDs = instrument->getDetectorIDs();
// phase correction
- double periodMaster = getProperty("PeriodMaster");
- double periodSlave = getProperty("PeriodSlave");
- double phaseSlave = getProperty("PhaseSlave");
-
- if ((periodMaster < 0.0) || (periodSlave < 0.0))
- throw std::runtime_error(
- "Please specify a positive value for PeriodMaster and PeriodSlave.");
+ Kernel::Property *periodMasterProperty =
+ getPointerToProperty(PeriodMasterStr);
+ Kernel::Property *periodSlaveProperty = getPointerToProperty(PeriodSlaveStr);
+ Kernel::Property *phaseSlaveProperty = getPointerToProperty(PhaseSlaveStr);
+
+ double periodMaster;
+ double periodSlave;
+ double phaseSlave;
+
+ if (periodMasterProperty->isDefault() || periodSlaveProperty->isDefault() ||
+ phaseSlaveProperty->isDefault()) {
+
+ if (!periodMasterProperty->isDefault() ||
+ !periodSlaveProperty->isDefault() || !phaseSlaveProperty->isDefault()) {
+ throw std::invalid_argument("Please specify PeriodMaster, PeriodSlave "
+ "and PhaseSlave or none of them.");
+ }
- bool setPeriodMaster = periodMaster > 0.0;
- bool setPeriodSlave = periodSlave > 0.0;
- bool setPhaseSlave = phaseSlave != 0.0;
+ // if values have not been specified in loader then use values from hdf file
+ periodMaster = instrumentInfo.period_master;
+ periodSlave = instrumentInfo.period_slave;
+ phaseSlave = instrumentInfo.phase_slave;
+ } else {
+ periodMaster = getProperty(PeriodMasterStr);
+ periodSlave = getProperty(PeriodSlaveStr);
+ phaseSlave = getProperty(PhaseSlaveStr);
- if ((setPeriodMaster != setPeriodSlave) || setPhaseSlave)
- throw std::runtime_error("Please specify PeriodMaster, PeriodSlave and "
- "PhaseSlave or none of them.");
+ if ((periodMaster < 0.0) || (periodSlave < 0.0))
+ throw std::invalid_argument(
+ "Please specify a positive value for PeriodMaster and PeriodSlave.");
+ }
- double periode = periodSlave > 0.0 ? periodSlave : periodMaster;
+ double period = periodSlave;
double shift = -1.0 / 6.0 * periodMaster - periodSlave * phaseSlave / 360.0;
// count total events per pixel to reserve necessary memory
- ANSTO::EventCounter eventCounter(eventCounts, mask, offsets, HISTO_BINS_Y,
- pixelsCutOffL, tubeBinning, finalBinsY,
- periode, shift);
- loadEvents(prog, "loading neutron counts", file, tofMinBoundary,
- tofMaxBoundary, eventCounter);
+ ANSTO::EventCounter eventCounter(roi, HISTO_BINS_Y, period, shift,
+ tofMinBoundary, tofMaxBoundary, eventCounts);
+
+ loadEvents(prog, "loading neutron counts", tarFile, eventCounter);
// prepare event storage
ANSTO::ProgressTracker progTracker(prog, "creating neutron event lists",
numberHistograms, Progress_ReserveMemory);
+
for (size_t i = 0; i != numberHistograms; ++i) {
DataObjects::EventList &eventList = eventWS->getEventList(i);
- eventList.setSortOrder(
- DataObjects::PULSETIME_SORT); // why not PULSETIME[TOF]_SORT ?
+ eventList.setSortOrder(DataObjects::PULSETIME_SORT);
eventList.reserve(eventCounts[i]);
- detid_t id = detIDs[i];
- eventList.setDetectorID(id);
- eventList.setSpectrumNo(id);
+ eventList.setDetectorID(Mantid::detid_t(i));
+ eventList.setSpectrumNo(Mantid::detid_t(i));
DataObjects::getEventsFrom(eventList, eventVectors[i]);
@@ -347,52 +313,35 @@ void LoadBBY::exec() {
}
progTracker.complete();
- ANSTO::EventAssigner eventAssigner(eventVectors, mask, offsets, HISTO_BINS_Y,
- pixelsCutOffL, tubeBinning, finalBinsY,
- periode, shift);
- loadEvents(prog, "loading neutron events", file, tofMinBoundary,
- tofMaxBoundary, eventAssigner);
+ ANSTO::EventAssigner eventAssigner(roi, HISTO_BINS_Y, period, shift,
+ tofMinBoundary, tofMaxBoundary,
+ eventVectors);
+
+ loadEvents(prog, "loading neutron events", tarFile, eventAssigner);
Kernel::cow_ptr<MantidVec> axis;
MantidVec &xRef = axis.access();
xRef.resize(2, 0.0);
- xRef[0] = std::max(0.0, eventCounter.tofMin() -
- 1); // just to make sure the bins hold it all
+ xRef[0] = std::max(
+ 0.0,
+ floor(eventCounter.tofMin())); // just to make sure the bins hold it all
xRef[1] = eventCounter.tofMax() + 1;
eventWS->setAllX(axis);
- if (maskFileLoaded) {
- // count total number of masked bins
- size_t maskedBins = 0;
-
- for (size_t x = 0; x != HISTO_BINS_X; x++) {
- size_t s0 = HISTO_BINS_Y * x;
- for (size_t j = 0; j < finalBinsY; j++) {
- size_t y0 = j * tubeBinning + pixelsCutOffL;
- for (size_t dy = 0; dy < tubeBinning; dy++)
- if (!mask[s0 + y0 + dy]) {
- maskedBins++;
- break;
- }
- }
- }
+ // count total number of masked bins
+ size_t maskedBins = 0;
+ for (size_t i = 0; i != roi.size(); i++)
+ if (!roi[i])
+ maskedBins++;
+ if (maskedBins > 0) {
// create list of masked bins
std::vector<size_t> maskIndexList(maskedBins);
- size_t binIndex = 0;
size_t maskIndex = 0;
- for (size_t x = 0; x != HISTO_BINS_X; x++) {
- size_t s0 = HISTO_BINS_Y * x;
- for (size_t j = 0; j < finalBinsY; j++, binIndex++) {
- size_t y0 = j * tubeBinning + pixelsCutOffL;
- for (size_t dy = 0; dy < tubeBinning; dy++)
- if (!mask[s0 + y0 + dy]) {
- maskIndexList[maskIndex++] = binIndex;
- break;
- }
- }
- }
+ for (size_t i = 0; i != roi.size(); i++)
+ if (!roi[i])
+ maskIndexList[maskIndex++] = i;
API::IAlgorithm_sptr maskingAlg = createChildAlgorithm("MaskDetectors");
maskingAlg->setProperty("Workspace", eventWS);
@@ -400,53 +349,143 @@ void LoadBBY::exec() {
maskingAlg->executeAsChildAlg();
}
+ // set log values
+ API::LogManager &logManager = eventWS->mutableRun();
+
+ logManager.addProperty("filename", filename);
+ logManager.addProperty("att_pos", static_cast<int>(instrumentInfo.att_pos));
+ logManager.addProperty("frame_count",
+ static_cast<int>(eventCounter.numFrames()));
+ logManager.addProperty("period", period);
+
+ // currently beam monitor counts are not available, instead number of frames
+ // times period is used
+ logManager.addProperty(
+ "bm_counts", static_cast<double>(eventCounter.numFrames()) * period /
+ 1.0e6); // static_cast<double>(instrumentInfo.bm_counts)
+
+ // currently
+ Kernel::time_duration duration =
+ boost::posix_time::microseconds(static_cast<boost::int64_t>(
+ static_cast<double>(eventCounter.numFrames()) * period));
+
+ Kernel::DateAndTime start_time("2000-01-01T00:00:00");
+ Kernel::DateAndTime end_time(start_time + duration);
+
+ logManager.addProperty("start_time", start_time.toISO8601String());
+ logManager.addProperty("end_time", end_time.toISO8601String());
+
+ std::string time_str = start_time.toISO8601String();
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L1_chopper_value",
+ instrumentInfo.L1_chopper_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_det_value",
+ instrumentInfo.L2_det_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainl_value",
+ instrumentInfo.L2_curtainl_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainr_value",
+ instrumentInfo.L2_curtainr_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtainu_value",
+ instrumentInfo.L2_curtainu_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "L2_curtaind_value",
+ instrumentInfo.L2_curtaind_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "D_det_value",
+ instrumentInfo.D_det_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainl_value",
+ instrumentInfo.D_curtainl_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainr_value",
+ instrumentInfo.D_curtainr_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtainu_value",
+ instrumentInfo.D_curtainu_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "D_curtaind_value",
+ instrumentInfo.D_curtaind_value);
+ AddSinglePointTimeSeriesProperty(logManager, time_str, "curtain_rotation",
+ 10.0);
+
+ API::IAlgorithm_sptr loadInstrumentAlg =
+ createChildAlgorithm("LoadInstrument");
+ loadInstrumentAlg->setProperty("Workspace", eventWS);
+ loadInstrumentAlg->setPropertyValue("InstrumentName", "BILBY");
+ loadInstrumentAlg->executeAsChildAlg();
+
setProperty("OutputWorkspace", eventWS);
}
-// instrument creation
-Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
- size_t pixelsCutOffL,
- size_t pixelsCutOffH,
- size_t tubeBinning,
- size_t finalBinsY) {
- // instrument
- Geometry::Instrument_sptr instrument =
- boost::make_shared<Geometry::Instrument>("BILBY");
- instrument->setDefaultViewAxis("Z-");
+// region of intreset
+std::vector<bool> LoadBBY::createRoiVector(const std::string &maskfile) {
+ std::vector<bool> result(HISTO_BINS_Y * HISTO_BINS_X, true);
+
+ if (maskfile.length() == 0)
+ return result;
+
+ std::ifstream input(maskfile.c_str());
+ if (!input.good())
+ throw std::invalid_argument("invalid mask file");
+
+ std::string line;
+ while (std::getline(input, line)) {
+ auto i0 = line.find("<detids>");
+ auto iN = line.find("</detids>");
+
+ if ((i0 != std::string::npos) && (iN != std::string::npos) && (i0 < iN)) {
+ line = line.substr(i0 + 8, iN - i0 - 8); // 8 = len("<detids>")
+ std::stringstream ss(line);
+
+ std::string item;
+ while (std::getline(ss, item, ',')) {
+ auto k = item.find('-');
+
+ size_t p0, p1;
+ if (k != std::string::npos) {
+ p0 = boost::lexical_cast<size_t>(item.substr(0, k));
+ p1 = boost::lexical_cast<size_t>(
+ item.substr(k + 1, item.size() - k - 1));
+
+ if (p0 > p1)
+ std::swap(p0, p1);
+ } else {
+ p0 = boost::lexical_cast<size_t>(item);
+ p1 = p0;
+ }
- // source
- Geometry::ObjComponent *source =
- new Geometry::ObjComponent("Source", instrument.get());
- instrument->add(source);
- instrument->markAsSource(source);
+ if (p0 < result.size()) {
+ if (p1 >= result.size())
+ p1 = result.size() - 1;
- //// chopper
- // Geometry::ObjComponent *chopperPoint = new
- // Geometry::ObjComponent("Chopper", instrument.get());
- // instrument->add(chopper);
- // instrument->markAsChopperPoint(chopper);
+ while (p0 <= p1)
+ result[p0++] = false;
+ }
+ }
+ }
+ }
- // sample
- Geometry::ObjComponent *samplePos =
- new Geometry::ObjComponent("Sample", instrument.get());
- instrument->add(samplePos);
- instrument->markAsSamplePos(samplePos);
+ return result;
+}
+
+// instrument creation
+Geometry::Instrument_sptr
+LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
+ InstrumentInfo &instrumentInfo) {
+ instrumentInfo.bm_counts = 0;
+ instrumentInfo.att_pos = 0;
- double L2_det_value = 33.15616015625;
- double L1_chopper_value = 18.47258984375;
- // double L1_source_value = 9.35958984375;
+ instrumentInfo.period_master = 0.0;
+ instrumentInfo.period_slave = 0.0;
+ instrumentInfo.phase_slave = 0.0;
- double L2_curtainl_value = 23.28446093750;
- double L2_curtainr_value = 23.28201953125;
- double L2_curtainu_value = 24.28616015625;
- double L2_curtaind_value = 24.28235937500;
+ instrumentInfo.L1_chopper_value = 18.47258984375;
+ instrumentInfo.L2_det_value = 33.15616015625;
- double D_det_value = (8.4 + 2.0) / (2 * 1000);
+ instrumentInfo.L2_curtainl_value = 23.28446093750;
+ instrumentInfo.L2_curtainr_value = 23.28201953125;
+ instrumentInfo.L2_curtainu_value = 24.28616015625;
+ instrumentInfo.L2_curtaind_value = 24.28235937500;
- double D_curtainl_value = 0.3816;
- double D_curtainr_value = 0.4024;
- double D_curtainu_value = 0.3947;
- double D_curtaind_value = 0.3978;
+ instrumentInfo.D_det_value = (8.4 + 2.0) / (2 * 1000);
+
+ instrumentInfo.D_curtainl_value = 0.3816;
+ instrumentInfo.D_curtainr_value = 0.4024;
+ instrumentInfo.D_curtainu_value = 0.3947;
+ instrumentInfo.D_curtaind_value = 0.3978;
// extract hdf file
int64_t fileSize = 0;
@@ -459,7 +498,7 @@ Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
}
if (fileSize != 0) {
- // create tmp file
+ // extract hdf file into tmp file
Poco::TemporaryFile hdfFile;
boost::shared_ptr<FILE> handle(fopen(hdfFile.path().c_str(), "wb"), fclose);
if (handle) {
@@ -473,37 +512,72 @@ Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
NeXus::NXRoot root(hdfFile.path());
NeXus::NXEntry entry = root.openFirstEntry();
- float tmp;
+ float tmp_float;
+ int32_t tmp_int32 = 0;
const double toMeters = 1.0 / 1000;
- if (loadNXDataSet(tmp, entry, "instrument/L2_det"))
- L2_det_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/Ltof_det"))
- L1_chopper_value = tmp * toMeters - L2_det_value;
- // if (loadNXDataSet(tmp, entry, "instrument/L1"))
- // L1_source_value = tmp * toMeters;
-
- if (loadNXDataSet(tmp, entry, "instrument/L2_curtainl"))
- L2_curtainl_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/L2_curtainr"))
- L2_curtainr_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/L2_curtainu"))
- L2_curtainu_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/L2_curtaind"))
- L2_curtaind_value = tmp * toMeters;
-
- if (loadNXDataSet(tmp, entry, "instrument/detector/curtainl"))
- D_curtainl_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/detector/curtainr"))
- D_curtainr_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/detector/curtainu"))
- D_curtainu_value = tmp * toMeters;
- if (loadNXDataSet(tmp, entry, "instrument/detector/curtaind"))
- D_curtaind_value = tmp * toMeters;
+ if (loadNXDataSet(entry, "monitor/bm1_counts", tmp_int32))
+ instrumentInfo.bm_counts = tmp_int32;
+ if (loadNXDataSet(entry, "instrument/att_pos", tmp_float))
+ instrumentInfo.att_pos =
+ static_cast<int32_t>(tmp_float + 0.5f); // [1.0, 2.0, ..., 5.0]
+
+ if (loadNXDataSet(entry, "instrument/master_chopper_freq", tmp_float))
+ instrumentInfo.period_master = 1.0 / tmp_float * 1.0e6;
+ if (loadNXDataSet(entry, "instrument/t0_chopper_freq", tmp_float))
+ instrumentInfo.period_slave = 1.0 / tmp_float * 1.0e6;
+ if (loadNXDataSet(entry, "instrument/t0_chopper_phase", tmp_float))
+ instrumentInfo.phase_slave = tmp_float < 999.0 ? tmp_float : 0.0;
+
+ if (loadNXDataSet(entry, "instrument/L2_det", tmp_float))
+ instrumentInfo.L2_det_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/Ltof_det", tmp_float))
+ instrumentInfo.L1_chopper_value =
+ tmp_float * toMeters - instrumentInfo.L2_det_value;
+ // if (loadNXDataSet(entry, "instrument/L1", tmp_float))
+ // instrumentInfo.L1_source_value = tmp_float * toMeters;
+
+ if (loadNXDataSet(entry, "instrument/L2_curtainl", tmp_float))
+ instrumentInfo.L2_curtainl_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/L2_curtainr", tmp_float))
+ instrumentInfo.L2_curtainr_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/L2_curtainu", tmp_float))
+ instrumentInfo.L2_curtainu_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/L2_curtaind", tmp_float))
+ instrumentInfo.L2_curtaind_value = tmp_float * toMeters;
+
+ if (loadNXDataSet(entry, "instrument/detector/curtainl", tmp_float))
+ instrumentInfo.D_curtainl_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/detector/curtainr", tmp_float))
+ instrumentInfo.D_curtainr_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/detector/curtainu", tmp_float))
+ instrumentInfo.D_curtainu_value = tmp_float * toMeters;
+ if (loadNXDataSet(entry, "instrument/detector/curtaind", tmp_float))
+ instrumentInfo.D_curtaind_value = tmp_float * toMeters;
}
}
- source->setPos(0.0, 0.0, -L1_chopper_value);
+ return Geometry::Instrument_sptr();
+
+ /*
+ // instrument
+ Geometry::Instrument_sptr instrument =
+ boost::make_shared<Geometry::Instrument>("BILBY");
+ instrument->setDefaultViewAxis("Z-");
+
+ // source
+ Geometry::ObjComponent *source = new Geometry::ObjComponent("Source",
+ instrument.get());
+ instrument->add(source);
+ instrument->markAsSource(source);
+
+ // sample
+ Geometry::ObjComponent *samplePos = new Geometry::ObjComponent("Sample",
+ instrument.get());
+ instrument->add(samplePos);
+ instrument->markAsSamplePos(samplePos);
+
+ source->setPos(0.0, 0.0, -instrumentInfo.L1_chopper_value);
samplePos->setPos(0.0, 0.0, 0.0);
// dimensions of the detector (height is in y direction, width is in x
@@ -520,14 +594,6 @@ Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
double pixel_width = width / static_cast<double>(xPixelCount);
double pixel_height = height / static_cast<double>(yPixelCount);
- // adjusting for binning
- auto diffPixelsCutOff = (pixelsCutOffL - pixelsCutOffH);
- double detectorYOffset = static_cast<double>(diffPixelsCutOff) * pixel_height;
-
- yPixelCount = finalBinsY;
- pixel_height *= static_cast<double>(tubeBinning);
- height = pixel_height * static_cast<double>(finalBinsY);
-
// final number of pixels
size_t pixelCount = xPixelCount * yPixelCount;
@@ -543,19 +609,16 @@ Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
// http://www.mantidproject.org/HowToDefineGeometricShape for details on
// shapes in Mantid.
std::string detXML =
- "<cuboid id=\"pixel\">"
- "<left-front-bottom-point x=\"+" +
- pixel_width_str + "\" y=\"-" + pixel_height_str +
- "\" z=\"0\" />"
- "<left-front-top-point x=\"+" +
- pixel_width_str + "\" y=\"-" + pixel_height_str + "\" z=\"" +
- pixel_depth_str + "\" />"
- "<left-back-bottom-point x=\"-" +
- pixel_width_str + "\" y=\"-" + pixel_height_str +
- "\" z=\"0\" />"
- "<right-front-bottom-point x=\"+" +
- pixel_width_str + "\" y=\"+" + pixel_height_str + "\" z=\"0\" />"
- "</cuboid>";
+ "<cuboid id=\"pixel\">"
+ "<left-front-bottom-point x=\"+"+pixel_width_str+"\"
+ y=\"-"+pixel_height_str+"\" z=\"0\" />"
+ "<left-front-top-point x=\"+"+pixel_width_str+"\"
+ y=\"-"+pixel_height_str+"\" z=\""+pixel_depth_str+"\" />"
+ "<left-back-bottom-point x=\"-"+pixel_width_str+"\"
+ y=\"-"+pixel_height_str+"\" z=\"0\" />"
+ "<right-front-bottom-point x=\"+"+pixel_width_str+"\"
+ y=\"+"+pixel_height_str+"\" z=\"0\" />"
+ "</cuboid>";
// Create a shape object which will be shared by all pixels.
Geometry::Object_sptr pixelShape =
@@ -564,77 +627,83 @@ Geometry::Instrument_sptr LoadBBY::createInstrument(ANSTO::Tar::File &tarFile,
// create detector banks
BbyDetectorBankFactory factory(
instrument, pixelShape, xPixelCount, yPixelCount, pixel_width,
- pixel_height,
- Kernel::V3D(0, (height - pixel_height) / 2 - detectorYOffset, 0));
+ pixel_height, Kernel::V3D(0, (height - pixel_height) / 2, 0));
// curtain l
factory.createAndAssign(0 * pixelCount,
- Kernel::V3D(+D_curtainl_value, 0, L2_curtainl_value),
+ Kernel::V3D(+instrumentInfo.D_curtainl_value, 0,
+ instrumentInfo.L2_curtainl_value),
Kernel::Quat(0, Kernel::V3D(0, 0, 1)) *
Kernel::Quat(angle, Kernel::V3D(0, 1, 0)));
// curtain r
factory.createAndAssign(1 * pixelCount,
- Kernel::V3D(-D_curtainr_value, 0, L2_curtainr_value),
+ Kernel::V3D(-instrumentInfo.D_curtainr_value, 0,
+ instrumentInfo.L2_curtainr_value),
Kernel::Quat(180, Kernel::V3D(0, 0, 1)) *
Kernel::Quat(angle, Kernel::V3D(0, 1, 0)));
// curtain u
factory.createAndAssign(2 * pixelCount,
- Kernel::V3D(0, +D_curtainu_value, L2_curtainu_value),
+ Kernel::V3D(0, +instrumentInfo.D_curtainu_value,
+ instrumentInfo.L2_curtainu_value),
Kernel::Quat(90, Kernel::V3D(0, 0, 1)) *
Kernel::Quat(angle, Kernel::V3D(0, 1, 0)));
// curtain d
factory.createAndAssign(3 * pixelCount,
- Kernel::V3D(0, -D_curtaind_value, L2_curtaind_value),
+ Kernel::V3D(0, -instrumentInfo.D_curtaind_value,
+ instrumentInfo.L2_curtaind_value),
Kernel::Quat(-90, Kernel::V3D(0, 0, 1)) *
Kernel::Quat(angle, Kernel::V3D(0, 1, 0)));
// back 1 (left)
factory.createAndAssign(4 * pixelCount,
- Kernel::V3D(+D_det_value, 0, L2_det_value),
+ Kernel::V3D(+instrumentInfo.D_det_value, 0,
+ instrumentInfo.L2_det_value),
Kernel::Quat(0, Kernel::V3D(0, 0, 1)));
// back 2 (right)
factory.createAndAssign(5 * pixelCount,
- Kernel::V3D(-D_det_value, 0, L2_det_value),
+ Kernel::V3D(-instrumentInfo.D_det_value, 0,
+ instrumentInfo.L2_det_value),
Kernel::Quat(180, Kernel::V3D(0, 0, 1)));
return instrument;
+ */
}
// load nx dataset
template <class T>
-bool LoadBBY::loadNXDataSet(T &value, NeXus::NXEntry &entry,
- const std::string &path) {
+bool LoadBBY::loadNXDataSet(NeXus::NXEntry &entry, const std::string &path,
+ T &value) {
try {
- // if (entry.isValid(path)) {
- NeXus::NXDataSetTyped<T> dataSet = entry.openNXDataSet<float>(path);
+ NeXus::NXDataSetTyped<T> dataSet = entry.openNXDataSet<T>(path);
dataSet.load();
value = *dataSet();
return true;
- //}
} catch (std::runtime_error &) {
+ return false;
}
- return false;
}
// read counts/events from binary file
-template <class Counter>
+template <class EventProcessor>
void LoadBBY::loadEvents(API::Progress &prog, const char *progMsg,
- ANSTO::Tar::File &file, const double tofMinBoundary,
- const double tofMaxBoundary, Counter &counter) {
+ ANSTO::Tar::File &tarFile,
+ EventProcessor &eventProcessor) {
prog.doReport(progMsg);
+ bool countsInFrame = false;
+
// select bin file
int64_t fileSize = 0;
- const std::vector<std::string> &files = file.files();
+ const std::vector<std::string> &files = tarFile.files();
for (auto itr = files.begin(); itr != files.end(); ++itr)
if (itr->rfind(".bin") == itr->length() - 4) {
- file.select(itr->c_str());
- fileSize = file.selected_size();
+ tarFile.select(itr->c_str());
+ fileSize = tarFile.selected_size();
break;
}
@@ -650,12 +719,12 @@ void LoadBBY::loadEvents(API::Progress &prog, const char *progMsg,
unsigned int dt = 0;
double tof = 0.0;
- if ((fileSize == 0) || !file.skip(128))
+ if ((fileSize == 0) || !tarFile.skip(128))
return;
int state = 0;
unsigned int c;
- while ((c = (unsigned int)file.read_byte()) != (unsigned int)-1) {
+ while ((c = (unsigned int)tarFile.read_byte()) != (unsigned int)-1) {
bool event_ended = false;
switch (state) {
@@ -697,104 +766,27 @@ void LoadBBY::loadEvents(API::Progress &prog, const char *progMsg,
if ((x == 0) && (y == 0) && (dt == 0xFFFFFFFF)) {
tof = 0.0;
+
+ // only count frames that contain neutrons
+ if (countsInFrame) {
+ eventProcessor.endOfFrame();
+ countsInFrame = false;
+ }
} else if ((x >= HISTO_BINS_X) || (y >= HISTO_BINS_Y)) {
} else {
// conversion from 100 nanoseconds to 1 microsecond
tof += ((int)dt) * 0.1;
- if ((tofMinBoundary <= tof) && (tof <= tofMaxBoundary))
- counter.addEvent(x, y, tof);
+ eventProcessor.addEvent(x, y, tof);
+ countsInFrame = true;
}
- progTracker.update(file.selected_position());
+ progTracker.update(tarFile.selected_position());
}
}
-}
-
-// load mask file
-std::vector<bool> LoadBBY::createMaskVector(const std::string &filename,
- bool &fileLoaded) {
- std::vector<bool> result(HISTO_BINS_X * HISTO_BINS_Y, true);
-
- std::ifstream input(filename.c_str());
- if (input.good()) {
- std::string line;
- while (std::getline(input, line)) {
-
- auto i0 = line.find("<detids>");
- auto iN = line.find("</detids>");
-
- if ((i0 != std::string::npos) && (iN != std::string::npos) && (i0 < iN)) {
-
- line = line.substr(i0 + 8, iN - i0 - 8);
- std::stringstream ss(line);
-
- std::string item;
- while (std::getline(ss, item, ',')) {
- auto k = item.find('-');
-
- size_t p0, p1;
- if (k != std::string::npos) {
- p0 = boost::lexical_cast<size_t>(item.substr(0, k));
- p1 = boost::lexical_cast<size_t>(
- item.substr(k + 1, item.size() - k - 1));
-
- if (p0 > p1)
- std::swap(p0, p1);
- } else {
- p0 = boost::lexical_cast<size_t>(item);
- p1 = p0;
- }
-
- if (p0 < result.size()) {
-
- if (p1 >= result.size())
- p1 = result.size() - 1;
-
- while (p0 <= p1)
- result[p0++] = false;
- }
- }
- }
- }
- fileLoaded = true;
- } else {
- fileLoaded = false;
- }
- return result;
-}
-
-// load tube offset file
-std::vector<int> LoadBBY::createOffsetVector(const std::string &filename,
- bool &fileLoaded) {
- std::vector<int> result(HISTO_BINS_X, 0);
-
- std::ifstream input(filename.c_str());
- if (input.good()) {
- std::string line;
- while (std::getline(input, line)) {
- auto i1 = line.find_first_of(",;");
- if (i1 == std::string::npos)
- continue;
-
- auto i2 = line.find_first_of(",;", i1 + 1);
- if (i2 == std::string::npos)
- i2 = line.size();
-
- size_t index = boost::lexical_cast<size_t>(line.substr(0, i1));
- int offset =
- boost::lexical_cast<int>(line.substr(i1 + 1, line.size() - i1 - 1));
-
- if (index < HISTO_BINS_X)
- result[index] = offset;
- }
- fileLoaded = true;
- } else {
- fileLoaded = false;
- }
-
- return result;
+ if (countsInFrame)
+ eventProcessor.endOfFrame();
}
// DetectorBankFactory
@@ -811,7 +803,8 @@ void BbyDetectorBankFactory::createAndAssign(size_t startIndex,
// create a RectangularDetector which represents a rectangular array of pixels
Geometry::RectangularDetector *bank = new Geometry::RectangularDetector(
"bank",
- m_instrument.get()); // ??? possible memory leak!? "new" without "delete"
+ m_instrument.get()); // Bank gets registered with instrument component.
+ // instrument acts as sink and manages lifetime.
bank->initialize(m_pixelShape,
// x
@@ -831,5 +824,6 @@ void BbyDetectorBankFactory::createAndAssign(size_t startIndex,
bank->rotate(rot);
bank->translate(pos - center);
}
-} // namespace
-} // namespace
\ No newline at end of file
+
+} // DataHandling
+} // Mantid
\ No newline at end of file
diff --git a/Framework/DataHandling/src/LoadEventPreNexus.cpp b/Framework/DataHandling/src/LoadEventPreNexus.cpp
index 2024d53cfc9d8ec6fb544ab442cc61e4e262c815..43f73c8f10abe5c91fba36406380bfab82c5570c 100644
--- a/Framework/DataHandling/src/LoadEventPreNexus.cpp
+++ b/Framework/DataHandling/src/LoadEventPreNexus.cpp
@@ -26,7 +26,6 @@
#include <sstream>
#include <stdexcept>
#include <functional>
-#include <iostream>
#include <set>
#include <vector>
#include <Poco/File.h>
diff --git a/Framework/DataHandling/src/LoadEventPreNexus2.cpp b/Framework/DataHandling/src/LoadEventPreNexus2.cpp
index e50dd9c66b0d7d2a6543b327d8ac164224da4dbc..0b44191476242498ef428a714124c880ef33881c 100644
--- a/Framework/DataHandling/src/LoadEventPreNexus2.cpp
+++ b/Framework/DataHandling/src/LoadEventPreNexus2.cpp
@@ -3,7 +3,6 @@
#include <sstream>
#include <stdexcept>
#include <functional>
-#include <iostream>
#include <set>
#include <vector>
#include <Poco/File.h>
diff --git a/Framework/DataHandling/src/LoadGSS.cpp b/Framework/DataHandling/src/LoadGSS.cpp
index 9ddea8c26c208e5ff974ed8f0dda42b49d17186a..eb228a845fad9e75f85288cf57e9aac4b2626faf 100644
--- a/Framework/DataHandling/src/LoadGSS.cpp
+++ b/Framework/DataHandling/src/LoadGSS.cpp
@@ -14,10 +14,8 @@
#include <boost/math/special_functions/fpclassify.hpp>
#include <Poco/File.h>
-#include <iostream>
#include <fstream>
#include <sstream>
-#include <iomanip>
using namespace Mantid::DataHandling;
using namespace Mantid::API;
@@ -35,7 +33,8 @@ DECLARE_FILELOADER_ALGORITHM(LoadGSS)
* be used
*/
int LoadGSS::confidence(Kernel::FileDescriptor &descriptor) const {
- if (!descriptor.isAscii())
+
+ if (!descriptor.isAscii() || descriptor.extension() == ".tar")
return 0;
std::string str;
diff --git a/Framework/DataHandling/src/LoadILL.cpp b/Framework/DataHandling/src/LoadILL.cpp
index 0f84c252a6f86a32fa9d6b811cc2a0ead98442ae..402c72e967211aaf27eb2c52f5d8053d50008cbf 100644
--- a/Framework/DataHandling/src/LoadILL.cpp
+++ b/Framework/DataHandling/src/LoadILL.cpp
@@ -14,7 +14,6 @@
#include <limits>
#include <algorithm>
-#include <iostream>
#include <vector>
#include <cmath>
diff --git a/Framework/DataHandling/src/LoadILLIndirect.cpp b/Framework/DataHandling/src/LoadILLIndirect.cpp
index 30c647209dfe11825a329fc814826eee2d9cabad..269c04e8bb0d431f50218baa900ddf5c6a1b34f9 100644
--- a/Framework/DataHandling/src/LoadILLIndirect.cpp
+++ b/Framework/DataHandling/src/LoadILLIndirect.cpp
@@ -7,8 +7,6 @@
#include <boost/algorithm/string.hpp>
#include <nexus/napi.h>
-#include <iostream>
-#include <iomanip> // std::setw
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/LoadILLReflectometry.cpp b/Framework/DataHandling/src/LoadILLReflectometry.cpp
index 2230840c96f62720f70a4ad9adf2b59c79a773ce..18a7f5888d66210f3d3a443a45e13b9af4673e42 100644
--- a/Framework/DataHandling/src/LoadILLReflectometry.cpp
+++ b/Framework/DataHandling/src/LoadILLReflectometry.cpp
@@ -13,7 +13,6 @@
#include <algorithm>
#include <nexus/napi.h>
-#include <iostream>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/LoadInstrument.cpp b/Framework/DataHandling/src/LoadInstrument.cpp
index 595dd5d8b1c2906242d08febb2bf4590341193ea..6337801bb66a5e8918a61ebe4f0d90f6ef65c258 100644
--- a/Framework/DataHandling/src/LoadInstrument.cpp
+++ b/Framework/DataHandling/src/LoadInstrument.cpp
@@ -20,7 +20,6 @@
#include <Poco/Exception.h>
#include <sstream>
#include <fstream>
-#include <iostream>
#include "MantidGeometry/Instrument/InstrumentDefinitionParser.h"
using Poco::XML::DOMParser;
diff --git a/Framework/DataHandling/src/LoadIsawDetCal.cpp b/Framework/DataHandling/src/LoadIsawDetCal.cpp
index 99294d57ece947559d6331666732392507341ad8..5a7ddf61096bc0e18243b50d626eb116159d9055 100644
--- a/Framework/DataHandling/src/LoadIsawDetCal.cpp
+++ b/Framework/DataHandling/src/LoadIsawDetCal.cpp
@@ -21,7 +21,6 @@
#include <fstream>
#include <numeric>
#include <cmath>
-#include <iomanip>
#include "MantidAPI/WorkspaceValidators.h"
namespace Mantid {
diff --git a/Framework/DataHandling/src/LoadLLB.cpp b/Framework/DataHandling/src/LoadLLB.cpp
index 353f8ccc8b4a1e89701592f71f6d6220277b99be..bc37e7062bcefcc6c1ebd042366bd6936c0577ed 100644
--- a/Framework/DataHandling/src/LoadLLB.cpp
+++ b/Framework/DataHandling/src/LoadLLB.cpp
@@ -7,7 +7,6 @@
#include <limits>
#include <algorithm>
-#include <iostream>
#include <vector>
#include <cmath>
diff --git a/Framework/DataHandling/src/LoadLogsForSNSPulsedMagnet.cpp b/Framework/DataHandling/src/LoadLogsForSNSPulsedMagnet.cpp
index 7327e048fb6445863854111b7e63a2c31c916939..f6ec882919c2a00f79be240fba05634083782134 100644
--- a/Framework/DataHandling/src/LoadLogsForSNSPulsedMagnet.cpp
+++ b/Framework/DataHandling/src/LoadLogsForSNSPulsedMagnet.cpp
@@ -4,7 +4,6 @@
#include "MantidAPI/FileProperty.h"
#include "MantidKernel/ConfigService.h"
-#include <iostream>
#include <fstream>
#include <sys/stat.h>
#include <sstream>
diff --git a/Framework/DataHandling/src/LoadMLZ.cpp b/Framework/DataHandling/src/LoadMLZ.cpp
index 7d2b4b9c94d561a71d319cf29b3a54fe74b5dda5..7f516fd0b87c3293659a9716d160ed8fe7c53742 100644
--- a/Framework/DataHandling/src/LoadMLZ.cpp
+++ b/Framework/DataHandling/src/LoadMLZ.cpp
@@ -12,7 +12,6 @@
#include <limits>
#include <algorithm>
-#include <iostream>
#include <vector>
#include <cmath>
//-----------------------------------------------------------------------
diff --git a/Framework/DataHandling/src/LoadPreNexusMonitors.cpp b/Framework/DataHandling/src/LoadPreNexusMonitors.cpp
index af5cce8e457c5ff57dc471f3558ac0ee03913784..2ab2dd8416b18d698b3197865c85cf8f8036ce1a 100644
--- a/Framework/DataHandling/src/LoadPreNexusMonitors.cpp
+++ b/Framework/DataHandling/src/LoadPreNexusMonitors.cpp
@@ -1,7 +1,6 @@
#include <cmath>
#include <cstdlib>
#include <fstream>
-#include <iostream>
#include <iterator>
#include "MantidDataHandling/LoadPreNexusMonitors.h"
diff --git a/Framework/DataHandling/src/LoadQKK.cpp b/Framework/DataHandling/src/LoadQKK.cpp
index 859b592c087dcf441b7443d5963c1562b2e607eb..316cffc185ab4b6e02656661ef7d28664ddee6ac 100644
--- a/Framework/DataHandling/src/LoadQKK.cpp
+++ b/Framework/DataHandling/src/LoadQKK.cpp
@@ -14,9 +14,7 @@
#include <boost/math/special_functions/fpclassify.hpp>
#include <Poco/File.h>
-#include <iostream>
#include <fstream>
-#include <iomanip>
using namespace Mantid::DataHandling;
using namespace Mantid::API;
diff --git a/Framework/DataHandling/src/LoadSINQFocus.cpp b/Framework/DataHandling/src/LoadSINQFocus.cpp
index 096ebd88e5a0502a09025304770cc026c29b3071..59d15f805e84b121b1cac833ae5131c78b734f68 100644
--- a/Framework/DataHandling/src/LoadSINQFocus.cpp
+++ b/Framework/DataHandling/src/LoadSINQFocus.cpp
@@ -7,7 +7,6 @@
#include <limits>
#include <algorithm>
-#include <iostream>
#include <vector>
#include <cmath>
diff --git a/Framework/DataHandling/src/LoadSpice2D.cpp b/Framework/DataHandling/src/LoadSpice2D.cpp
index d3c4216fa836dbe4bd7ea0bcd2247be394cf0207..79219379943c9564c7345614c2e7ff3a7af5bb46 100644
--- a/Framework/DataHandling/src/LoadSpice2D.cpp
+++ b/Framework/DataHandling/src/LoadSpice2D.cpp
@@ -23,7 +23,6 @@
#include <Poco/DOM/Text.h>
#include <Poco/SAX/InputSource.h>
-#include <iostream>
//-----------------------------------------------------------------------
using Poco::XML::DOMParser;
diff --git a/Framework/DataHandling/src/LoadSpiceXML2DDet.cpp b/Framework/DataHandling/src/LoadSpiceXML2DDet.cpp
index 583264085f922631fb3505eb62e172d38e053824..5defd4a05be97697762812dec559c5e255ca7bf5 100644
--- a/Framework/DataHandling/src/LoadSpiceXML2DDet.cpp
+++ b/Framework/DataHandling/src/LoadSpiceXML2DDet.cpp
@@ -602,6 +602,9 @@ bool LoadSpiceXML2DDet::getHB3AWavelength(MatrixWorkspace_sptr dataws,
if (fabs(m1pos - (-25.870000)) < 0.2) {
wavelength = 1.003;
haswavelength = true;
+ } else if (fabs(m1pos - (-39.17)) < 0.2) {
+ wavelength = 1.5424;
+ haswavelength = true;
} else {
g_log.warning() << "m1 position " << m1pos
<< " does not have defined mapping to "
@@ -615,6 +618,9 @@ bool LoadSpiceXML2DDet::getHB3AWavelength(MatrixWorkspace_sptr dataws,
if (fabs(m1pos - (-25.870000)) < 0.2) {
wavelength = 1.003;
haswavelength = true;
+ } else if (fabs(m1pos - (-39.17)) < 0.2) {
+ wavelength = 1.5424;
+ haswavelength = true;
} else {
g_log.warning() << "m1 position " << m1pos
<< " does not have defined mapping to "
diff --git a/Framework/DataHandling/src/SNSDataArchive.cpp b/Framework/DataHandling/src/SNSDataArchive.cpp
index 6045f308b664750a869d738b3239a9e859e8664a..028dcde170b592a6ae3672ea4e844d60a827ab44 100644
--- a/Framework/DataHandling/src/SNSDataArchive.cpp
+++ b/Framework/DataHandling/src/SNSDataArchive.cpp
@@ -1,7 +1,6 @@
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
-#include <iostream>
#include <sstream>
#include "MantidKernel/Logger.h"
diff --git a/Framework/DataHandling/src/SaveCSV.cpp b/Framework/DataHandling/src/SaveCSV.cpp
index 9cef6163fd73f6052987747645028d5bd93f5eaf..d73643c83010381ad103c3e75ae2cd31ff594d64 100644
--- a/Framework/DataHandling/src/SaveCSV.cpp
+++ b/Framework/DataHandling/src/SaveCSV.cpp
@@ -27,7 +27,6 @@
#include "MantidAPI/FileProperty.h"
#include <fstream> // used to get ofstream
-#include <iomanip> // setw() used below
/* @class SaveCSV
diff --git a/Framework/DataHandling/src/SaveFocusedXYE.cpp b/Framework/DataHandling/src/SaveFocusedXYE.cpp
index 6da1189b5b82f5fe19fca15a3d58cf30a1c26d19..f6b917b15e21d2aaf92d1af68e3434b3aeae611a 100644
--- a/Framework/DataHandling/src/SaveFocusedXYE.cpp
+++ b/Framework/DataHandling/src/SaveFocusedXYE.cpp
@@ -8,7 +8,6 @@
#include <Poco/File.h>
#include <Poco/Path.h>
#include <fstream>
-#include <iomanip>
#include <cmath>
#include <exception>
diff --git a/Framework/DataHandling/src/SaveFullprofResolution.cpp b/Framework/DataHandling/src/SaveFullprofResolution.cpp
index 057694d26f34084f38d9c9d58927a26df9275549..5ef18d5b0dbb77ae0f8b397b478ff89c5fc6c910 100644
--- a/Framework/DataHandling/src/SaveFullprofResolution.cpp
+++ b/Framework/DataHandling/src/SaveFullprofResolution.cpp
@@ -8,7 +8,6 @@
#include <boost/algorithm/string.hpp>
#include <Poco/File.h>
-#include <iomanip>
#include <fstream>
using namespace Mantid;
diff --git a/Framework/DataHandling/src/SaveGSS.cpp b/Framework/DataHandling/src/SaveGSS.cpp
index d3e1cb6520fd1fc1fb7a60533ab44baabbaf435b..460f326f800f6ccb0538b63aa49f9b59740bf633 100644
--- a/Framework/DataHandling/src/SaveGSS.cpp
+++ b/Framework/DataHandling/src/SaveGSS.cpp
@@ -11,7 +11,6 @@
#include <Poco/File.h>
#include <Poco/Path.h>
#include <fstream>
-#include <iomanip>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/SaveNISTDAT.cpp b/Framework/DataHandling/src/SaveNISTDAT.cpp
index 38441e68e44ab90d19fe8c73af59ecc541a6a458..0b32dc7d6dcf8e41fed88f6c0715e9cdc582aa21 100644
--- a/Framework/DataHandling/src/SaveNISTDAT.cpp
+++ b/Framework/DataHandling/src/SaveNISTDAT.cpp
@@ -5,7 +5,6 @@
#include "MantidAPI/FileProperty.h"
#include "MantidAPI/WorkspaceValidators.h"
#include <fstream> // used to get ofstream
-#include <iostream>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/SavePAR.cpp b/Framework/DataHandling/src/SavePAR.cpp
index d318f94f549b5072121b412dc0b0a41673fd668e..bf4ea3d2395a941f182cc0b72ebe719a69d24fa9 100644
--- a/Framework/DataHandling/src/SavePAR.cpp
+++ b/Framework/DataHandling/src/SavePAR.cpp
@@ -8,7 +8,6 @@
#include <cstdio>
#include <fstream>
-#include <iomanip>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/SavePDFGui.cpp b/Framework/DataHandling/src/SavePDFGui.cpp
index e6c1c2e622d94e525fbce57e4fd959bd4243b81f..5afcbc2d76bcc9e1aef9f24b8b38b8bf08d609fc 100644
--- a/Framework/DataHandling/src/SavePDFGui.cpp
+++ b/Framework/DataHandling/src/SavePDFGui.cpp
@@ -2,7 +2,6 @@
#include "MantidAPI/FileProperty.h"
#include "MantidKernel/MantidVersion.h"
#include <fstream>
-#include <iomanip>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/SavePHX.cpp b/Framework/DataHandling/src/SavePHX.cpp
index 7c221896f8be4c88e1ae055a6dfd1bfad7bb027c..579ba691415232329674dca274aee32009a4a907 100644
--- a/Framework/DataHandling/src/SavePHX.cpp
+++ b/Framework/DataHandling/src/SavePHX.cpp
@@ -8,7 +8,6 @@
#include <cstdio>
#include <fstream>
-#include <iomanip>
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/src/SaveRKH.cpp b/Framework/DataHandling/src/SaveRKH.cpp
index 33316a700ba158eaf07f5d19761ebac94d586452..0caf9bc73b08d734b1e07e9cdeb799c9b1501e43 100644
--- a/Framework/DataHandling/src/SaveRKH.cpp
+++ b/Framework/DataHandling/src/SaveRKH.cpp
@@ -7,8 +7,6 @@
#include <Poco/LocalDateTime.h>
#include <Poco/DateTimeFormatter.h>
-#include <iomanip>
-
namespace Mantid {
namespace DataHandling {
diff --git a/Framework/DataHandling/test/AppendGeometryToSNSNexusTest.h b/Framework/DataHandling/test/AppendGeometryToSNSNexusTest.h
index 14df378e7575cd321a132031ccc29bc906eaf5c7..4d8dc7386436b7b97358ec94991e4a70882f9fba 100644
--- a/Framework/DataHandling/test/AppendGeometryToSNSNexusTest.h
+++ b/Framework/DataHandling/test/AppendGeometryToSNSNexusTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/AppendGeometryToSNSNexus.h"
diff --git a/Framework/DataHandling/test/CompressEventsTest.h b/Framework/DataHandling/test/CompressEventsTest.h
index 5523f08c4afc2f2f2e63b86e0f509ce66a691392..1c2981657a414f0a56850c200ced1b9dd6c6afd6 100644
--- a/Framework/DataHandling/test/CompressEventsTest.h
+++ b/Framework/DataHandling/test/CompressEventsTest.h
@@ -6,7 +6,6 @@
#include "MantidDataHandling/CompressEvents.h"
#include "MantidDataObjects/Workspace2D.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
-#include <iostream>
using Mantid::MantidVecPtr;
using namespace Mantid::Kernel;
diff --git a/Framework/DataHandling/test/DetermineChunkingTest.h b/Framework/DataHandling/test/DetermineChunkingTest.h
index cf2f5bc2c6142c456743d6c3c3f6b48c668245e7..b15a648fa30b8751bfc4dd1e4ccfe52778001314 100644
--- a/Framework/DataHandling/test/DetermineChunkingTest.h
+++ b/Framework/DataHandling/test/DetermineChunkingTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/DetermineChunking.h"
#include "MantidDataObjects/TableWorkspace.h"
diff --git a/Framework/DataHandling/test/DownloadInstrumentTest.h b/Framework/DataHandling/test/DownloadInstrumentTest.h
index 587b9fe1e47fa6d085dcb43ab83413d70280e5bd..fb5e0e482000d0a8efb3dc50aa4abd9157edb68f 100644
--- a/Framework/DataHandling/test/DownloadInstrumentTest.h
+++ b/Framework/DataHandling/test/DownloadInstrumentTest.h
@@ -10,7 +10,6 @@
#include <Poco/File.h>
#include <Poco/Path.h>
-#include <iostream>
#include <fstream>
#include <string>
#include <cstdio>
diff --git a/Framework/DataHandling/test/FilterEventsByLogValuePreNexusTest.h b/Framework/DataHandling/test/FilterEventsByLogValuePreNexusTest.h
index 7cc915f7298bcff463344a31afe7092aca1f0791..0358926efa0edbd7bb46be3308424b57a6816aab 100644
--- a/Framework/DataHandling/test/FilterEventsByLogValuePreNexusTest.h
+++ b/Framework/DataHandling/test/FilterEventsByLogValuePreNexusTest.h
@@ -16,7 +16,6 @@
#include "MantidKernel/TimeSeriesProperty.h"
#include "MantidDataHandling/FilterEventsByLogValuePreNexus.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <Poco/File.h>
using namespace Mantid::Geometry;
diff --git a/Framework/DataHandling/test/GenerateGroupingPowderTest.h b/Framework/DataHandling/test/GenerateGroupingPowderTest.h
index f4476d6057a04f38bdc8625385be0f707aba919b..85b0c8fd37dfbeccc5609b5f5a3629e7697c4e76 100644
--- a/Framework/DataHandling/test/GenerateGroupingPowderTest.h
+++ b/Framework/DataHandling/test/GenerateGroupingPowderTest.h
@@ -4,9 +4,7 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <fstream>
-#include <iomanip>
#include "MantidDataHandling/LoadEmptyInstrument.h"
#include "MantidDataHandling/GenerateGroupingPowder.h"
#include "MantidDataHandling/LoadDetectorsGroupingFile.h"
diff --git a/Framework/DataHandling/test/GroupDetectors2Test.h b/Framework/DataHandling/test/GroupDetectors2Test.h
index f6ba151d45ebaedfe3a48131cb3c9b2679f17451..0d1e297b86b85bdcfa52639486b6ebd40fd985f5 100644
--- a/Framework/DataHandling/test/GroupDetectors2Test.h
+++ b/Framework/DataHandling/test/GroupDetectors2Test.h
@@ -15,7 +15,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
#include <fstream>
-#include <iostream>
#include <numeric>
#include <Poco/Path.h>
#include "MantidDataHandling/MaskDetectors.h"
diff --git a/Framework/DataHandling/test/GroupDetectorsTest.h b/Framework/DataHandling/test/GroupDetectorsTest.h
index a8f801e769a6919c2e945e1ae44c0284e07ff4bf..ab826382895e670051a5c6cfda66279e687afb20 100644
--- a/Framework/DataHandling/test/GroupDetectorsTest.h
+++ b/Framework/DataHandling/test/GroupDetectorsTest.h
@@ -11,7 +11,6 @@
#include "MantidGeometry/Instrument.h"
#include "MantidGeometry/Instrument/Detector.h"
#include "MantidGeometry/Instrument/DetectorGroup.h"
-#include <iostream>
using Mantid::DataHandling::GroupDetectors;
using Mantid::MantidVecPtr;
diff --git a/Framework/DataHandling/test/LoadBBYTest.h b/Framework/DataHandling/test/LoadBBYTest.h
index 6973745e264c5711c144529a3972117a43986d5e..106c4df0a8472782e522fa28e359e0054f29e988 100644
--- a/Framework/DataHandling/test/LoadBBYTest.h
+++ b/Framework/DataHandling/test/LoadBBYTest.h
@@ -21,45 +21,101 @@ using namespace Mantid::DataObjects;
class LoadBBYTest : public CxxTest::TestSuite {
public:
- void testInit() {
+ void test_load_bby_algorithm_init() {
+ LoadBBY algToBeTested;
+
TS_ASSERT_THROWS_NOTHING(algToBeTested.initialize());
TS_ASSERT(algToBeTested.isInitialized());
}
- // test loading of bilby dataset
- void testExec() {
+ void test_load_bby_algorithm() {
+ LoadBBY algToBeTested;
+
if (!algToBeTested.isInitialized())
algToBeTested.initialize();
- outputSpace = "LoadBBYTest";
+ std::string outputSpace = "LoadBBYTest";
algToBeTested.setPropertyValue("OutputWorkspace", outputSpace);
- // Should fail because mandatory parameter has not been set
+ // should fail because mandatory parameter has not been set
TS_ASSERT_THROWS(algToBeTested.execute(), std::runtime_error);
- inputFile = "BBY0000014.tar";
+ // should succeed now
+ std::string inputFile = "BBY0000014.tar";
algToBeTested.setPropertyValue("Filename", inputFile);
TS_ASSERT_THROWS_NOTHING(algToBeTested.execute());
TS_ASSERT(algToBeTested.isExecuted());
- // get workspace generated
+ // get workspace generated
MatrixWorkspace_sptr output =
AnalysisDataService::Instance().retrieveWS<MatrixWorkspace>(
outputSpace);
- // test it is as expected
+ // check number of histograms
TS_ASSERT_EQUALS(output->getNumberHistograms(), 61440);
double sum = 0.0;
for (size_t i = 0; i < output->getNumberHistograms(); i++)
sum += output->readY(i)[0];
sum *= 1.0e22;
TS_ASSERT_DELTA(sum / 1.0E27, 2.0, 0.0001);
- }
-private:
- LoadBBY algToBeTested;
- std::string inputFile;
- std::string outputSpace;
+ // check that all required log values are there
+ auto run = output->run();
+
+ // test start and end time
+ TS_ASSERT(
+ run.getProperty("start_time")->value().compare("2000-01-01T00:00:00") ==
+ 0)
+ TS_ASSERT(
+ run.getProperty("end_time")->value().compare("2000-01-01T00:00:00") ==
+ 0)
+
+ // test data properties
+ TS_ASSERT_EQUALS(run.getPropertyValueAsType<int>("att_pos"), 1);
+ TS_ASSERT_EQUALS(run.getPropertyValueAsType<int>("frame_count"), 4);
+ TS_ASSERT_DELTA(run.getPropertyValueAsType<double>("period"), 0, 1.0e-5);
+ TS_ASSERT_DELTA(run.getPropertyValueAsType<double>("bm_counts"), 0, 1.0e-5);
+
+ // test instrument setup
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L1_chopper_value"))->firstValue(),
+ 18.4726, 1.0e-3);
+
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L2_det_value"))->firstValue(),
+ 33.1562, 1.0e-3);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L2_curtainl_value"))->firstValue(),
+ 23.2845, 1.0e-3);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L2_curtainr_value"))->firstValue(),
+ 23.2820, 1.0e-3);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L2_curtainu_value"))->firstValue(),
+ 24.2862, 1.0e-3);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("L2_curtaind_value"))->firstValue(),
+ 24.2824, 1.0e-3);
+
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("D_det_value"))->firstValue(),
+ 0.0052, 1.0e-4);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("D_curtainl_value"))->firstValue(),
+ 0.3816, 1.0e-4);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("D_curtainr_value"))->firstValue(),
+ 0.4024, 1.0e-4);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("D_curtainu_value"))->firstValue(),
+ 0.3947, 1.0e-4);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("D_curtaind_value"))->firstValue(),
+ 0.3978, 1.0e-4);
+ TS_ASSERT_DELTA(dynamic_cast<TimeSeriesProperty<double> *>(
+ run.getProperty("curtain_rotation"))->firstValue(),
+ 10, 1.0e-7);
+ }
};
#endif /*LoadBBYTEST_H_*/
diff --git a/Framework/DataHandling/test/LoadCalFileTest.h b/Framework/DataHandling/test/LoadCalFileTest.h
index c673ee55dff66f2722883ff3ddc8939cbf39542a..6299545b388b1333c890ba3fc85b613977d196ea 100644
--- a/Framework/DataHandling/test/LoadCalFileTest.h
+++ b/Framework/DataHandling/test/LoadCalFileTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/LoadCalFile.h"
#include "MantidDataObjects/GroupingWorkspace.h"
diff --git a/Framework/DataHandling/test/LoadDetectorInfoTest.h b/Framework/DataHandling/test/LoadDetectorInfoTest.h
index fec164099da7d0619a2041f313ee669dc76e6b2c..106258dba36758744cff9102c07278d90c9c4914 100644
--- a/Framework/DataHandling/test/LoadDetectorInfoTest.h
+++ b/Framework/DataHandling/test/LoadDetectorInfoTest.h
@@ -19,7 +19,6 @@
#include <algorithm>
#include <fstream>
#include <vector>
-#include <iostream>
#include <boost/lexical_cast.hpp>
#include <nexus/NeXusFile.hpp>
diff --git a/Framework/DataHandling/test/LoadDetectorsGroupingFileTest.h b/Framework/DataHandling/test/LoadDetectorsGroupingFileTest.h
index e71c52d34afdbc2c7c4e4c2819d99b0895deeac3..90765cb64596b99fe15ba5777426106486a996e4 100644
--- a/Framework/DataHandling/test/LoadDetectorsGroupingFileTest.h
+++ b/Framework/DataHandling/test/LoadDetectorsGroupingFileTest.h
@@ -11,8 +11,6 @@
#include "Poco/File.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include <fstream>
using namespace Mantid;
diff --git a/Framework/DataHandling/test/LoadDspacemapTest.h b/Framework/DataHandling/test/LoadDspacemapTest.h
index d5714fe3713dadecf4b9bb5e57f800d1b7fc3fc5..d00455638b4fb0e6c1aa1a1cd2077560b1c4c5c8 100644
--- a/Framework/DataHandling/test/LoadDspacemapTest.h
+++ b/Framework/DataHandling/test/LoadDspacemapTest.h
@@ -10,8 +10,6 @@
#include <cstring>
#include <cxxtest/TestSuite.h>
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <vector>
using namespace Mantid::DataHandling;
diff --git a/Framework/DataHandling/test/LoadEventNexusTest.h b/Framework/DataHandling/test/LoadEventNexusTest.h
index 7b53cf6a34a889f9260087e47f63d984462847f0..9ce546c2c3ad11681bb72ee28dcb039a008ef9cd 100644
--- a/Framework/DataHandling/test/LoadEventNexusTest.h
+++ b/Framework/DataHandling/test/LoadEventNexusTest.h
@@ -11,7 +11,6 @@
#include "MantidKernel/TimeSeriesProperty.h"
#include "MantidDataHandling/LoadEventNexus.h"
#include <cxxtest/TestSuite.h>
-#include <iostream>
using namespace Mantid::Geometry;
using namespace Mantid::API;
diff --git a/Framework/DataHandling/test/LoadInstrumentTest.h b/Framework/DataHandling/test/LoadInstrumentTest.h
index b488f7c14586c018af3972250df1ff79555a2908..497edfa26b5c2cc8a3276688360886559228c599 100644
--- a/Framework/DataHandling/test/LoadInstrumentTest.h
+++ b/Framework/DataHandling/test/LoadInstrumentTest.h
@@ -17,7 +17,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
#include <fstream>
-#include <iostream>
#include <string>
#include <vector>
#include "MantidAPI/ExperimentInfo.h"
diff --git a/Framework/DataHandling/test/LoadMaskTest.h b/Framework/DataHandling/test/LoadMaskTest.h
index 4003dc57e5785e661032528e1290fa76a33a7e8e..a44631c89ccc8894e17885b2956c4b6cfe05ac24 100644
--- a/Framework/DataHandling/test/LoadMaskTest.h
+++ b/Framework/DataHandling/test/LoadMaskTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include <sstream>
#include "boost/assign/list_of.hpp"
diff --git a/Framework/DataHandling/test/LoadNXSPETest.h b/Framework/DataHandling/test/LoadNXSPETest.h
index 2f878a61a5946ed682849b57ba9f6483e5c13f4f..f2c7994e83db5e2451a1b746dd750ea8315a5e8d 100644
--- a/Framework/DataHandling/test/LoadNXSPETest.h
+++ b/Framework/DataHandling/test/LoadNXSPETest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/LoadNXSPE.h"
diff --git a/Framework/DataHandling/test/LoadNexusLogsTest.h b/Framework/DataHandling/test/LoadNexusLogsTest.h
index 068c4a56b1470669870dff9f7ae201ee5cafc357..7e8f678637b6a91d589696c48e4d3f1d7a79e9c9 100644
--- a/Framework/DataHandling/test/LoadNexusLogsTest.h
+++ b/Framework/DataHandling/test/LoadNexusLogsTest.h
@@ -17,7 +17,6 @@ using namespace Mantid::DataHandling;
#include <cxxtest/TestSuite.h>
#include "MantidAPI/WorkspaceGroup.h"
-#include <iostream>
class LoadNexusLogsTest : public CxxTest::TestSuite {
public:
diff --git a/Framework/DataHandling/test/LoadParameterFileTest.h b/Framework/DataHandling/test/LoadParameterFileTest.h
index 55c38c44234792cba6d54f07c20b4e73df8950bf..8492f8086b89f8d6627e213e1021459dba9ffb76 100644
--- a/Framework/DataHandling/test/LoadParameterFileTest.h
+++ b/Framework/DataHandling/test/LoadParameterFileTest.h
@@ -12,7 +12,6 @@
#include "MantidAPI/Algorithm.h"
#include <vector>
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/Framework/DataHandling/test/LoadPreNexusTest.h b/Framework/DataHandling/test/LoadPreNexusTest.h
index 6b683bfb06d64d10cab4eff6ae118e41026cd311..ebaec312a33fe377d89468c01523a18517141d9c 100644
--- a/Framework/DataHandling/test/LoadPreNexusTest.h
+++ b/Framework/DataHandling/test/LoadPreNexusTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/LoadPreNexus.h"
diff --git a/Framework/DataHandling/test/LoadSNSNexusTest.h b/Framework/DataHandling/test/LoadSNSNexusTest.h
index 53c71ebbadff62e5c2b2ff34e27205c060c1b075..dc1ada623d3326bc69f12198b9f5e3e221950a3d 100644
--- a/Framework/DataHandling/test/LoadSNSNexusTest.h
+++ b/Framework/DataHandling/test/LoadSNSNexusTest.h
@@ -15,7 +15,6 @@ using namespace Mantid::Kernel;
#include <cxxtest/TestSuite.h>
#include "MantidAPI/WorkspaceGroup.h"
-#include <iostream>
class LoadSNSNexusTest : public CxxTest::TestSuite {
public:
diff --git a/Framework/DataHandling/test/LoadVulcanCalFileTest.h b/Framework/DataHandling/test/LoadVulcanCalFileTest.h
index 2e97a33fd059197e38585ddbe26bdc0dafa52e2c..c4855a01b93816753524ac0443e601ad1e911452 100644
--- a/Framework/DataHandling/test/LoadVulcanCalFileTest.h
+++ b/Framework/DataHandling/test/LoadVulcanCalFileTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/LoadVulcanCalFile.h"
#include "MantidDataObjects/GroupingWorkspace.h"
diff --git a/Framework/DataHandling/test/MergeLogsTest.h b/Framework/DataHandling/test/MergeLogsTest.h
index 9676875b9e92b45f747054e54d52962ce11158e9..3983186be0450deadd48b0bba4b7d046439499ba 100644
--- a/Framework/DataHandling/test/MergeLogsTest.h
+++ b/Framework/DataHandling/test/MergeLogsTest.h
@@ -8,8 +8,6 @@
#include "MantidAPI/WorkspaceFactory.h"
#include "MantidKernel/TimeSeriesProperty.h"
#include "MantidKernel/DateAndTime.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/MergeLogs.h"
diff --git a/Framework/DataHandling/test/ModifyDetectorDotDatFileTest.h b/Framework/DataHandling/test/ModifyDetectorDotDatFileTest.h
index 28f323b8d9d1ea7ad63454f369fd3f992b8e7f6c..025d4d4ef3f4089d6b44b5459e8217415afc2eaf 100644
--- a/Framework/DataHandling/test/ModifyDetectorDotDatFileTest.h
+++ b/Framework/DataHandling/test/ModifyDetectorDotDatFileTest.h
@@ -4,9 +4,7 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <sstream>
-#include <iomanip>
#include "MantidDataHandling/ModifyDetectorDotDatFile.h"
#include "MantidDataHandling/LoadEmptyInstrument.h"
diff --git a/Framework/DataHandling/test/MoveInstrumentComponentTest.h b/Framework/DataHandling/test/MoveInstrumentComponentTest.h
index f797f70b4e477447c2d1ac201f90dc8c5c105842..83b5522ab4c73d9bc92dd1557c5fc6e2acdd587e 100644
--- a/Framework/DataHandling/test/MoveInstrumentComponentTest.h
+++ b/Framework/DataHandling/test/MoveInstrumentComponentTest.h
@@ -15,7 +15,6 @@
#include "MantidGeometry/Instrument/Component.h"
#include "MantidGeometry/Instrument/Detector.h"
#include <vector>
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/Framework/DataHandling/test/NexusTesterTest.h b/Framework/DataHandling/test/NexusTesterTest.h
index 3c7e10dca2f201da7c4d094da59225872941dce1..53b59b9a484d71a61a36146c4cf65c3240e3e3a3 100644
--- a/Framework/DataHandling/test/NexusTesterTest.h
+++ b/Framework/DataHandling/test/NexusTesterTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/NexusTester.h"
#include <Poco/File.h>
diff --git a/Framework/DataHandling/test/ProcessDasNexusLogTest.h b/Framework/DataHandling/test/ProcessDasNexusLogTest.h
index 0751b97d0b8161800dea8f6363f3e062cd0fbb73..57034fe9926bcb8834198420f90c612547584324 100644
--- a/Framework/DataHandling/test/ProcessDasNexusLogTest.h
+++ b/Framework/DataHandling/test/ProcessDasNexusLogTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/ProcessDasNexusLog.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/DataHandling/test/RawFileInfoTest.h b/Framework/DataHandling/test/RawFileInfoTest.h
index 6a6a4de6443788e556e5f5c2a0c6d650f494cd09..ad68b2485b0afdf7c8f313e03a2b738e300f6929 100644
--- a/Framework/DataHandling/test/RawFileInfoTest.h
+++ b/Framework/DataHandling/test/RawFileInfoTest.h
@@ -5,9 +5,6 @@
#include "MantidDataHandling/RawFileInfo.h"
#include "MantidAPI/ITableWorkspace.h"
-#include <iostream>
-#include <iomanip>
-
using namespace Mantid::DataHandling;
class RawFileInfoTest : public CxxTest::TestSuite {
diff --git a/Framework/DataHandling/test/RenameLogTest.h b/Framework/DataHandling/test/RenameLogTest.h
index 9a561afd1d996b8c6163a397573b5a6029967b23..4363e39e1751c9aa42f3cd7b931f5271aa09faaf 100644
--- a/Framework/DataHandling/test/RenameLogTest.h
+++ b/Framework/DataHandling/test/RenameLogTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/RenameLog.h"
#include "MantidKernel/TimeSeriesProperty.h"
diff --git a/Framework/DataHandling/test/SaveCalFileTest.h b/Framework/DataHandling/test/SaveCalFileTest.h
index bf9edf3f913fb6f5e2ae430bc9ba6a08155060a0..cdd7025bb62c4c66ac33de8ed84cc96ef0be0039 100644
--- a/Framework/DataHandling/test/SaveCalFileTest.h
+++ b/Framework/DataHandling/test/SaveCalFileTest.h
@@ -12,8 +12,6 @@
#include <cxxtest/TestSuite.h>
#include <Poco/File.h>
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <iosfwd>
using namespace Mantid::DataHandling;
diff --git a/Framework/DataHandling/test/SaveDaveGrpTest.h b/Framework/DataHandling/test/SaveDaveGrpTest.h
index a9d6fce08001a725f21ea7c2add7d86fb6a1340e..c3b009b45f0b07e6137bbcda114f1da24244b918 100644
--- a/Framework/DataHandling/test/SaveDaveGrpTest.h
+++ b/Framework/DataHandling/test/SaveDaveGrpTest.h
@@ -4,9 +4,7 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <fstream>
-#include <iomanip>
#include "MantidDataHandling/LoadEventNexus.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidDataHandling/SaveDaveGrp.h"
diff --git a/Framework/DataHandling/test/SaveDetectorsGroupingTest.h b/Framework/DataHandling/test/SaveDetectorsGroupingTest.h
index cc66311ef92c90840647634e3b71f3b899893640..bd3b2f93e9e5c26922cf22bb9ef254401c002cc3 100644
--- a/Framework/DataHandling/test/SaveDetectorsGroupingTest.h
+++ b/Framework/DataHandling/test/SaveDetectorsGroupingTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/SaveDetectorsGrouping.h"
#include "MantidDataHandling/LoadDetectorsGroupingFile.h"
diff --git a/Framework/DataHandling/test/SaveDspacemapTest.h b/Framework/DataHandling/test/SaveDspacemapTest.h
index 5a90c23d6266b13a618b0db982ba6a8c9fb26cb7..4b2bbffb535bd59aceb4cc4f44c27163f5ff21d5 100644
--- a/Framework/DataHandling/test/SaveDspacemapTest.h
+++ b/Framework/DataHandling/test/SaveDspacemapTest.h
@@ -8,8 +8,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/File.h>
using namespace Mantid::DataHandling;
diff --git a/Framework/DataHandling/test/SaveFullprofResolutionTest.h b/Framework/DataHandling/test/SaveFullprofResolutionTest.h
index 7b5648dfa604a84724aa830a47be5b322e9354f0..c2da2add45ee3a28a2db169b951e6e92277c8353 100644
--- a/Framework/DataHandling/test/SaveFullprofResolutionTest.h
+++ b/Framework/DataHandling/test/SaveFullprofResolutionTest.h
@@ -10,7 +10,6 @@
#include <Poco/File.h>
#include <fstream>
-#include <iostream>
using namespace std;
using namespace Mantid;
diff --git a/Framework/DataHandling/test/SaveIsawDetCalTest.h b/Framework/DataHandling/test/SaveIsawDetCalTest.h
index 780f05166b8d4b97fe1aa66ad81fd0caff44122b..88c63a3e415b5621da479217ee00c05a5638936f 100644
--- a/Framework/DataHandling/test/SaveIsawDetCalTest.h
+++ b/Framework/DataHandling/test/SaveIsawDetCalTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/File.h>
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/DataHandling/test/SaveMaskTest.h b/Framework/DataHandling/test/SaveMaskTest.h
index d2503727ad0f554306e4543822e80cabc86867ce..5f10a4447ccef6b98b2b9c928784e0fe429e8742 100644
--- a/Framework/DataHandling/test/SaveMaskTest.h
+++ b/Framework/DataHandling/test/SaveMaskTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataHandling/SaveMask.h"
#include "MantidDataHandling/LoadMask.h"
diff --git a/Framework/DataHandling/test/XMLInstrumentParameterTest.h b/Framework/DataHandling/test/XMLInstrumentParameterTest.h
index 2cf0226dfa943284b02c635fa09ffeea6c7d32cb..4e022520d27dc7d60a663338d0723b6255371a84 100644
--- a/Framework/DataHandling/test/XMLInstrumentParameterTest.h
+++ b/Framework/DataHandling/test/XMLInstrumentParameterTest.h
@@ -11,8 +11,6 @@
#include "MantidKernel/ConfigService.h"
#include "MantidKernel/TimeSeriesProperty.h"
-#include <iostream>
-
using namespace Mantid::API;
using namespace Mantid::Kernel;
using namespace Mantid::DataHandling;
diff --git a/Framework/DataObjects/inc/MantidDataObjects/ReflectometryTransform.h b/Framework/DataObjects/inc/MantidDataObjects/ReflectometryTransform.h
index df759cbde1876e89076cb262b4d131109e6d53ce..88785293ff8374ce5fd1fb00345a6385e97d542f 100644
--- a/Framework/DataObjects/inc/MantidDataObjects/ReflectometryTransform.h
+++ b/Framework/DataObjects/inc/MantidDataObjects/ReflectometryTransform.h
@@ -88,6 +88,8 @@ public:
boost::shared_ptr<Mantid::DataObjects::TableWorkspace> &vertexes,
bool dumpVertexes, std::string outputDimensions) const;
+ Mantid::API::IMDHistoWorkspace_sptr
+ executeMDNormPoly(Mantid::API::MatrixWorkspace_const_sptr inputWs) const;
virtual ~ReflectometryTransform();
ReflectometryTransform(const std::string &d0Label, const std::string &d0ID,
double d0Min, double d0Max, const std::string &d1Label,
diff --git a/Framework/DataObjects/src/CoordTransformAffine.cpp b/Framework/DataObjects/src/CoordTransformAffine.cpp
index e9e0f9a688b2eb382fb126506862a84218a01e94..8f9584d60611d8494855d9ba7c35aa9cd2886a50 100644
--- a/Framework/DataObjects/src/CoordTransformAffine.cpp
+++ b/Framework/DataObjects/src/CoordTransformAffine.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidAPI/CoordTransform.h"
#include "MantidDataObjects/CoordTransformAffine.h"
diff --git a/Framework/DataObjects/src/EventList.cpp b/Framework/DataObjects/src/EventList.cpp
index 0e4260274c51f30ffc7e0f5ef92655b603462e01..efb6e74c71354d9c2d6207883c39d49a6e1e95f2 100644
--- a/Framework/DataObjects/src/EventList.cpp
+++ b/Framework/DataObjects/src/EventList.cpp
@@ -9,7 +9,6 @@
#include <cfloat>
#include <functional>
-#include <iostream>
#include <limits>
#include <math.h>
#include <Poco/ScopedLock.h>
diff --git a/Framework/DataObjects/src/Events.cpp b/Framework/DataObjects/src/Events.cpp
index ffb9e0c32be66444983897ff87f1e350885b8f32..c348378709154eee116ba569d9bbdbf1cc4ab2f1 100644
--- a/Framework/DataObjects/src/Events.cpp
+++ b/Framework/DataObjects/src/Events.cpp
@@ -5,7 +5,6 @@
#include "MantidKernel/Exception.h"
#include "MantidKernel/DateAndTime.h"
#include <functional>
-#include <iostream>
#include <math.h>
using std::ostream;
diff --git a/Framework/DataObjects/src/Histogram1D.cpp b/Framework/DataObjects/src/Histogram1D.cpp
index da29de62522ac388380e1d6e3cc44943fa098a4c..077adc23d521dc3918eed3ecc069da2e66043b0e 100644
--- a/Framework/DataObjects/src/Histogram1D.cpp
+++ b/Framework/DataObjects/src/Histogram1D.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidDataObjects/Histogram1D.h"
#include "MantidKernel/Exception.h"
#include "MantidAPI/WorkspaceFactory.h"
diff --git a/Framework/DataObjects/src/PeaksWorkspace.cpp b/Framework/DataObjects/src/PeaksWorkspace.cpp
index 33bcd0d5000d73fafdda717204df636efa41d5d0..083c66123c4b9222af4c529934c007b27cdb7c9f 100644
--- a/Framework/DataObjects/src/PeaksWorkspace.cpp
+++ b/Framework/DataObjects/src/PeaksWorkspace.cpp
@@ -22,7 +22,6 @@
#include <boost/shared_ptr.hpp>
#include <exception>
#include <fstream>
-#include <iostream>
#include <math.h>
#include <ostream>
#include <stdio.h>
diff --git a/Framework/DataObjects/src/RebinnedOutput.cpp b/Framework/DataObjects/src/RebinnedOutput.cpp
index b6addfb0c0e60cff56d8f6025f82bcaed57d0ed0..3be5eff9d10632258dae16c3bbf99c00c7a2e6ca 100644
--- a/Framework/DataObjects/src/RebinnedOutput.cpp
+++ b/Framework/DataObjects/src/RebinnedOutput.cpp
@@ -3,7 +3,6 @@
#include "MantidAPI/WorkspaceFactory.h"
#include <algorithm>
-#include <iostream>
namespace Mantid {
namespace DataObjects {
diff --git a/Framework/DataObjects/src/ReflectometryTransform.cpp b/Framework/DataObjects/src/ReflectometryTransform.cpp
index c07b6481867a3660c27cdc57050156464f880780..dbd709079bb54cd5f8f2712449254d47c76636bf 100644
--- a/Framework/DataObjects/src/ReflectometryTransform.cpp
+++ b/Framework/DataObjects/src/ReflectometryTransform.cpp
@@ -305,6 +305,44 @@ Mantid::API::MatrixWorkspace_sptr ReflectometryTransform::execute(
return ws;
}
+IMDHistoWorkspace_sptr ReflectometryTransform::executeMDNormPoly(
+ MatrixWorkspace_const_sptr inputWs) const {
+
+ auto input_x_dim = inputWs->getXDimension();
+
+ MDHistoDimension_sptr dim0 = MDHistoDimension_sptr(new MDHistoDimension(
+ input_x_dim->getName(), input_x_dim->getDimensionId(),
+ input_x_dim->getUnits(),
+ static_cast<Mantid::coord_t>(input_x_dim->getMinimum()),
+ static_cast<Mantid::coord_t>(input_x_dim->getMaximum()),
+ input_x_dim->getNBins()));
+
+ auto input_y_dim = inputWs->getYDimension();
+
+ MDHistoDimension_sptr dim1 = MDHistoDimension_sptr(new MDHistoDimension(
+ input_y_dim->getName(), input_y_dim->getDimensionId(),
+ input_y_dim->getUnits(),
+ static_cast<Mantid::coord_t>(input_y_dim->getMinimum()),
+ static_cast<Mantid::coord_t>(input_y_dim->getMaximum()),
+ input_y_dim->getNBins()));
+
+ auto outWs = boost::make_shared<MDHistoWorkspace>(dim0, dim1);
+
+ for (size_t nHistoIndex = 0; nHistoIndex < inputWs->getNumberHistograms();
+ ++nHistoIndex) {
+ const MantidVec X = inputWs->readX(nHistoIndex);
+ const MantidVec Y = inputWs->readY(nHistoIndex);
+ const MantidVec E = inputWs->readE(nHistoIndex);
+
+ for (size_t nBinIndex = 0; nBinIndex < inputWs->blocksize(); ++nBinIndex) {
+ auto value_index = outWs->getLinearIndex(nBinIndex, nHistoIndex);
+ outWs->setSignalAt(value_index, Y[nBinIndex]);
+ outWs->setErrorSquaredAt(value_index, E[nBinIndex] * E[nBinIndex]);
+ }
+ }
+ return outWs;
+}
+
/**
* Execution path for NormalisedPolygon Rebinning
* @param inputWs : Workspace to be rebinned
@@ -391,7 +429,6 @@ MatrixWorkspace_sptr ReflectometryTransform::executeNormPoly(
m_calculator->createQuad(lamUpper, lamLower, thetaUpper, thetaLower);
FractionalRebinning::rebinToFractionalOutput(inputQ, inputWS, i, j, outWS,
zBinsVec);
-
// Find which qy bin this point lies in
const auto qIndex =
std::upper_bound(zBinsVec.begin(), zBinsVec.end(), inputQ[0].Y()) -
@@ -413,11 +450,9 @@ MatrixWorkspace_sptr ReflectometryTransform::executeNormPoly(
}
outWS->finalize();
FractionalRebinning::normaliseOutput(outWS, inputWS);
-
// Set the output spectrum-detector mapping
SpectrumDetectorMapping outputDetectorMap(specNumberMapping, detIDMapping);
outWS->updateSpectraUsing(outputDetectorMap);
-
outWS->getAxis(0)->title() = m_d0Label;
outWS->setYUnit("");
outWS->setYUnitLabel("Intensity");
diff --git a/Framework/DataObjects/src/TableWorkspace.cpp b/Framework/DataObjects/src/TableWorkspace.cpp
index 80290952df3b2ed7f6dd530f2b46e329dd357764..c352028bfd15d5f210bd0409cb2cb8dc000b6d85 100644
--- a/Framework/DataObjects/src/TableWorkspace.cpp
+++ b/Framework/DataObjects/src/TableWorkspace.cpp
@@ -4,7 +4,6 @@
#include "MantidAPI/WorkspaceProperty.h"
#include "MantidAPI/WorkspaceFactory.h"
-#include <iostream>
#include <queue>
namespace Mantid {
diff --git a/Framework/DataObjects/test/CoordTransformAlignedTest.h b/Framework/DataObjects/test/CoordTransformAlignedTest.h
index f15e0fe7a0ab22a0d80e04f22a7292f94fbd9bbe..746bebcae5d86836c2d7489730ff93e0770f00d0 100644
--- a/Framework/DataObjects/test/CoordTransformAlignedTest.h
+++ b/Framework/DataObjects/test/CoordTransformAlignedTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataObjects/CoordTransformAligned.h"
#include "MantidKernel/Matrix.h"
diff --git a/Framework/DataObjects/test/CoordTransformDistanceTest.h b/Framework/DataObjects/test/CoordTransformDistanceTest.h
index 27774e7bf32d3917daca8497f5112a428cd1b61b..77ac156e205c6b197e3a68c7223f568a50d72777 100644
--- a/Framework/DataObjects/test/CoordTransformDistanceTest.h
+++ b/Framework/DataObjects/test/CoordTransformDistanceTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidDataObjects/CoordTransformDistance.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidAPI/CoordTransform.h"
#include <boost/scoped_ptr.hpp>
diff --git a/Framework/DataObjects/test/EventWorkspaceMRUTest.h b/Framework/DataObjects/test/EventWorkspaceMRUTest.h
index 75dafe93107e6d6e1fa5aef751534ed8152d2c50..3d66875d8dc7762859b20c53531aab871808fb89 100644
--- a/Framework/DataObjects/test/EventWorkspaceMRUTest.h
+++ b/Framework/DataObjects/test/EventWorkspaceMRUTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataObjects/EventWorkspaceMRU.h"
diff --git a/Framework/DataObjects/test/GroupingWorkspaceTest.h b/Framework/DataObjects/test/GroupingWorkspaceTest.h
index de94e12bb9338086e989e970a2d134d6a13d4a12..ee0db8b637f01c9044689190e5a87fca61b795bc 100644
--- a/Framework/DataObjects/test/GroupingWorkspaceTest.h
+++ b/Framework/DataObjects/test/GroupingWorkspaceTest.h
@@ -7,8 +7,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::API;
diff --git a/Framework/DataObjects/test/MDBinTest.h b/Framework/DataObjects/test/MDBinTest.h
index 58746ad2f118909cc3127cc1e0644feca5598aa5..451ddc9e0744980a5e384ab9f74b96e31e3fa82e 100644
--- a/Framework/DataObjects/test/MDBinTest.h
+++ b/Framework/DataObjects/test/MDBinTest.h
@@ -6,8 +6,6 @@
#include "MantidDataObjects/MDBin.h"
#include "MantidDataObjects/MDEventFactory.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::DataObjects;
diff --git a/Framework/DataObjects/test/MDBoxBaseTest.h b/Framework/DataObjects/test/MDBoxBaseTest.h
index fe6cf91509931dfd3e6474dac604e1c9baf10684..1efac0d88690ba2b4b3a4f0d5784ffac4cab44b1 100644
--- a/Framework/DataObjects/test/MDBoxBaseTest.h
+++ b/Framework/DataObjects/test/MDBoxBaseTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidDataObjects/MDBoxBase.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/File.h>
#include "MantidAPI/CoordTransform.h"
diff --git a/Framework/DataObjects/test/MDBoxIteratorTest.h b/Framework/DataObjects/test/MDBoxIteratorTest.h
index 54f0c4ef0bda4ea4a0fe9f5367ed5161730309cd..cebfb6ab66fb58d0cf6ad7959874d99f6b87cda6 100644
--- a/Framework/DataObjects/test/MDBoxIteratorTest.h
+++ b/Framework/DataObjects/test/MDBoxIteratorTest.h
@@ -12,8 +12,6 @@
#include "MantidDataObjects/MDBox.h"
#include "MantidTestHelpers/MDEventsTestHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <gmock/gmock.h>
using namespace Mantid::DataObjects;
diff --git a/Framework/DataObjects/test/MDEventFactoryTest.h b/Framework/DataObjects/test/MDEventFactoryTest.h
index 5d9a1486e995cac057546d2b75e9aee657851acb..35dddb546641612b946513a97fe91074fbd6af60 100644
--- a/Framework/DataObjects/test/MDEventFactoryTest.h
+++ b/Framework/DataObjects/test/MDEventFactoryTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidDataObjects/MDEventFactory.h>
diff --git a/Framework/DataObjects/test/MDGridBoxTest.h b/Framework/DataObjects/test/MDGridBoxTest.h
index 0f8321bc99bbc1eda16f00ee65593960191b32c0..343c1507c852f2e6ab8abfb95b0fb7f4d9458916 100644
--- a/Framework/DataObjects/test/MDGridBoxTest.h
+++ b/Framework/DataObjects/test/MDGridBoxTest.h
@@ -27,7 +27,6 @@
#include <boost/random/variate_generator.hpp>
#include <cmath>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
#include <map>
#include <memory>
#include <Poco/File.h>
diff --git a/Framework/DataObjects/test/MDHistoWorkspaceTest.h b/Framework/DataObjects/test/MDHistoWorkspaceTest.h
index 34e0819e614dfabc65c96e2a8370d2369ca13f07..d289a06ffa2282df2b0ad7dd226cb9f36885f281 100644
--- a/Framework/DataObjects/test/MDHistoWorkspaceTest.h
+++ b/Framework/DataObjects/test/MDHistoWorkspaceTest.h
@@ -16,8 +16,6 @@
#include <boost/scoped_array.hpp>
#include <boost/scoped_ptr.hpp>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidAPI/ExperimentInfo.h"
#include "MantidKernel/Strings.h"
diff --git a/Framework/DataObjects/test/MDLeanEventTest.h b/Framework/DataObjects/test/MDLeanEventTest.h
index 6bda924df6433bf4dbc0e7b176eb6d02851a98db..89b3bf02ed8404f6341c967cb5fdd1ddcfc5426b 100644
--- a/Framework/DataObjects/test/MDLeanEventTest.h
+++ b/Framework/DataObjects/test/MDLeanEventTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidDataObjects/MDLeanEvent.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <boost/scoped_array.hpp>
diff --git a/Framework/DataObjects/test/OffsetsWorkspaceTest.h b/Framework/DataObjects/test/OffsetsWorkspaceTest.h
index 64525613150722aca0f2a0798cf9e1e624c73f9a..08f5bff01aa0ce8691a045bfd08e5373725ad446 100644
--- a/Framework/DataObjects/test/OffsetsWorkspaceTest.h
+++ b/Framework/DataObjects/test/OffsetsWorkspaceTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataObjects/OffsetsWorkspace.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
diff --git a/Framework/DataObjects/test/PeakColumnTest.h b/Framework/DataObjects/test/PeakColumnTest.h
index 0c68f2805ff2ee97dd7278e3969a6dfb16e541da..247db3453822bf3475f0a308d581cdab0660cbb3 100644
--- a/Framework/DataObjects/test/PeakColumnTest.h
+++ b/Framework/DataObjects/test/PeakColumnTest.h
@@ -8,8 +8,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <boost/make_shared.hpp>
-#include <iostream>
-#include <iomanip>
using namespace Mantid::DataObjects;
diff --git a/Framework/DataObjects/test/PeakTest.h b/Framework/DataObjects/test/PeakTest.h
index e2e41b04aa4d42f601128b258bbca09e59ddf128..43043ba0b1c10fec8ccb54d7441e8b03aa2a5119 100644
--- a/Framework/DataObjects/test/PeakTest.h
+++ b/Framework/DataObjects/test/PeakTest.h
@@ -10,8 +10,6 @@
#include "MantidKernel/V3D.h"
#include "MantidKernel/PhysicalConstants.h"
#include "MantidGeometry/Instrument/ReferenceFrame.h"
-#include <iostream>
-#include <iomanip>
#include <gmock/gmock.h>
#include "MantidDataObjects/Peak.h"
diff --git a/Framework/DataObjects/test/PeaksWorkspaceTest.h b/Framework/DataObjects/test/PeaksWorkspaceTest.h
index dccfacf8b750eb1ed90998f95811b68ebe28fd5e..3ffb18821ed63a22a906b908c50c422ce1bf54ac 100644
--- a/Framework/DataObjects/test/PeaksWorkspaceTest.h
+++ b/Framework/DataObjects/test/PeaksWorkspaceTest.h
@@ -5,9 +5,7 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include "MantidAPI/FileProperty.h"
-#include <iostream>
#include <fstream>
-#include <iomanip>
#include <stdio.h>
#include <cmath>
#include "MantidDataObjects/PeaksWorkspace.h"
diff --git a/Framework/DataObjects/test/RebinnedOutputTest.h b/Framework/DataObjects/test/RebinnedOutputTest.h
index 41a3c5e3df6c9ca7753b5d83d27c0cbae345c8e5..87535e4f83f825a106610eec549648e46bf7f326 100644
--- a/Framework/DataObjects/test/RebinnedOutputTest.h
+++ b/Framework/DataObjects/test/RebinnedOutputTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataObjects/RebinnedOutput.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
diff --git a/Framework/DataObjects/test/SpecialWorkspace2DTest.h b/Framework/DataObjects/test/SpecialWorkspace2DTest.h
index 6ecb30dbf29b315a67321bd5e303512d6cd85dc8..9598500b31560a7431da88ae9ef797a53952a208 100644
--- a/Framework/DataObjects/test/SpecialWorkspace2DTest.h
+++ b/Framework/DataObjects/test/SpecialWorkspace2DTest.h
@@ -8,8 +8,6 @@
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidAPI/WorkspaceProperty.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::DataObjects;
using namespace Mantid::Geometry;
diff --git a/Framework/DataObjects/test/SplittersWorkspaceTest.h b/Framework/DataObjects/test/SplittersWorkspaceTest.h
index a667a0715f99b46986ea980b25d7cf3fe00cc906..45f52e9334e7cd73ad1f9368fda2e53b376731df 100644
--- a/Framework/DataObjects/test/SplittersWorkspaceTest.h
+++ b/Framework/DataObjects/test/SplittersWorkspaceTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include "MantidAPI/WorkspaceProperty.h"
-#include <iostream>
-#include <iomanip>
#include "MantidDataObjects/SplittersWorkspace.h"
diff --git a/Framework/DataObjects/test/TableColumnTest.h b/Framework/DataObjects/test/TableColumnTest.h
index 26288968aabac768073955cff8d7bf47b8a22f96..1e33aa1324719f2a40aa43e6cc5a550ecf7a8ba7 100644
--- a/Framework/DataObjects/test/TableColumnTest.h
+++ b/Framework/DataObjects/test/TableColumnTest.h
@@ -8,7 +8,6 @@
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <boost/make_shared.hpp>
-#include <iostream>
using namespace Mantid::DataObjects;
diff --git a/Framework/GPUAlgorithms/test/GPUAlgorithmTest.h b/Framework/GPUAlgorithms/test/GPUAlgorithmTest.h
index c92156a57737ef7c9b6c6e40b0b5aea6c2a44687..8128dd5080266e481eeefd410ff444d5b753ca0b 100644
--- a/Framework/GPUAlgorithms/test/GPUAlgorithmTest.h
+++ b/Framework/GPUAlgorithms/test/GPUAlgorithmTest.h
@@ -4,7 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <iomanip>
#include "MantidGPUAlgorithms/GPUAlgorithm.h"
diff --git a/Framework/GPUAlgorithms/test/GPUTesterTest.h b/Framework/GPUAlgorithms/test/GPUTesterTest.h
index e1014f011366e77deff1deaa0216288b74ac9292..70e00ec653f5aac0ad04aa26f78d760aa38d699c 100644
--- a/Framework/GPUAlgorithms/test/GPUTesterTest.h
+++ b/Framework/GPUAlgorithms/test/GPUTesterTest.h
@@ -4,7 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
#include <iomanip>
#include "MantidGPUAlgorithms/GPUTester.h"
diff --git a/Framework/Geometry/inc/MantidGeometry/Crystal/SymmetryOperationFactory.h b/Framework/Geometry/inc/MantidGeometry/Crystal/SymmetryOperationFactory.h
index eabe3833aea905a12a8c8e4c174800ff5ec768d1..7a348ca0714e503a5f47be15dbb56d9b9290dcb0 100644
--- a/Framework/Geometry/inc/MantidGeometry/Crystal/SymmetryOperationFactory.h
+++ b/Framework/Geometry/inc/MantidGeometry/Crystal/SymmetryOperationFactory.h
@@ -1,16 +1,15 @@
#ifndef MANTID_GEOMETRY_SYMMETRYOPERATIONFACTORY_H_
#define MANTID_GEOMETRY_SYMMETRYOPERATIONFACTORY_H_
+#include <list>
+#include <map>
+
#include "MantidGeometry/DllConfig.h"
#include "MantidKernel/SingletonHolder.h"
#include "MantidGeometry/Crystal/SymmetryOperation.h"
#include "MantidGeometry/Crystal/SymmetryOperationSymbolParser.h"
#include "MantidKernel/RegistrationHelper.h"
-#include <list>
-#include <map>
-#include <iostream>
-
namespace Mantid {
namespace Geometry {
/**
diff --git a/Framework/Geometry/src/Crystal/IndexingUtils.cpp b/Framework/Geometry/src/Crystal/IndexingUtils.cpp
index 65d194797e790a40d3b121ecae51509c698c5bb4..dbd81b746f307617f0a1bb1b631b7ae53ceba55b 100644
--- a/Framework/Geometry/src/Crystal/IndexingUtils.cpp
+++ b/Framework/Geometry/src/Crystal/IndexingUtils.cpp
@@ -3,7 +3,6 @@
#include "MantidKernel/Quat.h"
#include <boost/math/special_functions/fpclassify.hpp>
#include "MantidGeometry/Crystal/OrientedLattice.h"
-#include <iostream>
#include <stdexcept>
#include <algorithm>
diff --git a/Framework/Geometry/src/Crystal/NiggliCell.cpp b/Framework/Geometry/src/Crystal/NiggliCell.cpp
index baf61f0b7e33472c586f1dd2ef3037e42b1a616d..bb91bf0167070d508fdb153610699a31bdf8af3d 100644
--- a/Framework/Geometry/src/Crystal/NiggliCell.cpp
+++ b/Framework/Geometry/src/Crystal/NiggliCell.cpp
@@ -3,7 +3,6 @@
#include "MantidKernel/Quat.h"
#include <boost/math/special_functions/fpclassify.hpp>
#include "MantidGeometry/Crystal/OrientedLattice.h"
-#include <iostream>
#include <stdexcept>
#include <algorithm>
diff --git a/Framework/Geometry/src/Crystal/PointGroup.cpp b/Framework/Geometry/src/Crystal/PointGroup.cpp
index e0805c6529cd039ca1c80c8803e5b5a5ae4a95ab..85ff7e7dee15c76c8aa5945cd10c4be0929577af 100644
--- a/Framework/Geometry/src/Crystal/PointGroup.cpp
+++ b/Framework/Geometry/src/Crystal/PointGroup.cpp
@@ -4,7 +4,6 @@
#include <set>
#include <boost/make_shared.hpp>
#include <boost/algorithm/string.hpp>
-#include <iostream>
#include "MantidGeometry/Crystal/PointGroupFactory.h"
#include "MantidGeometry/Crystal/SymmetryOperationFactory.h"
diff --git a/Framework/Geometry/src/Crystal/ScalarUtils.cpp b/Framework/Geometry/src/Crystal/ScalarUtils.cpp
index 7dda5e72a8a311f0fbb3378a27db1d0cef784ada..096cbabf474a832b4b82a10cd92da237707671aa 100644
--- a/Framework/Geometry/src/Crystal/ScalarUtils.cpp
+++ b/Framework/Geometry/src/Crystal/ScalarUtils.cpp
@@ -1,6 +1,5 @@
/* File: ScalarUtils.cpp */
-#include <iostream>
#include <stdexcept>
#include "MantidGeometry/Crystal/ScalarUtils.h"
#include "MantidGeometry/Crystal/ReducedCell.h"
diff --git a/Framework/Geometry/src/Math/BnId.cpp b/Framework/Geometry/src/Math/BnId.cpp
index 25a999388cb556f39dac36496cb77df09b1f7b84..556e536328f8335cbaa46035cff0c20b17e8cfeb 100644
--- a/Framework/Geometry/src/Math/BnId.cpp
+++ b/Framework/Geometry/src/Math/BnId.cpp
@@ -1,6 +1,4 @@
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <cmath>
#include <vector>
#include <set>
diff --git a/Framework/Geometry/src/Math/PolyBase.cpp b/Framework/Geometry/src/Math/PolyBase.cpp
index eac6ba5b99a7b0fb476bc5bed2e86b2f2860906f..b3738109c6f350986650c2eeba1589f1e7381a80 100644
--- a/Framework/Geometry/src/Math/PolyBase.cpp
+++ b/Framework/Geometry/src/Math/PolyBase.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <cmath>
#include <complex>
#include <vector>
diff --git a/Framework/Geometry/src/Math/PolygonIntersection.cpp b/Framework/Geometry/src/Math/PolygonIntersection.cpp
index f18f0c27a411980dd9ba5042ffd25b532e6860e1..29d1b209a9db0d6ad6b97927a9d4deb757cd4ada 100644
--- a/Framework/Geometry/src/Math/PolygonIntersection.cpp
+++ b/Framework/Geometry/src/Math/PolygonIntersection.cpp
@@ -7,8 +7,6 @@
#include "MantidKernel/Logger.h"
#include "MantidKernel/V2D.h"
-#include <iostream>
-
using namespace Mantid::Kernel;
namespace Mantid {
diff --git a/Framework/Geometry/src/Math/RotCounter.cpp b/Framework/Geometry/src/Math/RotCounter.cpp
index 7a56cae785b97cb973c54b7ab832ea696e9b15a8..387a1041f871ed866bd8ce84c8092176dbbd08ac 100644
--- a/Framework/Geometry/src/Math/RotCounter.cpp
+++ b/Framework/Geometry/src/Math/RotCounter.cpp
@@ -1,6 +1,4 @@
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <algorithm>
#include <iterator>
#include <vector>
diff --git a/Framework/Geometry/src/Objects/RuleItems.cpp b/Framework/Geometry/src/Objects/RuleItems.cpp
index ebac656d63dc2f0c0fbc336d9085383382801cf8..505fda685eefb8cb1668c676c0785172bb42886c 100644
--- a/Framework/Geometry/src/Objects/RuleItems.cpp
+++ b/Framework/Geometry/src/Objects/RuleItems.cpp
@@ -1,6 +1,4 @@
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <complex>
#include <cmath>
#include <vector>
diff --git a/Framework/Geometry/src/Objects/Track.cpp b/Framework/Geometry/src/Objects/Track.cpp
index 8bfb529d73086bc33f91f11160d66ebe336ba0ca..ccb4c9dca1a7969d2514c42b9dfa9474a4993414 100644
--- a/Framework/Geometry/src/Objects/Track.cpp
+++ b/Framework/Geometry/src/Objects/Track.cpp
@@ -6,7 +6,6 @@
#include <cmath>
#include <algorithm>
-#include <iostream>
namespace Mantid {
namespace Geometry {
diff --git a/Framework/Geometry/src/Rendering/vtkGeometryCacheReader.cpp b/Framework/Geometry/src/Rendering/vtkGeometryCacheReader.cpp
index 76dd2da3ea2906d7bf49c01d7aae535247804325..ddfc5d61177d547f9f04b0bdcbeb9d373539900b 100644
--- a/Framework/Geometry/src/Rendering/vtkGeometryCacheReader.cpp
+++ b/Framework/Geometry/src/Rendering/vtkGeometryCacheReader.cpp
@@ -6,7 +6,6 @@
#include <Poco/SAX/InputSource.h>
#include <Poco/Exception.h>
#include <Poco/DOM/Element.h>
-#include <iostream>
using Poco::XML::DOMParser;
using Poco::XML::InputSource;
diff --git a/Framework/Geometry/src/Rendering/vtkGeometryCacheWriter.cpp b/Framework/Geometry/src/Rendering/vtkGeometryCacheWriter.cpp
index 2054aaad0899ec99e3f73983ff15096ee26e6e49..91cd38f113ba74cbf03f04173cc6b9e8948b80de 100644
--- a/Framework/Geometry/src/Rendering/vtkGeometryCacheWriter.cpp
+++ b/Framework/Geometry/src/Rendering/vtkGeometryCacheWriter.cpp
@@ -1,5 +1,4 @@
#include <fstream>
-#include <iostream>
#include <sstream>
#include "MantidGeometry/Rendering/vtkGeometryCacheWriter.h"
diff --git a/Framework/Geometry/src/Surfaces/Cone.cpp b/Framework/Geometry/src/Surfaces/Cone.cpp
index c40f71e018ce5c827bf6ba4dff2cdee7002005f1..c584fe7daf6219fe6c88706a00f36312d92aebb7 100644
--- a/Framework/Geometry/src/Surfaces/Cone.cpp
+++ b/Framework/Geometry/src/Surfaces/Cone.cpp
@@ -1,6 +1,4 @@
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <sstream>
#include <cmath>
#include <complex>
diff --git a/Framework/Geometry/src/Surfaces/Torus.cpp b/Framework/Geometry/src/Surfaces/Torus.cpp
index 77cf5ea14f9724c35bd4c27b904cd98cf7e9a69e..2f8ed1d860da8cd65e01d6f37e4e7664ff1aa4a8 100644
--- a/Framework/Geometry/src/Surfaces/Torus.cpp
+++ b/Framework/Geometry/src/Surfaces/Torus.cpp
@@ -1,6 +1,4 @@
#include <fstream>
-#include <iomanip>
-#include <iostream>
#include <string>
#include <sstream>
#include <cmath>
diff --git a/Framework/Geometry/test/BoundingBoxTest.h b/Framework/Geometry/test/BoundingBoxTest.h
index a071493595c75f74aa7feed18c96d3c32678468c..12071a5b559a0d646a1f11bc5abec90765c0b92c 100644
--- a/Framework/Geometry/test/BoundingBoxTest.h
+++ b/Framework/Geometry/test/BoundingBoxTest.h
@@ -5,7 +5,6 @@
#include "MantidGeometry/Objects/BoundingBox.h"
#include "MantidGeometry/Objects/Track.h"
#include "MantidKernel/Timer.h"
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Geometry;
diff --git a/Framework/Geometry/test/CompAssemblyTest.h b/Framework/Geometry/test/CompAssemblyTest.h
index fd3602f6097cdc3014ef1ffb795379e9eb99a8f9..1e69012097a679c430a6c6a50b6f9074a76bf0ab 100644
--- a/Framework/Geometry/test/CompAssemblyTest.h
+++ b/Framework/Geometry/test/CompAssemblyTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/CompAssembly.h"
#include "MantidKernel/V3D.h"
diff --git a/Framework/Geometry/test/ComponentParserTest.h b/Framework/Geometry/test/ComponentParserTest.h
index 1f23e83ad62124f7065243d47510de81c197bce4..d8732db12453024ecd57147780038f2ab26146d9 100644
--- a/Framework/Geometry/test/ComponentParserTest.h
+++ b/Framework/Geometry/test/ComponentParserTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/V3D.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <Poco/SAX/SAXParser.h>
#include <sstream>
#include "MantidKernel/CPUTimer.h"
diff --git a/Framework/Geometry/test/ComponentTest.h b/Framework/Geometry/test/ComponentTest.h
index 4137d5bf3d82342fd1896a683eada8c3f2627025..479ec51f31da3220fda70fca2522f00d4074e4d0 100644
--- a/Framework/Geometry/test/ComponentTest.h
+++ b/Framework/Geometry/test/ComponentTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/Component.h"
#include "MantidKernel/V3D.h"
diff --git a/Framework/Geometry/test/ConventionalCellTest.h b/Framework/Geometry/test/ConventionalCellTest.h
index adb468c13f2668f9824bf9989e9f6816f10e0dd6..69d2b965b4159f465fa787f497750f7a8cd92349 100644
--- a/Framework/Geometry/test/ConventionalCellTest.h
+++ b/Framework/Geometry/test/ConventionalCellTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/V3D.h>
#include <MantidKernel/Matrix.h>
diff --git a/Framework/Geometry/test/DetectorTest.h b/Framework/Geometry/test/DetectorTest.h
index f7c2495e2bc27b2e1d15272b180789eae37d9875..c9181e9192c6138a23d8449207327460821b2660 100644
--- a/Framework/Geometry/test/DetectorTest.h
+++ b/Framework/Geometry/test/DetectorTest.h
@@ -6,7 +6,6 @@
#include "MantidGeometry/Instrument/Detector.h"
#include "MantidGeometry/Instrument/Component.h"
#include <cmath>
-#include <iostream>
using namespace Mantid::Geometry;
using Mantid::Kernel::V3D;
diff --git a/Framework/Geometry/test/GoniometerTest.h b/Framework/Geometry/test/GoniometerTest.h
index 9ae9bddf5f62f7a94c2afcbcc072b2d1609e3719..7cfad5d1b3fb4dfaac13bceeaa4b28c1b3f75f3c 100644
--- a/Framework/Geometry/test/GoniometerTest.h
+++ b/Framework/Geometry/test/GoniometerTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidGeometry/Instrument/Goniometer.h"
-#include <iostream>
#include <stdexcept>
#include <string>
#include "MantidKernel/Quat.h"
diff --git a/Framework/Geometry/test/IndexingUtilsTest.h b/Framework/Geometry/test/IndexingUtilsTest.h
index 57449f7b04aef88e0626df657e2355b152b2eb92..f1ed265dda4b9bde93a3394fc37bd06cc3d8cbd6 100644
--- a/Framework/Geometry/test/IndexingUtilsTest.h
+++ b/Framework/Geometry/test/IndexingUtilsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/V3D.h>
#include <MantidKernel/Matrix.h>
#include "MantidGeometry/Crystal/OrientedLattice.h"
diff --git a/Framework/Geometry/test/MDBoxImplicitFunctionTest.h b/Framework/Geometry/test/MDBoxImplicitFunctionTest.h
index 28ba764bda03d81d87bbd3b3d0860c837237e2f8..e27544409c8f17e2117c039d93023797d735ae22 100644
--- a/Framework/Geometry/test/MDBoxImplicitFunctionTest.h
+++ b/Framework/Geometry/test/MDBoxImplicitFunctionTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Geometry;
diff --git a/Framework/Geometry/test/MDHistoDimensionTest.h b/Framework/Geometry/test/MDHistoDimensionTest.h
index 63474366e71feb31ac8cd55fc15750397225417a..f6dca8e74baeeebf6aeb7b03aec7c71b1cc1d11c 100644
--- a/Framework/Geometry/test/MDHistoDimensionTest.h
+++ b/Framework/Geometry/test/MDHistoDimensionTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Geometry;
diff --git a/Framework/Geometry/test/MDPlaneTest.h b/Framework/Geometry/test/MDPlaneTest.h
index 05b165291f843fa7eb46e6ff5efaf39fb925c7dc..8004fa018dd1a38d75fc3b6e36820ecdc094289d 100644
--- a/Framework/Geometry/test/MDPlaneTest.h
+++ b/Framework/Geometry/test/MDPlaneTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidKernel/VMD.h"
using namespace Mantid;
diff --git a/Framework/Geometry/test/NearestNeighboursFactoryTest.h b/Framework/Geometry/test/NearestNeighboursFactoryTest.h
index 775478822a2d66aae1a45a8950467895a9d06b08..6230725124021dc0c95d5712007ee363732f387f 100644
--- a/Framework/Geometry/test/NearestNeighboursFactoryTest.h
+++ b/Framework/Geometry/test/NearestNeighboursFactoryTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidGeometry/Instrument/NearestNeighboursFactory.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
diff --git a/Framework/Geometry/test/NiggliCellTest.h b/Framework/Geometry/test/NiggliCellTest.h
index d21190d49674d51eca5b40cb3893729e4800f06d..63611e2186286d820852357a2a8a3a9afaaaa619 100644
--- a/Framework/Geometry/test/NiggliCellTest.h
+++ b/Framework/Geometry/test/NiggliCellTest.h
@@ -2,8 +2,6 @@
#define MANTID_GEOMETRY_NiggliCellTEST_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/Matrix.h"
#include "MantidGeometry/Crystal/NiggliCell.h"
#include "MantidGeometry/Crystal/OrientedLattice.h"
diff --git a/Framework/Geometry/test/ObjCompAssemblyTest.h b/Framework/Geometry/test/ObjCompAssemblyTest.h
index 178682005c61f3996836dc2d35c95df9833cc77d..1acc727c0e74fac213b40fb6bbb6ac7f1c580892 100644
--- a/Framework/Geometry/test/ObjCompAssemblyTest.h
+++ b/Framework/Geometry/test/ObjCompAssemblyTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/ObjCompAssembly.h"
#include "MantidKernel/V3D.h"
diff --git a/Framework/Geometry/test/ObjectTest.h b/Framework/Geometry/test/ObjectTest.h
index 310d397050826794553db08562a0caf77ef09ec1..2c80fd8a7580ad11658eff9a983c7ff8eb744602 100644
--- a/Framework/Geometry/test/ObjectTest.h
+++ b/Framework/Geometry/test/ObjectTest.h
@@ -7,7 +7,6 @@
#include <vector>
#include <algorithm>
#include <ctime>
-#include <iomanip>
#include <boost/shared_ptr.hpp>
diff --git a/Framework/Geometry/test/OrientedLatticeTest.h b/Framework/Geometry/test/OrientedLatticeTest.h
index d2536f13fd73e55e8afddebc91e7d8985964742b..487231edeec3de4c8cc5637df5c6d38a8453afbc 100644
--- a/Framework/Geometry/test/OrientedLatticeTest.h
+++ b/Framework/Geometry/test/OrientedLatticeTest.h
@@ -2,8 +2,6 @@
#define MANTID_GEOMETRY_ORIENTEDLATTICETEST_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/Matrix.h"
#include "MantidGeometry/Crystal/OrientedLattice.h"
#include "MantidTestHelpers/NexusTestHelper.h"
diff --git a/Framework/Geometry/test/ParCompAssemblyTest.h b/Framework/Geometry/test/ParCompAssemblyTest.h
index 048ca5fb8420d5c9dc7db27df993f12a0f071e24..bd9212db670654af6d13df7756267c8f88c30590 100644
--- a/Framework/Geometry/test/ParCompAssemblyTest.h
+++ b/Framework/Geometry/test/ParCompAssemblyTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/CompAssembly.h"
#include "MantidGeometry/Instrument/CompAssembly.h"
diff --git a/Framework/Geometry/test/ParComponentFactoryTest.h b/Framework/Geometry/test/ParComponentFactoryTest.h
index 950f0efeb087491a1737ad6971290742cbd016ca..0fb537e000a2612503ce87bc94c0e1a7e78cd94a 100644
--- a/Framework/Geometry/test/ParComponentFactoryTest.h
+++ b/Framework/Geometry/test/ParComponentFactoryTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidTestHelpers/ComponentCreationHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid::Geometry;
diff --git a/Framework/Geometry/test/ParObjCompAssemblyTest.h b/Framework/Geometry/test/ParObjCompAssemblyTest.h
index 2efae136a5d4b89f9d2d2f53553e9136390b45a6..dd42abb3f8159039cccf4635116e33d3cb08e9a0 100644
--- a/Framework/Geometry/test/ParObjCompAssemblyTest.h
+++ b/Framework/Geometry/test/ParObjCompAssemblyTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/ObjCompAssembly.h"
#include "MantidGeometry/Instrument/ObjCompAssembly.h"
diff --git a/Framework/Geometry/test/ParametrizedComponentTest.h b/Framework/Geometry/test/ParametrizedComponentTest.h
index 467950faf55d0f05e2fe56e4815a9aff54ee61d3..b9120c7a335946ab2dc947f69dc8e1ae9bfb73d8 100644
--- a/Framework/Geometry/test/ParametrizedComponentTest.h
+++ b/Framework/Geometry/test/ParametrizedComponentTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include <boost/make_shared.hpp>
#include "MantidGeometry/Instrument/Component.h"
diff --git a/Framework/Geometry/test/PointGroupTest.h b/Framework/Geometry/test/PointGroupTest.h
index 6256893a3cf8d783ad8aeb19e9dacc501cc9591e..406a4508cbeba6cf9e551d51dc3c80014c75b7ee 100644
--- a/Framework/Geometry/test/PointGroupTest.h
+++ b/Framework/Geometry/test/PointGroupTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/Strings.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidGeometry/Crystal/PointGroupFactory.h"
#include "MantidGeometry/Crystal/PointGroup.h"
#include <boost/lexical_cast.hpp>
diff --git a/Framework/Geometry/test/RectangularDetectorPixelTest.h b/Framework/Geometry/test/RectangularDetectorPixelTest.h
index 04fd8a6593e8b7bab16c4fd56e2167502c4d761e..83b920ad7e8ae801d5cb3cb610addc598a97701b 100644
--- a/Framework/Geometry/test/RectangularDetectorPixelTest.h
+++ b/Framework/Geometry/test/RectangularDetectorPixelTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidGeometry/Instrument/RectangularDetectorPixel.h"
diff --git a/Framework/Geometry/test/RectangularDetectorTest.h b/Framework/Geometry/test/RectangularDetectorTest.h
index ee6903e0b456286e51bf0bf83b8bf99544d9a08d..a0c1ca0b9641c44f04622b67366f491b96a3fb91 100644
--- a/Framework/Geometry/test/RectangularDetectorTest.h
+++ b/Framework/Geometry/test/RectangularDetectorTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
#include <cmath>
-#include <iostream>
#include <string>
#include "MantidGeometry/Instrument/RectangularDetector.h"
#include "MantidKernel/V3D.h"
diff --git a/Framework/Geometry/test/ReducedCellTest.h b/Framework/Geometry/test/ReducedCellTest.h
index cf2f44bcf77f04755f3ad9a780da44c803a4af0c..3065f6553b8f4bfef760bcf488dd61c673304bf6 100644
--- a/Framework/Geometry/test/ReducedCellTest.h
+++ b/Framework/Geometry/test/ReducedCellTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/V3D.h>
#include <MantidKernel/Matrix.h>
diff --git a/Framework/Geometry/test/ReferenceFrameTest.h b/Framework/Geometry/test/ReferenceFrameTest.h
index 69cc05033f470f815ad481a8f9b2904d188b8e12..f203819da2d9f77200d5c7ae6c7e8db1d8142632 100644
--- a/Framework/Geometry/test/ReferenceFrameTest.h
+++ b/Framework/Geometry/test/ReferenceFrameTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include "MantidKernel/V3D.h"
-#include <iostream>
-#include <iomanip>
#include "MantidGeometry/Instrument/ReferenceFrame.h"
diff --git a/Framework/Geometry/test/ReflectionConditionTest.h b/Framework/Geometry/test/ReflectionConditionTest.h
index 2e34272915650aca3e73e16b0136e66dd52ebff6..ba8a2582881d160185ea962ae026cc953743472b 100644
--- a/Framework/Geometry/test/ReflectionConditionTest.h
+++ b/Framework/Geometry/test/ReflectionConditionTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <set>
using namespace Mantid::Geometry;
diff --git a/Framework/Geometry/test/ScalarUtilsTest.h b/Framework/Geometry/test/ScalarUtilsTest.h
index a428b760331d2d5e4450f4bc62b86f1781d93cbd..1bc65f8e32dba06728ce01f90608ea62f14c723a 100644
--- a/Framework/Geometry/test/ScalarUtilsTest.h
+++ b/Framework/Geometry/test/ScalarUtilsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/V3D.h>
#include <MantidKernel/Matrix.h>
diff --git a/Framework/Geometry/test/UnitCellTest.h b/Framework/Geometry/test/UnitCellTest.h
index e05a25f66eb5ea15a161005dd2f7b48e35055d76..b2ddd021baa71004dc95c8b2ea218dde28dd5c7e 100644
--- a/Framework/Geometry/test/UnitCellTest.h
+++ b/Framework/Geometry/test/UnitCellTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/Matrix.h>
#include <MantidGeometry/Crystal/UnitCell.h>
diff --git a/Framework/Geometry/test/XMLInstrumentParameterTest.h b/Framework/Geometry/test/XMLInstrumentParameterTest.h
index a6d4d47cd7fe70be96a5c68fdd35cd1a9e3defda..e09348f8176ba66db8662ebc67b6d53bbee3c779 100644
--- a/Framework/Geometry/test/XMLInstrumentParameterTest.h
+++ b/Framework/Geometry/test/XMLInstrumentParameterTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <boost/shared_ptr.hpp>
#include <boost/make_shared.hpp>
diff --git a/Framework/ICat/inc/MantidICat/GSoap/stdsoap2.h b/Framework/ICat/inc/MantidICat/GSoap/stdsoap2.h
index b3d143893045d72c4eb796465af862d9b7612449..e80b4e0c43ffab7ddf841a67d471edd142b5e435 100644
--- a/Framework/ICat/inc/MantidICat/GSoap/stdsoap2.h
+++ b/Framework/ICat/inc/MantidICat/GSoap/stdsoap2.h
@@ -639,7 +639,6 @@ A commercial use license is available from Genivia, Inc., contact@genivia.com
#if defined(__cplusplus) && !defined(WITH_LEAN) && !defined(WITH_COMPAT)
#include <string>
-#include <iostream>
#endif
#ifdef WITH_NOHTTP
diff --git a/Framework/ICat/src/GSoap/stdsoap2.cpp b/Framework/ICat/src/GSoap/stdsoap2.cpp
index b6eda2bb1b90a6411f9df79d9ab14733110b021d..ec26daa1e2e5e4ba9c1137565e6c2f1d5d763e28 100644
--- a/Framework/ICat/src/GSoap/stdsoap2.cpp
+++ b/Framework/ICat/src/GSoap/stdsoap2.cpp
@@ -59,6 +59,10 @@ A commercial use license is available from Genivia, Inc., contact@genivia.com
#include "MantidICat/GSoap/stdsoap2.h"
+#if defined(__cplusplus) && !defined(WITH_LEAN) && !defined(WITH_COMPAT)
+#include <iostream>
+#endif
+
#if defined(VXWORKS) && defined(WM_SECURE_KEY_STORAGE)
#include <ipcom_key_db.h>
#endif
diff --git a/Framework/Kernel/inc/MantidKernel/ANN/ANN.h b/Framework/Kernel/inc/MantidKernel/ANN/ANN.h
index db5de2b1e41320925b0544ca7a346b8df966d42d..30d66ac44a7fda27459bfd92bfa513a01d9fc04a 100644
--- a/Framework/Kernel/inc/MantidKernel/ANN/ANN.h
+++ b/Framework/Kernel/inc/MantidKernel/ANN/ANN.h
@@ -107,10 +107,10 @@
// basic includes
//----------------------------------------------------------------------
-#include <cstdlib> // standard lib includes
-#include <cmath> // math includes
-#include <iostream> // I/O streams
-#include <cstring> // C-style strings
+#include <cstdlib> // standard lib includes
+#include <cmath> // math includes
+#include <iosfwd> // I/O streams
+#include <cstring> // C-style strings
//----------------------------------------------------------------------
// Limits
diff --git a/Framework/Kernel/src/ANN/ANN.cpp b/Framework/Kernel/src/ANN/ANN.cpp
index 67f9c84987efd4b2b1e84affd8e403d78b6fe35b..3cba35cc6c6c6ba5a6c811683917d91b1de35f4d 100644
--- a/Framework/Kernel/src/ANN/ANN.cpp
+++ b/Framework/Kernel/src/ANN/ANN.cpp
@@ -27,6 +27,7 @@
//----------------------------------------------------------------------
#include <cstdlib> // C standard lib defs
+#include <iostream> // I/O streams
#include "MantidKernel/ANN/ANNx.h" // all ANN includes
#include "MantidKernel/ANN/ANNperf.h" // ANN Perf Header
diff --git a/Framework/Kernel/src/Atom.cpp b/Framework/Kernel/src/Atom.cpp
index 7a9e2551517b3de90b58f93b514b58d07efdd2c2..43452e3b8d6467c8a4c33a1f2d586910165169f7 100644
--- a/Framework/Kernel/src/Atom.cpp
+++ b/Framework/Kernel/src/Atom.cpp
@@ -1,5 +1,4 @@
#include <algorithm>
-#include <iostream> // REMOVE
#include <sstream>
#include <stdexcept>
#include "MantidKernel/Atom.h"
diff --git a/Framework/Kernel/src/DllOpen.cpp b/Framework/Kernel/src/DllOpen.cpp
index 927e518eac7df182180cb0f55d0da10ad47a2a09..e66b0dced4b5b1714d7988834008ec8a09160939 100644
--- a/Framework/Kernel/src/DllOpen.cpp
+++ b/Framework/Kernel/src/DllOpen.cpp
@@ -1,5 +1,4 @@
#include <string>
-#include <iostream>
/*
If the OS is Windows then LoadLibrary, GetProcAddress and FreeLibrary are used.
diff --git a/Framework/Kernel/src/Exception.cpp b/Framework/Kernel/src/Exception.cpp
index ee12a3b5d95a6b68f7bd9fe3825158b2c11cf47a..26e6e194942991c765de3e0bed348d5e4764c77a 100644
--- a/Framework/Kernel/src/Exception.cpp
+++ b/Framework/Kernel/src/Exception.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <sstream>
#include "MantidKernel/Exception.h"
diff --git a/Framework/Kernel/src/FacilityInfo.cpp b/Framework/Kernel/src/FacilityInfo.cpp
index b85fb675073190996a71f4ab9fa71dc90a6401c5..9a42c5a20839d19cba3db33d3a9db7852cb8215c 100644
--- a/Framework/Kernel/src/FacilityInfo.cpp
+++ b/Framework/Kernel/src/FacilityInfo.cpp
@@ -2,7 +2,6 @@
// Includes
//----------------------------------------------------------------------
#include <algorithm>
-#include <iostream>
#include "MantidKernel/FacilityInfo.h"
#include "MantidKernel/ConfigService.h"
diff --git a/Framework/Kernel/src/LibraryManager.cpp b/Framework/Kernel/src/LibraryManager.cpp
index 438e55b9b1d016d31908b5824f22886a5ea992b7..da72c1042cb65c1941276552fe625c0181efb42c 100644
--- a/Framework/Kernel/src/LibraryManager.cpp
+++ b/Framework/Kernel/src/LibraryManager.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidKernel/ConfigService.h"
#include "MantidKernel/DllOpen.h"
diff --git a/Framework/Kernel/src/Memory.cpp b/Framework/Kernel/src/Memory.cpp
index a1f11272d0ac8ca2f642115b8bd1e441366ca495..448b22767877e15c80932f654fd6d317fae79479 100644
--- a/Framework/Kernel/src/Memory.cpp
+++ b/Framework/Kernel/src/Memory.cpp
@@ -1,8 +1,6 @@
#include "MantidKernel/Memory.h"
#include "MantidKernel/Logger.h"
-#include <iostream>
-#include <iomanip>
#include <sstream>
#ifdef __linux__
diff --git a/Framework/Kernel/src/NetworkProxyOSX.cpp b/Framework/Kernel/src/NetworkProxyOSX.cpp
index b3dbeb96dbc9dded88e2029784f5664d176298a9..5bdae5c9c297078640f34c5be7d481dee3fc852e 100644
--- a/Framework/Kernel/src/NetworkProxyOSX.cpp
+++ b/Framework/Kernel/src/NetworkProxyOSX.cpp
@@ -5,7 +5,6 @@
#include <SystemConfiguration/SystemConfiguration.h>
#include <CoreFoundation/CoreFoundation.h>
#include <CFNetwork/CFProxySupport.h>
-#include <iostream>
#include <sstream>
#include <string>
#include <vector>
diff --git a/Framework/Kernel/src/NeutronAtom.cpp b/Framework/Kernel/src/NeutronAtom.cpp
index 03874b20567f64528a9cde28317cfeeb01480b99..4469af38fb770fe88a084f6a1eab6c803ecabb84 100644
--- a/Framework/Kernel/src/NeutronAtom.cpp
+++ b/Framework/Kernel/src/NeutronAtom.cpp
@@ -4,7 +4,6 @@
#include "MantidKernel/NeutronAtom.h"
#include "MantidKernel/PhysicalConstants.h"
#include <algorithm>
-#include <iostream> // REMOVE
#include <sstream>
#include <stdexcept>
#include <boost/math/special_functions/fpclassify.hpp>
diff --git a/Framework/Kernel/src/ProxyInfo.cpp b/Framework/Kernel/src/ProxyInfo.cpp
index 1299ff719d8c1b81e5dc8a6d2592b662c537395c..c34da7a9411eb39b398ea93b3054f749d17e8496 100644
--- a/Framework/Kernel/src/ProxyInfo.cpp
+++ b/Framework/Kernel/src/ProxyInfo.cpp
@@ -1,6 +1,5 @@
#include "MantidKernel/ProxyInfo.h"
#include <stdexcept>
-#include <iostream>
namespace Mantid {
namespace Kernel {
diff --git a/Framework/Kernel/src/Strings.cpp b/Framework/Kernel/src/Strings.cpp
index c396f0e02c9b9179337274b07a24758d49aabed5..c2bf98bd5ac359c668662ad04aab5db601603e03 100644
--- a/Framework/Kernel/src/Strings.cpp
+++ b/Framework/Kernel/src/Strings.cpp
@@ -11,7 +11,6 @@
#include <cmath>
#include <fstream>
-#include <iomanip>
using std::size_t;
diff --git a/Framework/Kernel/src/ThreadSafeLogStream.cpp b/Framework/Kernel/src/ThreadSafeLogStream.cpp
index e487fe13169a12b03237808fdea8a943162b9e4a..23eceb0c53eef5544e24bd5fc04bf1f8db227871 100644
--- a/Framework/Kernel/src/ThreadSafeLogStream.cpp
+++ b/Framework/Kernel/src/ThreadSafeLogStream.cpp
@@ -2,7 +2,6 @@
// Includes
//-----------------------------------------------
#include "MantidKernel/ThreadSafeLogStream.h"
-#include <iostream>
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/src/V3D.cpp b/Framework/Kernel/src/V3D.cpp
index 0d504d14bec5e04587d15b7f7926880a05733493..fc9ef31b403d5923fdb627ecd8687344d357bd96 100644
--- a/Framework/Kernel/src/V3D.cpp
+++ b/Framework/Kernel/src/V3D.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <cmath>
#include <float.h>
#include <vector>
diff --git a/Framework/Kernel/src/VectorHelper.cpp b/Framework/Kernel/src/VectorHelper.cpp
index 71a917e2628e76750d6f9e67d0b0ee217bc6fe55..61aedadfc83fefb11da536e3229170dc378d050e 100644
--- a/Framework/Kernel/src/VectorHelper.cpp
+++ b/Framework/Kernel/src/VectorHelper.cpp
@@ -3,7 +3,6 @@
#include "MantidKernel/VectorHelper.h"
#include <algorithm>
-#include <iostream>
#include <numeric>
#include <sstream>
#include <boost/algorithm/string.hpp>
diff --git a/Framework/Kernel/test/ArrayLengthValidatorTest.h b/Framework/Kernel/test/ArrayLengthValidatorTest.h
index fee68f88eb36cf7df2ccb4345bd990a9750be547..11f5912f56b56009e15028c6b49fafda04b5065a 100644
--- a/Framework/Kernel/test/ArrayLengthValidatorTest.h
+++ b/Framework/Kernel/test/ArrayLengthValidatorTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include <vector>
#include "MantidKernel/ArrayLengthValidator.h"
diff --git a/Framework/Kernel/test/BoseEinsteinDistributionTest.h b/Framework/Kernel/test/BoseEinsteinDistributionTest.h
index 8648aca16e781cebae037bd859cb1d10b1f5e0db..38809270e4610ce1cae724b1dc473f50c20d184b 100644
--- a/Framework/Kernel/test/BoseEinsteinDistributionTest.h
+++ b/Framework/Kernel/test/BoseEinsteinDistributionTest.h
@@ -6,9 +6,6 @@
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
-
class BoseEinsteinDistributionTest : public CxxTest::TestSuite {
public:
void test_Standard_Distribution_Gives_Correct_Value_Away_From_Edge() {
diff --git a/Framework/Kernel/test/CPUTimerTest.h b/Framework/Kernel/test/CPUTimerTest.h
index 4e7ce55ff50a9af6541c8ca93050a8e6460679d2..802291637de8183b9e630b26cc747d586f9ac01b 100644
--- a/Framework/Kernel/test/CPUTimerTest.h
+++ b/Framework/Kernel/test/CPUTimerTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/CPUTimer.h"
diff --git a/Framework/Kernel/test/CompositeValidatorTest.h b/Framework/Kernel/test/CompositeValidatorTest.h
index c13f5f990999f3a4021dca837102cd488cf83cb6..72f33a82d16bc9d0fd6d262e51ca374b057105b9 100644
--- a/Framework/Kernel/test/CompositeValidatorTest.h
+++ b/Framework/Kernel/test/CompositeValidatorTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/CompositeValidator.h"
#include "MantidKernel/BoundedValidator.h"
diff --git a/Framework/Kernel/test/DiskBufferISaveableTest.h b/Framework/Kernel/test/DiskBufferISaveableTest.h
index b75dbfba8bf0bb56d4c096d9197f8083ed08923e..d6c674ec2860962343651c2fa12d5722e5301fca 100644
--- a/Framework/Kernel/test/DiskBufferISaveableTest.h
+++ b/Framework/Kernel/test/DiskBufferISaveableTest.h
@@ -13,8 +13,6 @@
#include <boost/multi_index/mem_fun.hpp>
#include <boost/multi_index/sequenced_index.hpp>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/test/DiskBufferTest.h b/Framework/Kernel/test/DiskBufferTest.h
index 8da5e7cc4e300aa0df0d927dfe6ce4561a94f4e9..82a451b6ffc6870fd1b7fc13948048a69d833e0f 100644
--- a/Framework/Kernel/test/DiskBufferTest.h
+++ b/Framework/Kernel/test/DiskBufferTest.h
@@ -13,8 +13,6 @@
#include <boost/multi_index/mem_fun.hpp>
#include <boost/multi_index/sequenced_index.hpp>
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/test/EnabledWhenPropertyTest.h b/Framework/Kernel/test/EnabledWhenPropertyTest.h
index af3453572a2335fcd2bcce083b4490b80a96fd04..20caf9b265779c621e59133c88cc061453eb00b4 100644
--- a/Framework/Kernel/test/EnabledWhenPropertyTest.h
+++ b/Framework/Kernel/test/EnabledWhenPropertyTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/EnabledWhenProperty.h"
#include "MantidKernel/PropertyManager.h"
diff --git a/Framework/Kernel/test/FreeBlockTest.h b/Framework/Kernel/test/FreeBlockTest.h
index 9cf27660d301a82c85a6556004cd0c0aeef95cac..1cf4e7408db6d6d197123bca277f90b6d9fcd550 100644
--- a/Framework/Kernel/test/FreeBlockTest.h
+++ b/Framework/Kernel/test/FreeBlockTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/test/FunctionTaskTest.h b/Framework/Kernel/test/FunctionTaskTest.h
index b1ce5a461081200257dfc83002c9ae0d5e68d419..ff7054fa190719905c45b676defe03a3973630c8 100644
--- a/Framework/Kernel/test/FunctionTaskTest.h
+++ b/Framework/Kernel/test/FunctionTaskTest.h
@@ -7,9 +7,6 @@
#include "MantidKernel/Task.h"
#include "MantidKernel/FunctionTask.h"
-#include <iostream>
-#include <iomanip>
-
using namespace Mantid::Kernel;
/** Functions for use by the tasks */
diff --git a/Framework/Kernel/test/HermitePolynomialsTest.h b/Framework/Kernel/test/HermitePolynomialsTest.h
index 8e11b8279bfe37a52f1b043cb87f39ead8743f1f..7cfde2e885efa143f3bf5660067bf725f3b7008c 100644
--- a/Framework/Kernel/test/HermitePolynomialsTest.h
+++ b/Framework/Kernel/test/HermitePolynomialsTest.h
@@ -2,7 +2,6 @@
#define MANTID_KERNEL_HERMITEPOLYNOMIALSTEST_H_
#include <cxxtest/TestSuite.h>
-#include <iomanip>
#include "MantidKernel/Math/Distributions/HermitePolynomials.h"
class HermitePolynomialsTest : public CxxTest::TestSuite {
diff --git a/Framework/Kernel/test/IPropertySettingsTest.h b/Framework/Kernel/test/IPropertySettingsTest.h
index 3183c96e0d1dc62b28be4fc4123bafd061a8acb9..bb1e4afebba871bbb15805038853b4d21c1212f6 100644
--- a/Framework/Kernel/test/IPropertySettingsTest.h
+++ b/Framework/Kernel/test/IPropertySettingsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/IPropertySettings.h"
using namespace Mantid;
diff --git a/Framework/Kernel/test/ISaveableTest.h b/Framework/Kernel/test/ISaveableTest.h
index 2c053fef2c6174fe4971a8afb3ffe0b38dde63ec..14be0493129e2fcf3e062e2a094a7659d8341901 100644
--- a/Framework/Kernel/test/ISaveableTest.h
+++ b/Framework/Kernel/test/ISaveableTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
using namespace Mantid;
diff --git a/Framework/Kernel/test/LogParserTest.h b/Framework/Kernel/test/LogParserTest.h
index 558b1c2bd8faaf2adca6403ea137a6c0875103ed..0cf62d8730c89ef30b35c9ec78626360841e8e02 100644
--- a/Framework/Kernel/test/LogParserTest.h
+++ b/Framework/Kernel/test/LogParserTest.h
@@ -3,7 +3,6 @@
#include <cxxtest/TestSuite.h>
-#include <iostream>
#include <fstream>
#include "MantidKernel/LogParser.h"
diff --git a/Framework/Kernel/test/MagneticFormFactorTableTest.h b/Framework/Kernel/test/MagneticFormFactorTableTest.h
index 1762991bdfb25ba87980528285a20cf6662ff199..1d660d419e635a62a49b871ce6bb465f5fd44ce9 100644
--- a/Framework/Kernel/test/MagneticFormFactorTableTest.h
+++ b/Framework/Kernel/test/MagneticFormFactorTableTest.h
@@ -6,8 +6,6 @@
#include <boost/scoped_ptr.hpp>
-#include <iomanip>
-
using Mantid::PhysicalConstants::MagneticFormFactorTable;
class MagneticFormFactorTableTest : public CxxTest::TestSuite {
diff --git a/Framework/Kernel/test/MemoryTest.h b/Framework/Kernel/test/MemoryTest.h
index c2e55c723f63f4870bacdd64586982bf64ac0709..4b515aa9a277a10b2452da378d236f52f4322060 100644
--- a/Framework/Kernel/test/MemoryTest.h
+++ b/Framework/Kernel/test/MemoryTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/Memory.h"
#include "MantidKernel/MultiThreaded.h"
diff --git a/Framework/Kernel/test/MutexTest.h b/Framework/Kernel/test/MutexTest.h
index 2f52b64eac2d45988310fbd9d5ab5b2ac43159bf..47194481d641533003258aba139b9fe259425796 100644
--- a/Framework/Kernel/test/MutexTest.h
+++ b/Framework/Kernel/test/MutexTest.h
@@ -5,7 +5,6 @@
#include "MantidKernel/MultiThreaded.h"
#include "MantidKernel/ThreadPool.h"
#include "MantidKernel/FunctionTask.h"
-#include <iostream>
#include "MantidKernel/CPUTimer.h"
#include <Poco/RWLock.h>
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/test/ProgressBaseTest.h b/Framework/Kernel/test/ProgressBaseTest.h
index cecacc02982b5a7cd4a826ce7a52c2844150fc39..ac58b058210985420321a3bd68ada7c86d6a9841 100644
--- a/Framework/Kernel/test/ProgressBaseTest.h
+++ b/Framework/Kernel/test/ProgressBaseTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/ProgressBase.h"
diff --git a/Framework/Kernel/test/ProgressTextTest.h b/Framework/Kernel/test/ProgressTextTest.h
index e70ab338386cf17b660216143bd68faa30b53f43..03432ae35fd58cfdd877e0cf38daa08138d4191b 100644
--- a/Framework/Kernel/test/ProgressTextTest.h
+++ b/Framework/Kernel/test/ProgressTextTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include <cstdlib>
#include "MantidKernel/ProgressText.h"
diff --git a/Framework/Kernel/test/StdoutChannelTest.h b/Framework/Kernel/test/StdoutChannelTest.h
index e0ef37350d8875bfc478351183b98b575e9fd753..3c24efdf4ecf160e4b86478c2b36da005a1aa19d 100644
--- a/Framework/Kernel/test/StdoutChannelTest.h
+++ b/Framework/Kernel/test/StdoutChannelTest.h
@@ -5,7 +5,6 @@
#include "MantidKernel/StdoutChannel.h"
#include "MantidKernel/Logger.h"
-#include <iostream>
#include <Poco/Logger.h>
#include <Poco/NullChannel.h>
#include <Poco/AutoPtr.h>
diff --git a/Framework/Kernel/test/TaskTest.h b/Framework/Kernel/test/TaskTest.h
index b9d2fc3f0a1050aa543c8032815fc17e21135741..975a27f179e93dcfe4576d66fcbccbe2f8d1f80f 100644
--- a/Framework/Kernel/test/TaskTest.h
+++ b/Framework/Kernel/test/TaskTest.h
@@ -6,9 +6,6 @@
#include <MantidKernel/Timer.h>
#include "MantidKernel/Task.h"
-#include <iostream>
-#include <iomanip>
-
using namespace Mantid::Kernel;
namespace TaskTestNamespace {
diff --git a/Framework/Kernel/test/ThreadPoolRunnableTest.h b/Framework/Kernel/test/ThreadPoolRunnableTest.h
index 009dae5e2b8c40fece751eaa4921eb080b10a37f..9d7470406d7de456048cb68bf22c068cb4f32ff0 100644
--- a/Framework/Kernel/test/ThreadPoolRunnableTest.h
+++ b/Framework/Kernel/test/ThreadPoolRunnableTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/ThreadPoolRunnable.h>
#include <MantidKernel/ThreadScheduler.h>
diff --git a/Framework/Kernel/test/ThreadPoolTest.h b/Framework/Kernel/test/ThreadPoolTest.h
index c8aaca80a53e0963993b41410820afc983b280a8..624221f4cfdbc1c57ca439e897e72884a90af002 100644
--- a/Framework/Kernel/test/ThreadPoolTest.h
+++ b/Framework/Kernel/test/ThreadPoolTest.h
@@ -13,8 +13,6 @@
#include <boost/bind.hpp>
#include <boost/make_shared.hpp>
-#include <iostream>
-#include <iomanip>
#include <Poco/Mutex.h>
#include <cstdlib>
diff --git a/Framework/Kernel/test/ThreadSchedulerMutexesTest.h b/Framework/Kernel/test/ThreadSchedulerMutexesTest.h
index 9c8166f6795ad7713d1d00adef340b6253daff62..bc74c0d5dd6256175b3fe1fd5d36388b86a20c71 100644
--- a/Framework/Kernel/test/ThreadSchedulerMutexesTest.h
+++ b/Framework/Kernel/test/ThreadSchedulerMutexesTest.h
@@ -5,8 +5,6 @@
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
#include <boost/make_shared.hpp>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/ThreadSchedulerMutexes.h>
diff --git a/Framework/Kernel/test/ThreadSchedulerTest.h b/Framework/Kernel/test/ThreadSchedulerTest.h
index 16786463bf19d92497f7c98c3ef75de4c5a332f8..31d6e7f7b29465af685ac9c0cdf83ac373f1da50 100644
--- a/Framework/Kernel/test/ThreadSchedulerTest.h
+++ b/Framework/Kernel/test/ThreadSchedulerTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include <MantidKernel/Timer.h>
#include <MantidKernel/System.h>
-#include <iostream>
-#include <iomanip>
#include <MantidKernel/ThreadScheduler.h>
#include <MantidKernel/Task.h>
diff --git a/Framework/Kernel/test/UnitConversionTest.h b/Framework/Kernel/test/UnitConversionTest.h
index f3b0a259c7b4dae6fb661cb33db16feb68da93ae..369caac852ad64d24fd85e11192719c38fc3b8c3 100644
--- a/Framework/Kernel/test/UnitConversionTest.h
+++ b/Framework/Kernel/test/UnitConversionTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/Exception.h"
#include "MantidKernel/PhysicalConstants.h"
-#include <iomanip>
-
using Mantid::Kernel::UnitConversion;
class UnitConversionTest : public CxxTest::TestSuite {
diff --git a/Framework/Kernel/test/UtilsTest.h b/Framework/Kernel/test/UtilsTest.h
index fd76bb7e91bed37c52d64f4a4149d674e14706a7..767a1a4b4dd2835ff42151c18dfe8cc4ce5df69f 100644
--- a/Framework/Kernel/test/UtilsTest.h
+++ b/Framework/Kernel/test/UtilsTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/Utils.h"
diff --git a/Framework/Kernel/test/VMDTest.h b/Framework/Kernel/test/VMDTest.h
index 27ac5cc6087a7326551f026156cfe36609580d96..0d550ab59a508ebce516b1ca4b6b48ed55d047b2 100644
--- a/Framework/Kernel/test/VMDTest.h
+++ b/Framework/Kernel/test/VMDTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
#include <cmath>
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/VMD.h"
diff --git a/Framework/Kernel/test/VectorHelperTest.h b/Framework/Kernel/test/VectorHelperTest.h
index 2573f0b11e962c396acdca2dd289834c62d1e2ec..16f9f4b86a2f79e2fe41a07dc55323e44066e000 100644
--- a/Framework/Kernel/test/VectorHelperTest.h
+++ b/Framework/Kernel/test/VectorHelperTest.h
@@ -5,8 +5,6 @@
#include "MantidKernel/Timer.h"
#include "MantidKernel/VectorHelper.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <boost/assign/list_of.hpp>
using namespace Mantid::Kernel;
diff --git a/Framework/Kernel/test/VisibleWhenPropertyTest.h b/Framework/Kernel/test/VisibleWhenPropertyTest.h
index 1ed5da48cd5bcc75fc86adb8a01bd7c13f83ca7d..197009c33bdc9c841ba2cd705ee024caed7ea845 100644
--- a/Framework/Kernel/test/VisibleWhenPropertyTest.h
+++ b/Framework/Kernel/test/VisibleWhenPropertyTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidKernel/VisibleWhenProperty.h"
#include "MantidKernel/PropertyManagerOwner.h"
diff --git a/Framework/LiveData/test/LiveDataAlgorithmTest.h b/Framework/LiveData/test/LiveDataAlgorithmTest.h
index a3eb949773fcdee51a810d6fe7b34e526d136aa6..0e2b7344b381ddaa4b09cdbadf40dab822f75423 100644
--- a/Framework/LiveData/test/LiveDataAlgorithmTest.h
+++ b/Framework/LiveData/test/LiveDataAlgorithmTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidLiveData/LiveDataAlgorithm.h"
#include "MantidTestHelpers/WorkspaceCreationHelper.h"
#include "MantidTestHelpers/FacilityHelper.h"
diff --git a/Framework/LiveData/test/LoadLiveDataTest.h b/Framework/LiveData/test/LoadLiveDataTest.h
index 91b69f5ad0ec7a4693c19dd7aed8d051fcf991ba..77bdef423f6cb70ec7abff8bc81c80ccec2d0570 100644
--- a/Framework/LiveData/test/LoadLiveDataTest.h
+++ b/Framework/LiveData/test/LoadLiveDataTest.h
@@ -7,8 +7,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include <numeric>
#include "MantidDataObjects/Workspace2D.h"
#include "MantidKernel/ConfigService.h"
diff --git a/Framework/LiveData/test/MonitorLiveDataTest.h b/Framework/LiveData/test/MonitorLiveDataTest.h
index fc9d1e9a653e7809b43829021a78677f74e913ba..0fdd7f94b60b762ca57152ba142c5f37a6407838 100644
--- a/Framework/LiveData/test/MonitorLiveDataTest.h
+++ b/Framework/LiveData/test/MonitorLiveDataTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidLiveData/MonitorLiveData.h"
#include "MantidAPI/AlgorithmManager.h"
diff --git a/Framework/LiveData/test/StartLiveDataTest.h b/Framework/LiveData/test/StartLiveDataTest.h
index 8f7729d14eea1dde91094dd99bbcdc97688a64b4..023343ebd11be6149873e508b8dd7c9c1df932bf 100644
--- a/Framework/LiveData/test/StartLiveDataTest.h
+++ b/Framework/LiveData/test/StartLiveDataTest.h
@@ -6,8 +6,6 @@
#include "MantidKernel/System.h"
#include "MantidKernel/Timer.h"
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-#include <iostream>
#include "MantidKernel/SingletonHolder.h"
#include "MantidAPI/AlgorithmManager.h"
#include "MantidAPI/FrameworkManager.h"
diff --git a/Framework/MDAlgorithms/CMakeLists.txt b/Framework/MDAlgorithms/CMakeLists.txt
index d52d54087d1ee9ad8e3c019dbc931d490c2f9416..f3e9e4d04a2db2271f828af463f363f2364f2462 100644
--- a/Framework/MDAlgorithms/CMakeLists.txt
+++ b/Framework/MDAlgorithms/CMakeLists.txt
@@ -19,6 +19,7 @@ set ( SRC_FILES
src/ConvToMDSelector.cpp
src/ConvertCWPDMDToSpectra.cpp
src/ConvertCWSDExpToMomentum.cpp
+ src/ConvertCWSDMDtoHKL.cpp
src/ConvertMDHistoToMatrixWorkspace.cpp
src/ConvertSpiceDataToRealSpace.cpp
src/ConvertToDetectorFaceMD.cpp
@@ -138,6 +139,7 @@ set ( INC_FILES
inc/MantidMDAlgorithms/ConvToMDBase.h
inc/MantidMDAlgorithms/ConvertCWPDMDToSpectra.h
inc/MantidMDAlgorithms/ConvertCWSDExpToMomentum.h
+ inc/MantidMDAlgorithms/ConvertCWSDMDtoHKL.h
inc/MantidMDAlgorithms/ConvertMDHistoToMatrixWorkspace.h
inc/MantidMDAlgorithms/ConvertSpiceDataToRealSpace.h
inc/MantidMDAlgorithms/ConvertToDetectorFaceMD.h
@@ -257,6 +259,7 @@ set ( TEST_FILES
CompareMDWorkspacesTest.h
ConvertCWPDMDToSpectraTest.h
ConvertCWSDExpToMomentumTest.h
+ ConvertCWSDMDtoHKLTest.h
ConvertEventsToMDTest.h
ConvertMDHistoToMatrixWorkspaceTest.h
ConvertSpiceDataToRealSpaceTest.h
diff --git a/Framework/MDAlgorithms/inc/MantidMDAlgorithms/ConvertCWSDMDtoHKL.h b/Framework/MDAlgorithms/inc/MantidMDAlgorithms/ConvertCWSDMDtoHKL.h
new file mode 100644
index 0000000000000000000000000000000000000000..6879be0456ee797b4df6442510d5ad6894024197
--- /dev/null
+++ b/Framework/MDAlgorithms/inc/MantidMDAlgorithms/ConvertCWSDMDtoHKL.h
@@ -0,0 +1,107 @@
+#ifndef MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKL_H_
+#define MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKL_H_
+
+#include "MantidMDAlgorithms/DllConfig.h"
+#include "MantidKernel/System.h"
+#include "MantidAPI/Algorithm.h"
+#include "MantidAPI/IMDEventWorkspace_fwd.h"
+#include "MantidDataObjects/PeaksWorkspace.h"
+#include "MantidKernel/Matrix.h"
+#include "MantidKernel/V3D.h"
+
+namespace Mantid {
+namespace MDAlgorithms {
+
+/** ConvertCWSDMDtoHKL : TODO: DESCRIPTION
+
+ Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD Oak Ridge
+ National Laboratory & European Spallation Source
+
+ This file is part of Mantid.
+
+ Mantid is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 3 of the License, or
+ (at your option) any later version.
+
+ Mantid is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+ File change history is stored at: <https://github.com/mantidproject/mantid>
+ Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class MANTID_MDALGORITHMS_DLL ConvertCWSDMDtoHKL : public API::Algorithm {
+public:
+ ConvertCWSDMDtoHKL();
+ virtual ~ConvertCWSDMDtoHKL();
+
+ /// Algorithm's name
+ virtual const std::string name() const { return "ConvertCWSDMDtoHKL"; }
+
+ /// Summary of algorithms purpose
+ virtual const std::string summary() const {
+ return "Convert constant wavelength single crystal diffractomer's data"
+ "in MDEventWorkspace and in unit of Q-sample to the HKL space "
+ "by UB matrix.";
+ }
+
+ /// Algorithm's version
+ virtual int version() const { return (1); }
+
+ /// Algorithm's category for identification
+ virtual const std::string category() const {
+ return "Diffraction;MDAlgorithms";
+ }
+
+private:
+ /// Initialisation code
+ void init();
+
+ /// Execution code
+ void exec();
+
+ void exportEvents(API::IMDEventWorkspace_sptr mdws,
+ std::vector<Kernel::V3D> &vec_event_qsample,
+ std::vector<signal_t> &vec_event_signal,
+ std::vector<detid_t> &vec_event_det);
+
+ void convertFromQSampleToHKL(const std::vector<Kernel::V3D> &q_vectors,
+ std::vector<Kernel::V3D> &miller_indices);
+
+ API::IMDEventWorkspace_sptr
+ createHKLMDWorkspace(const std::vector<Kernel::V3D> &vec_hkl,
+ const std::vector<signal_t> &vec_signal,
+ const std::vector<detid_t> &vec_detid);
+
+ void addMDEvents(std::vector<std::vector<coord_t>> &vec_q_sample,
+ std::vector<float> &vec_signal);
+
+ void
+ saveMDToFile(std::vector<std::vector<Mantid::coord_t>> &vec_event_qsample,
+ std::vector<float> &vec_event_signal);
+
+ void saveEventsToFile(const std::string &filename,
+ std::vector<Kernel::V3D> &vec_event_pos,
+ std::vector<signal_t> &vec_event_signal,
+ std::vector<detid_t> &vec_event_detid);
+
+ void getUBMatrix();
+
+ void getRange(const std::vector<Kernel::V3D> vec_hkl,
+ std::vector<double> &extentMins,
+ std::vector<double> &extentMaxs);
+
+ API::IMDEventWorkspace_sptr m_outputWS;
+
+ Kernel::Matrix<double> m_UB;
+};
+
+} // namespace MDAlgorithms
+} // namespace Mantid
+
+#endif /* MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKL_H_ */
diff --git a/Framework/MDAlgorithms/inc/MantidMDAlgorithms/LoadILLAsciiHelper.h b/Framework/MDAlgorithms/inc/MantidMDAlgorithms/LoadILLAsciiHelper.h
index f4e5d2fadaf3ddee29820c6de4fc596aac9881da..d2005ab91e8df6e47da8fd2229014e77737d649a 100644
--- a/Framework/MDAlgorithms/inc/MantidMDAlgorithms/LoadILLAsciiHelper.h
+++ b/Framework/MDAlgorithms/inc/MantidMDAlgorithms/LoadILLAsciiHelper.h
@@ -3,7 +3,6 @@
#include "MantidMDAlgorithms/DllConfig.h"
-#include <iostream>
#include <fstream>
#include <vector>
#include <string>
diff --git a/Framework/MDAlgorithms/src/ConvertCWSDMDtoHKL.cpp b/Framework/MDAlgorithms/src/ConvertCWSDMDtoHKL.cpp
new file mode 100644
index 0000000000000000000000000000000000000000..ebee9b77c9e84a78b80ef741ee177271aab55475
--- /dev/null
+++ b/Framework/MDAlgorithms/src/ConvertCWSDMDtoHKL.cpp
@@ -0,0 +1,403 @@
+#include "MantidMDAlgorithms/ConvertCWSDMDtoHKL.h"
+
+#include "MantidAPI/WorkspaceProperty.h"
+#include "MantidAPI/IMDEventWorkspace.h"
+#include "MantidAPI/IMDIterator.h"
+
+#include "MantidGeometry/Crystal/IndexingUtils.h"
+#include "MantidGeometry/Crystal/OrientedLattice.h"
+#include "MantidKernel/BoundedValidator.h"
+#include "MantidKernel/ArrayProperty.h"
+
+#include "MantidDataObjects/MDEventFactory.h"
+#include "MantidAPI/ExperimentInfo.h"
+#include "MantidGeometry/Instrument/ComponentHelper.h"
+#include "MantidMDAlgorithms/MDWSDescription.h"
+#include "MantidMDAlgorithms/MDWSTransform.h"
+#include "MantidAPI/FileProperty.h"
+#include "MantidDataObjects/MDBoxBase.h"
+#include "MantidDataObjects/MDEventInserter.h"
+
+#include <fstream>
+
+namespace Mantid {
+namespace MDAlgorithms {
+
+using namespace Mantid::API;
+using namespace Mantid::Kernel;
+using namespace Mantid::MDAlgorithms;
+using namespace Mantid::DataObjects;
+using namespace Mantid::Geometry;
+
+DECLARE_ALGORITHM(ConvertCWSDMDtoHKL)
+
+//----------------------------------------------------------------------------------------------
+/** Constructor
+ */
+ConvertCWSDMDtoHKL::ConvertCWSDMDtoHKL() {}
+
+//----------------------------------------------------------------------------------------------
+/** Destructor
+ */
+ConvertCWSDMDtoHKL::~ConvertCWSDMDtoHKL() {}
+
+//----------------------------------------------------------------------------------------------
+/** Init
+ */
+void ConvertCWSDMDtoHKL::init() {
+ declareProperty(new WorkspaceProperty<IMDEventWorkspace>("InputWorkspace", "",
+ Direction::Input),
+ "Name of the input MDEventWorkspace that stores detectors "
+ "counts from a constant-wave powder diffraction experiment.");
+
+ declareProperty(new WorkspaceProperty<PeaksWorkspace>("PeaksWorkspace", "",
+ Direction::Input,
+ PropertyMode::Optional),
+ "Input Peaks Workspace");
+
+ declareProperty(
+ new ArrayProperty<double>("UBMatrix"),
+ "A comma seperated list of doubles for UB matrix from (0,0), (0,1)"
+ "... (2,1),(2,2)");
+
+ declareProperty(new WorkspaceProperty<IMDEventWorkspace>(
+ "OutputWorkspace", "", Direction::Output),
+ "Name of the output MDEventWorkspace in HKL-space.");
+
+ std::vector<std::string> exts;
+ exts.push_back(".dat");
+ declareProperty(
+ new FileProperty("QSampleFileName", "", API::FileProperty::OptionalSave),
+ "Name of file for sample sample.");
+
+ declareProperty(
+ new FileProperty("HKLFileName", "", API::FileProperty::OptionalSave),
+ "Name of file for HKL.");
+}
+
+//----------------------------------------------------------------------------------------------
+/** Exec
+ */
+void ConvertCWSDMDtoHKL::exec() {
+ // Get inputs
+ IMDEventWorkspace_sptr inputWS = getProperty("InputWorkspace");
+ if (inputWS->getSpecialCoordinateSystem() != Mantid::Kernel::QSample) {
+ std::stringstream errmsg;
+ errmsg << "Input MDEventWorkspace's coordinate system is not QSample but "
+ << inputWS->getSpecialCoordinateSystem() << ".";
+ throw std::invalid_argument(errmsg.str());
+ }
+
+ getUBMatrix();
+
+ // Test indexing. Will be delete soon
+ if (true) {
+ Kernel::V3D qsample; // [1.36639,-2.52888,-4.77349]
+ qsample.setX(1.36639);
+ qsample.setY(-2.52888);
+ qsample.setZ(-4.77349);
+
+ std::vector<Kernel::V3D> vec_qsample;
+ vec_qsample.push_back(qsample);
+ std::vector<Kernel::V3D> vec_mindex(0);
+
+ convertFromQSampleToHKL(vec_qsample, vec_mindex);
+ g_log.notice() << "[DB Number of returned Miller Index = "
+ << vec_mindex.size() << "\n";
+ g_log.notice() << "[DB] Output HKL = " << vec_mindex[0].toString() << "\n";
+ }
+
+ // Get events information for future processing
+ std::vector<Kernel::V3D> vec_event_qsample;
+ std::vector<signal_t> vec_event_signal;
+ std::vector<detid_t> vec_event_det;
+ exportEvents(inputWS, vec_event_qsample, vec_event_signal, vec_event_det);
+
+ std::string qsamplefilename = getPropertyValue("QSampleFileName");
+ // Abort with an empty string
+ if (qsamplefilename.size() > 0)
+ saveEventsToFile(qsamplefilename, vec_event_qsample, vec_event_signal,
+ vec_event_det);
+
+ // Convert to HKL
+ std::vector<Kernel::V3D> vec_event_hkl;
+ convertFromQSampleToHKL(vec_event_qsample, vec_event_hkl);
+
+ // Get file name
+ std::string hklfilename = getPropertyValue("HKLFileName");
+ // Abort mission if no file name is given
+ if (hklfilename.size() > 0)
+ saveEventsToFile(hklfilename, vec_event_hkl, vec_event_signal,
+ vec_event_det);
+
+ // Create output workspace
+ m_outputWS =
+ createHKLMDWorkspace(vec_event_hkl, vec_event_signal, vec_event_det);
+
+ setProperty("OutputWorkspace", m_outputWS);
+}
+
+void ConvertCWSDMDtoHKL::getUBMatrix() {
+ std::string peakwsname = getPropertyValue("PeaksWorkspace");
+ if (peakwsname.size() > 0 &&
+ AnalysisDataService::Instance().doesExist(peakwsname)) {
+ // Get from peak works
+ DataObjects::PeaksWorkspace_sptr peakws = getProperty("PeaksWorkspace");
+ m_UB =
+ Kernel::Matrix<double>(peakws->sample().getOrientedLattice().getUB());
+ } else {
+ // Get from ...
+ std::vector<double> ub_array = getProperty("UBMatrix");
+ if (ub_array.size() != 9)
+ throw std::invalid_argument("Input UB matrix must have 9 elements");
+
+ m_UB = Kernel::Matrix<double>(3, 3);
+ for (size_t i = 0; i < 3; ++i) {
+ for (size_t j = 0; j < 3; ++j) {
+ m_UB[i][j] = ub_array[i * 3 + j];
+ }
+ }
+ }
+
+ return;
+}
+
+//--------------------------------------------------------------------------
+/** Export events from an MDEventWorkspace for future processing
+ * It is a convenient algorithm if number of events are few relative to
+ * number of detectors
+ */
+void ConvertCWSDMDtoHKL::exportEvents(
+ IMDEventWorkspace_sptr mdws, std::vector<Kernel::V3D> &vec_event_qsample,
+ std::vector<signal_t> &vec_event_signal,
+ std::vector<detid_t> &vec_event_det) {
+ // Set the size of the output vectors
+ size_t numevents = mdws->getNEvents();
+ g_log.information() << "Number of events = " << numevents << "\n";
+
+ vec_event_qsample.resize(numevents);
+ vec_event_signal.resize(numevents);
+ vec_event_det.resize(numevents);
+
+ // Go through to get value
+ IMDIterator *mditer = mdws->createIterator();
+ size_t nextindex = 1;
+ bool scancell = true;
+ size_t currindex = 0;
+ while (scancell) {
+ size_t numevent_cell = mditer->getNumEvents();
+ for (size_t iev = 0; iev < numevent_cell; ++iev) {
+ // Check
+ if (currindex >= vec_event_qsample.size())
+ throw std::runtime_error("Logic error in event size!");
+
+ float tempx = mditer->getInnerPosition(iev, 0);
+ float tempy = mditer->getInnerPosition(iev, 1);
+ float tempz = mditer->getInnerPosition(iev, 2);
+ signal_t signal = mditer->getInnerSignal(iev);
+ detid_t detid = mditer->getInnerDetectorID(iev);
+ Kernel::V3D qsample(tempx, tempy, tempz);
+ vec_event_qsample[currindex] = qsample;
+ vec_event_signal[currindex] = signal;
+ vec_event_det[currindex] = detid;
+
+ ++currindex;
+ }
+
+ // Advance to next cell
+ if (mditer->next()) {
+ // advance to next cell
+ mditer->jumpTo(nextindex);
+ ++nextindex;
+ } else {
+ // break the loop
+ scancell = false;
+ }
+ }
+
+ return;
+}
+
+//--------------------------------------------------------------------------
+/** Save Q-sample to file
+ */
+void ConvertCWSDMDtoHKL::saveMDToFile(
+ std::vector<std::vector<coord_t>> &vec_event_qsample,
+ std::vector<float> &vec_event_signal) {
+ // Get file name
+ std::string filename = getPropertyValue("QSampleFileName");
+
+ // Abort with an empty string
+ if (filename.size() == 0)
+ return;
+ if (vec_event_qsample.size() != vec_event_signal.size())
+ throw std::runtime_error(
+ "Input vectors of Q-sample and signal have different sizes.");
+
+ // Write to file
+ std::ofstream ofile;
+ ofile.open(filename.c_str());
+
+ size_t numevents = vec_event_qsample.size();
+ for (size_t i = 0; i < numevents; ++i) {
+ ofile << vec_event_qsample[i][0] << ", " << vec_event_qsample[i][1] << ", "
+ << vec_event_qsample[i][2] << ", " << vec_event_signal[i] << "\n";
+ }
+ ofile.close();
+
+ return;
+}
+
+//--------------------------------------------------------------------------
+/** Save HKL to file for 3D visualization
+ */
+void ConvertCWSDMDtoHKL::saveEventsToFile(
+ const std::string &filename, std::vector<Kernel::V3D> &vec_event_pos,
+ std::vector<signal_t> &vec_event_signal,
+ std::vector<detid_t> &vec_event_detid) {
+ // Check
+ if (vec_event_detid.size() != vec_event_pos.size() ||
+ vec_event_pos.size() != vec_event_signal.size())
+ throw std::invalid_argument(
+ "Input vectors for HKL, signal and detector ID have different size.");
+
+ std::ofstream ofile;
+ ofile.open(filename.c_str());
+
+ size_t numevents = vec_event_pos.size();
+ for (size_t i = 0; i < numevents; ++i) {
+ ofile << vec_event_pos[i].X() << ", " << vec_event_pos[i].Y() << ", "
+ << vec_event_pos[i].Z() << ", " << vec_event_signal[i] << ", "
+ << vec_event_detid[i] << "\n";
+ }
+ ofile.close();
+
+ return;
+}
+
+//--------------------------------------------------------------------------
+/** Convert from Q-sample to HKL
+ */
+void ConvertCWSDMDtoHKL::convertFromQSampleToHKL(
+ const std::vector<V3D> &q_vectors, std::vector<V3D> &miller_indices) {
+
+ Matrix<double> tempUB(m_UB);
+
+ int original_indexed = 0;
+ double original_error = 0;
+ double tolerance = 0.55; // to make sure no output is invalid
+ original_indexed = IndexingUtils::CalculateMillerIndices(
+ tempUB, q_vectors, tolerance, miller_indices, original_error);
+
+ g_log.notice() << "[DB] " << original_indexed << " peaks are indexed."
+ << "\n";
+
+ return;
+}
+
+//----------------------------------------------------------------------------------------------
+/** Create output workspace
+ * @brief ConvertCWSDExpToMomentum::createExperimentMDWorkspace
+ * @return
+ */
+API::IMDEventWorkspace_sptr ConvertCWSDMDtoHKL::createHKLMDWorkspace(
+ const std::vector<Kernel::V3D> &vec_hkl,
+ const std::vector<signal_t> &vec_signal,
+ const std::vector<detid_t> &vec_detid) {
+ // Check
+ if (vec_hkl.size() != vec_signal.size() ||
+ vec_signal.size() != vec_detid.size())
+ throw std::invalid_argument("Input vectors for HKL, signal and detector "
+ "IDs are of different size!");
+
+ // Create workspace in Q_sample with dimenion as 3
+ size_t nDimension = 3;
+ IMDEventWorkspace_sptr mdws =
+ MDEventFactory::CreateMDWorkspace(nDimension, "MDEvent");
+
+ // Extract Dimensions and add to the output workspace.
+ std::vector<std::string> vec_ID(3);
+ vec_ID[0] = "H";
+ vec_ID[1] = "K";
+ vec_ID[2] = "L";
+
+ std::vector<std::string> dimensionNames(3);
+ dimensionNames[0] = "H";
+ dimensionNames[1] = "K";
+ dimensionNames[2] = "L";
+
+ Mantid::Kernel::SpecialCoordinateSystem coordinateSystem =
+ Mantid::Kernel::HKL;
+
+ // Add dimensions
+ std::vector<double> m_extentMins(3);
+ std::vector<double> m_extentMaxs(3);
+ std::vector<size_t> m_numBins(3, 100);
+ getRange(vec_hkl, m_extentMins, m_extentMaxs);
+
+ for (size_t i = 0; i < nDimension; ++i) {
+ std::string id = vec_ID[i];
+ std::string name = dimensionNames[i];
+ // std::string units = "A^-1";
+ std::string units = "";
+ mdws->addDimension(
+ Geometry::MDHistoDimension_sptr(new Geometry::MDHistoDimension(
+ id, name, units, static_cast<coord_t>(m_extentMins[i]),
+ static_cast<coord_t>(m_extentMaxs[i]), m_numBins[i])));
+ }
+
+ // Set coordinate system
+ mdws->setCoordinateSystem(coordinateSystem);
+
+ // Creates a new instance of the MDEventInserter to output workspace
+ MDEventWorkspace<MDEvent<3>, 3>::sptr mdws_mdevt_3 =
+ boost::dynamic_pointer_cast<MDEventWorkspace<MDEvent<3>, 3>>(mdws);
+ MDEventInserter<MDEventWorkspace<MDEvent<3>, 3>::sptr> inserter(mdws_mdevt_3);
+
+ // Go though each spectrum to conver to MDEvent
+ for (size_t iq = 0; iq < vec_hkl.size(); ++iq) {
+ Kernel::V3D hkl = vec_hkl[iq];
+ std::vector<Mantid::coord_t> millerindex(3);
+ millerindex[0] = static_cast<float>(hkl.X());
+ millerindex[1] = static_cast<float>(hkl.Y());
+ millerindex[2] = static_cast<float>(hkl.Z());
+
+ signal_t signal = vec_signal[iq];
+ signal_t error = std::sqrt(signal);
+ uint16_t runnumber = 1;
+ detid_t detid = vec_detid[iq];
+
+ // Insert
+ inserter.insertMDEvent(
+ static_cast<float>(signal), static_cast<float>(error * error),
+ static_cast<uint16_t>(runnumber), detid, millerindex.data());
+ }
+
+ return mdws;
+}
+
+void ConvertCWSDMDtoHKL::getRange(const std::vector<Kernel::V3D> vec_hkl,
+ std::vector<double> &extentMins,
+ std::vector<double> &extentMaxs) {
+ assert(extentMins.size() == 3);
+ assert(extentMaxs.size() == 3);
+
+ for (size_t i = 0; i < 3; ++i) {
+ double minvalue = vec_hkl[0][i];
+ double maxvalue = vec_hkl[0][i];
+ for (size_t j = 1; j < vec_hkl.size(); ++j) {
+ double thisvalue = vec_hkl[j][i];
+ if (thisvalue < minvalue)
+ minvalue = thisvalue;
+ else if (thisvalue > maxvalue)
+ maxvalue = thisvalue;
+ }
+ extentMins[i] = minvalue;
+ extentMaxs[i] = maxvalue;
+ }
+
+ return;
+}
+
+} // namespace MDAlgorithms
+} // namespace Mantid
diff --git a/Framework/MDAlgorithms/src/ConvertToReflectometryQ.cpp b/Framework/MDAlgorithms/src/ConvertToReflectometryQ.cpp
index 43447b0003f073fe68f43902771e4a0ae16a4242..1431b38ae0e1e338d1d4035d2b67584c9cba4ff4 100644
--- a/Framework/MDAlgorithms/src/ConvertToReflectometryQ.cpp
+++ b/Framework/MDAlgorithms/src/ConvertToReflectometryQ.cpp
@@ -3,6 +3,7 @@
#include "MantidAPI/IEventWorkspace.h"
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/WorkspaceValidators.h"
+#include "MantidAPI/Progress.h"
#include "MantidDataObjects/EventWorkspace.h"
#include "MantidDataObjects/TableWorkspace.h"
@@ -296,6 +297,7 @@ void ConvertToReflectometryQ::exec() {
checkOutputDimensionalityChoice(outputDimensions); // TODO: This check can be
// retired as soon as all
// transforms have been
+
// Extract the incient theta angle from the logs if a user provided one is not
// given.
if (!bUseOwnIncidentTheta) {
@@ -359,28 +361,37 @@ void ConvertToReflectometryQ::exec() {
ExperimentInfo_sptr ei(inputWs->cloneExperimentInfo());
outputMDWS->addExperimentInfo(ei);
outputWS = outputMDWS;
- } else if (transMethod == normPolyTransform()) {
- throw std::runtime_error("Normalised Polynomial rebinning not supported "
- "for multidimensional output.");
- } else {
- throw std::runtime_error("Unknown rebinning method: " + transMethod);
- }
- } else {
- if (transMethod == centerTransform()) {
- auto outputWS2D = transform->execute(inputWs);
- outputWS2D->copyExperimentInfoFrom(inputWs.get());
- outputWS = outputWS2D;
} else if (transMethod == normPolyTransform()) {
const bool dumpVertexes = this->getProperty("DumpVertexes");
auto vertexesTable = vertexes;
-
- auto outputWSRB = transform->executeNormPoly(
+ // perform the normalised polygon transformation
+ auto normPolyTrans = transform->executeNormPoly(
inputWs, vertexesTable, dumpVertexes, outputDimensions);
- outputWSRB->copyExperimentInfoFrom(inputWs.get());
- outputWS = outputWSRB;
+ // copy any experiment info from input workspace
+ normPolyTrans->copyExperimentInfoFrom(inputWs.get());
+ // produce MDHistoWorkspace from normPolyTrans workspace.
+ auto outputMDWS = transform->executeMDNormPoly(normPolyTrans);
+ ExperimentInfo_sptr ei(normPolyTrans->cloneExperimentInfo());
+ outputMDWS->addExperimentInfo(ei);
+ outputWS = outputMDWS;
} else {
throw std::runtime_error("Unknown rebinning method: " + transMethod);
}
+ } else if (transMethod == normPolyTransform()) {
+ const bool dumpVertexes = this->getProperty("DumpVertexes");
+ auto vertexesTable = vertexes;
+ // perform the normalised polygon transformation
+ auto output2DWS = transform->executeNormPoly(
+ inputWs, vertexesTable, dumpVertexes, outputDimensions);
+ // copy any experiment info from input workspace
+ output2DWS->copyExperimentInfoFrom(inputWs.get());
+ outputWS = output2DWS;
+ } else if (transMethod == centerTransform()) {
+ auto output2DWS = transform->execute(inputWs);
+ output2DWS->copyExperimentInfoFrom(inputWs.get());
+ outputWS = output2DWS;
+ } else {
+ throw std::runtime_error("Unknown rebinning method: " + transMethod);
}
// Execute the transform and bind to the output.
diff --git a/Framework/MDAlgorithms/src/ImportMDEventWorkspace.cpp b/Framework/MDAlgorithms/src/ImportMDEventWorkspace.cpp
index a4efd01bb0b495f0c56ad4e300adbc3226beba5a..9bb7c6d1a1723019e115ccda352ef3039a6dccee 100644
--- a/Framework/MDAlgorithms/src/ImportMDEventWorkspace.cpp
+++ b/Framework/MDAlgorithms/src/ImportMDEventWorkspace.cpp
@@ -1,6 +1,5 @@
#include "MantidMDAlgorithms/ImportMDEventWorkspace.h"
-#include <iostream>
#include <fstream>
#include "MantidAPI/FileProperty.h"
diff --git a/Framework/MDAlgorithms/src/ImportMDHistoWorkspace.cpp b/Framework/MDAlgorithms/src/ImportMDHistoWorkspace.cpp
index 15f5a9a509f02a065b4283e6c88fe78e3b8b98be..86c15fc3b05b07f906ef23c84d4676e85ce1f41a 100644
--- a/Framework/MDAlgorithms/src/ImportMDHistoWorkspace.cpp
+++ b/Framework/MDAlgorithms/src/ImportMDHistoWorkspace.cpp
@@ -2,7 +2,6 @@
#include "MantidAPI/FileProperty.h"
#include <deque>
-#include <iostream>
#include <fstream>
#include <iterator>
diff --git a/Framework/MDAlgorithms/src/Integrate3DEvents.cpp b/Framework/MDAlgorithms/src/Integrate3DEvents.cpp
index 8c1bf115599b74073af6a619828ab287548ebb83..f3db57b5fd7b3652e27e4bf5187cbf8311c872e5 100644
--- a/Framework/MDAlgorithms/src/Integrate3DEvents.cpp
+++ b/Framework/MDAlgorithms/src/Integrate3DEvents.cpp
@@ -1,5 +1,4 @@
#include <math.h>
-#include <iostream>
#include <fstream>
#include <boost/math/special_functions/round.hpp>
#include <boost/make_shared.hpp>
diff --git a/Framework/MDAlgorithms/src/LoadILLAscii.cpp b/Framework/MDAlgorithms/src/LoadILLAscii.cpp
index 835d1fe1868e3c0418d8980bf2187d5933fa4bfb..86aaa741729dfb73a32c08a17dbdd53ef4908b40 100644
--- a/Framework/MDAlgorithms/src/LoadILLAscii.cpp
+++ b/Framework/MDAlgorithms/src/LoadILLAscii.cpp
@@ -24,7 +24,6 @@
#include <algorithm>
#include <iterator> // std::distance
#include <sstream>
-#include <iostream>
#include <fstream>
#include <stdio.h>
#include <string.h>
diff --git a/Framework/MDAlgorithms/src/LoadSQW.cpp b/Framework/MDAlgorithms/src/LoadSQW.cpp
index 9df4976713119d2a4f29dabf0b30d306124e71aa..b3bc63d11e5ade978e0c4abcdba21b605c8c4abc 100644
--- a/Framework/MDAlgorithms/src/LoadSQW.cpp
+++ b/Framework/MDAlgorithms/src/LoadSQW.cpp
@@ -13,7 +13,6 @@
#include "MantidKernel/ThreadScheduler.h"
#include "MantidMDAlgorithms/LoadSQW.h"
#include "MantidAPI/RegisterFileLoader.h"
-#include <iostream>
#include <cfloat>
#include "MantidDataObjects/MDBox.h"
#include "MantidDataObjects/BoxControllerNeXusIO.h"
diff --git a/Framework/MDAlgorithms/test/AndMDTest.h b/Framework/MDAlgorithms/test/AndMDTest.h
index c7be7993349d7090a737fbcea2e29a5621fbc65a..24d050ac45b32a92a5195cfdb103ae8a1a08077a 100644
--- a/Framework/MDAlgorithms/test/AndMDTest.h
+++ b/Framework/MDAlgorithms/test/AndMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/AndMD.h"
#include "MantidTestHelpers/BinaryOperationMDTestHelper.h"
diff --git a/Framework/MDAlgorithms/test/ConvertCWSDMDtoHKLTest.h b/Framework/MDAlgorithms/test/ConvertCWSDMDtoHKLTest.h
new file mode 100644
index 0000000000000000000000000000000000000000..d4044fec95e162a24b7145d0c042364eebd9943a
--- /dev/null
+++ b/Framework/MDAlgorithms/test/ConvertCWSDMDtoHKLTest.h
@@ -0,0 +1,131 @@
+#ifndef MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKLTEST_H_
+#define MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKLTEST_H_
+
+#include <cxxtest/TestSuite.h>
+
+#include "MantidMDAlgorithms/ConvertCWSDMDtoHKL.h"
+#include "MantidTestHelpers/ComponentCreationHelper.h"
+#include "MantidTestHelpers/WorkspaceCreationHelper.h"
+#include "MantidAPI/IMDEventWorkspace.h"
+#include "MantidAPI/FrameworkManager.h"
+#include "MantidGeometry/Instrument.h"
+
+using Mantid::MDAlgorithms::ConvertCWSDMDtoHKL;
+
+using namespace Mantid::API;
+using namespace Mantid::MDAlgorithms;
+using namespace Mantid::DataObjects;
+using Mantid::Geometry::Instrument_sptr;
+using Mantid::Kernel::PropertyWithValue;
+
+class ConvertCWSDMDtoHKLTest : public CxxTest::TestSuite {
+public:
+ // This pair of boilerplate methods prevent the suite being created statically
+ // This means the constructor isn't called when running other tests
+ static ConvertCWSDMDtoHKLTest *createSuite() {
+ return new ConvertCWSDMDtoHKLTest();
+ }
+ static void destroySuite(ConvertCWSDMDtoHKLTest *suite) { delete suite; }
+
+ //-------------------------------------------------------------------------------
+ void test_init() {
+ createMDEW();
+
+ ConvertCWSDMDtoHKL alg;
+ alg.initialize();
+ TS_ASSERT(alg.isInitialized());
+ }
+
+ //-------------------------------------------------------------------------------
+ void test_convertToHKL() {
+ ConvertCWSDMDtoHKL alg;
+ alg.initialize();
+
+ TS_ASSERT_THROWS_NOTHING(
+ alg.setPropertyValue("InputWorkspace", m_qsampleWS->name()));
+ TS_ASSERT_THROWS_NOTHING(alg.setPropertyValue(
+ "UBMatrix", "1.0, 0.5, 0., -0.2, 2.0, 0.4, 0., 1.11, 3.9"));
+ TS_ASSERT_THROWS_NOTHING(alg.setPropertyValue("OutputWorkspace", "HKLMD"));
+
+ alg.execute();
+ TS_ASSERT(alg.isExecuted());
+
+ IMDEventWorkspace_sptr hklws =
+ boost::dynamic_pointer_cast<IMDEventWorkspace>(
+ AnalysisDataService::Instance().retrieve("HKLMD"));
+ TS_ASSERT(hklws);
+
+ size_t numevents = hklws->getNEvents();
+ TS_ASSERT_EQUALS(numevents, 100);
+
+ TS_ASSERT_EQUALS(hklws->getSpecialCoordinateSystem(),
+ Mantid::Kernel::SpecialCoordinateSystem::HKL);
+ }
+
+private:
+ //-------------------------------------------------------------------------------
+ /** Create the (blank) MDEW */
+ void createMDEW() {
+ // ---- Start with empty MDEW ----
+ FrameworkManager::Instance().exec(
+ "CreateMDWorkspace", 18, "Dimensions", "3", "EventType", "MDEvent",
+ "Extents", "-10,10,-10,10,-10,10", "Names",
+ "Q_sample_x,Q_sample_y,Q_sample_z", "Units",
+ "Q_Sample_X,Q_Sample_Y,Q_Sample_Z", "SplitInto", "5", "SplitThreshold",
+ "20", "MaxRecursionDepth", "15", "OutputWorkspace", "MDEWS");
+
+ // Give it an instrument
+ Instrument_sptr inst =
+ ComponentCreationHelper::createTestInstrumentRectangular2(1, 100, 0.05);
+
+ TS_ASSERT_THROWS_NOTHING(
+ m_qsampleWS =
+ AnalysisDataService::Instance().retrieveWS<IMDEventWorkspace>(
+ "MDEWS"));
+ ExperimentInfo_sptr ei(new ExperimentInfo());
+ ei->setInstrument(inst);
+ // Give it a run number
+ ei->mutableRun().addProperty(
+ new PropertyWithValue<std::string>("run_number", "12345"), true);
+ m_qsampleWS->addExperimentInfo(ei);
+
+ // Add events
+ size_t num_events = 100;
+ double peakcentre_x = 0.4;
+ double peakcentre_y = -1.2;
+ double peakcentre_z = -1.0;
+ double radius = 0.5;
+
+ // Add half of the events
+ std::ostringstream mess;
+ mess << num_events / 2 << ", " << peakcentre_x << ", " << peakcentre_y
+ << ", " << peakcentre_z << ", " << radius;
+ std::cout << mess.str() << "\n";
+ FrameworkManager::Instance().exec("FakeMDEventData", 4, "InputWorkspace",
+ "MDEWS", "PeakParams",
+ mess.str().c_str());
+
+ // Add a center with more events (half radius, half the total), to create a
+ // "peak"
+ std::ostringstream mess2;
+ mess2 << num_events / 2 << ", " << peakcentre_x << ", " << peakcentre_y
+ << ", " << peakcentre_z << ", " << radius * 0.25;
+ std::cout << mess2.str() << "\n";
+ FrameworkManager::Instance().exec("FakeMDEventData", 4, "InputWorkspace",
+ "MDEWS", "PeakParams",
+ mess2.str().c_str());
+
+ // Check
+ size_t numevents = m_qsampleWS->getNEvents();
+ TS_ASSERT_EQUALS(numevents, 100);
+
+ m_qsampleWS->setCoordinateSystem(
+ Mantid::Kernel::SpecialCoordinateSystem::QSample);
+
+ return;
+ }
+
+ IMDEventWorkspace_sptr m_qsampleWS;
+};
+
+#endif /* MANTID_MDALGORITHMS_CONVERTCWSDMDTOHKLTEST_H_ */
diff --git a/Framework/MDAlgorithms/test/ConvertToReflectometryQTest.h b/Framework/MDAlgorithms/test/ConvertToReflectometryQTest.h
index fe9704e809e8726280d210c15f7cc14507b0c678..ac63a1421a01be939bb6ae788d6f9c9729107e9e 100644
--- a/Framework/MDAlgorithms/test/ConvertToReflectometryQTest.h
+++ b/Framework/MDAlgorithms/test/ConvertToReflectometryQTest.h
@@ -3,6 +3,7 @@
#include "MantidAPI/AnalysisDataService.h"
#include "MantidAPI/IMDEventWorkspace.h"
+#include "MantidAPI/IMDHistoWorkspace.h"
#include "MantidAPI/FrameworkManager.h"
#include "MantidAPI/NumericAxis.h"
#include "MantidAPI/WorkspaceGroup.h"
@@ -195,6 +196,18 @@ public:
TS_ASSERT_EQUALS(2, ws->run().getLogData().size());
}
+ void test_execute_qxqz_normalized_polygon_md() {
+ const bool outputAsMD = true;
+ auto alg = make_standard_algorithm("Q (lab frame)", outputAsMD);
+ alg->setProperty("Method", "NormalisedPolygon");
+ alg->execute();
+ auto ws = boost::dynamic_pointer_cast<Mantid::API::IMDHistoWorkspace>(
+ Mantid::API::AnalysisDataService::Instance().retrieve(
+ "OutputTransformedWorkspace"));
+ TS_ASSERT(ws != NULL);
+ TS_ASSERT_EQUALS(2, ws->getExperimentInfo(0)->run().getLogData().size());
+ }
+
void test_execute_kikf_2D() {
const bool outputAsMD = false;
auto alg = make_standard_algorithm("K (incident, final)", outputAsMD);
diff --git a/Framework/MDAlgorithms/test/CreateMDHistoWorkspaceTest.h b/Framework/MDAlgorithms/test/CreateMDHistoWorkspaceTest.h
index 304d0f4e74def943b018bd08832812b946e29ad4..534d7b00cde935fba25e9f0769a7a1da88c3c7e7 100644
--- a/Framework/MDAlgorithms/test/CreateMDHistoWorkspaceTest.h
+++ b/Framework/MDAlgorithms/test/CreateMDHistoWorkspaceTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/CreateMDHistoWorkspace.h"
diff --git a/Framework/MDAlgorithms/test/DivideMDTest.h b/Framework/MDAlgorithms/test/DivideMDTest.h
index 472b23933a91ff5aef9fc2b8bf8d3bae241be8ab..da0c61996aca83f817369e0172b232aa33a99238 100644
--- a/Framework/MDAlgorithms/test/DivideMDTest.h
+++ b/Framework/MDAlgorithms/test/DivideMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/DivideMD.h"
#include "MantidTestHelpers/BinaryOperationMDTestHelper.h"
diff --git a/Framework/MDAlgorithms/test/ExponentialMDTest.h b/Framework/MDAlgorithms/test/ExponentialMDTest.h
index 44cd338b998611b29404fa0ff61a6245a1de6a15..fedef53adb58eb003365266a01f7c53b6b7bf066 100644
--- a/Framework/MDAlgorithms/test/ExponentialMDTest.h
+++ b/Framework/MDAlgorithms/test/ExponentialMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/ExponentialMD.h"
#include "MantidTestHelpers/BinaryOperationMDTestHelper.h"
diff --git a/Framework/MDAlgorithms/test/GreaterThanMDTest.h b/Framework/MDAlgorithms/test/GreaterThanMDTest.h
index 5ee14f9c0b34b9116b4e6e9555a362408175f18b..a05aea3a7cd4563f0c441687b1af43f996a9fae8 100644
--- a/Framework/MDAlgorithms/test/GreaterThanMDTest.h
+++ b/Framework/MDAlgorithms/test/GreaterThanMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/GreaterThanMD.h"
#include "MantidTestHelpers/BinaryOperationMDTestHelper.h"
diff --git a/Framework/MDAlgorithms/test/LogarithmMDTest.h b/Framework/MDAlgorithms/test/LogarithmMDTest.h
index dd6741aae479777d63e45b2f0d654cd3626848c3..d70a16b110dd34c7d36673ba1d73639addeff519 100644
--- a/Framework/MDAlgorithms/test/LogarithmMDTest.h
+++ b/Framework/MDAlgorithms/test/LogarithmMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/LogarithmMD.h"
#include "MantidDataObjects/MDHistoWorkspace.h"
diff --git a/Framework/MDAlgorithms/test/PowerMDTest.h b/Framework/MDAlgorithms/test/PowerMDTest.h
index c461d190b87a4f9ceeb713c40f80dfc0646eb44e..33608b09b034ffa5906a499688c0d95e0ef248d0 100644
--- a/Framework/MDAlgorithms/test/PowerMDTest.h
+++ b/Framework/MDAlgorithms/test/PowerMDTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/PowerMD.h"
#include "MantidTestHelpers/BinaryOperationMDTestHelper.h"
diff --git a/Framework/MDAlgorithms/test/ReflectometryTransformPTest.h b/Framework/MDAlgorithms/test/ReflectometryTransformPTest.h
index d446d23200ecd8ec3a125e400be4f2b1caee7f31..f6af57673dc8709cfa32b32df0a0fda860606e9b 100644
--- a/Framework/MDAlgorithms/test/ReflectometryTransformPTest.h
+++ b/Framework/MDAlgorithms/test/ReflectometryTransformPTest.h
@@ -5,8 +5,6 @@
#include <cmath>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidMDAlgorithms/ReflectometryTransformP.h"
using namespace Mantid::DataObjects;
diff --git a/Framework/MDAlgorithms/test/SlicingAlgorithmTest.h b/Framework/MDAlgorithms/test/SlicingAlgorithmTest.h
index d2673dca505613912b08b650adcdff1f3bd6bad3..762ffd5f2d12c660586fb3b8f01095fac3a46d4d 100644
--- a/Framework/MDAlgorithms/test/SlicingAlgorithmTest.h
+++ b/Framework/MDAlgorithms/test/SlicingAlgorithmTest.h
@@ -9,8 +9,6 @@
#include <cxxtest/TestSuite.h>
-#include <iomanip>
-
using namespace Mantid::API;
using namespace Mantid::DataObjects;
using namespace Mantid::Geometry;
diff --git a/Framework/Nexus/test/NexusAPITest.h b/Framework/Nexus/test/NexusAPITest.h
index 003ac5e4795f414929282d5ad254552a23712cb3..256f4854338b55f432aebac764ca7211ee14afb9 100644
--- a/Framework/Nexus/test/NexusAPITest.h
+++ b/Framework/Nexus/test/NexusAPITest.h
@@ -17,7 +17,6 @@
#include <cmath>
#include <Poco/File.h>
-#include <iostream>
#include <string>
#include <sstream>
#include <cstring>
diff --git a/Framework/PythonInterface/inc/MantidPythonInterface/kernel/StlExportDefinitions.h b/Framework/PythonInterface/inc/MantidPythonInterface/kernel/StlExportDefinitions.h
index f02a77e81890363064914c9a3179051a8ffb7ce0..8ec053cc10aed0e6d623729ec609716ac7b5c9be 100644
--- a/Framework/PythonInterface/inc/MantidPythonInterface/kernel/StlExportDefinitions.h
+++ b/Framework/PythonInterface/inc/MantidPythonInterface/kernel/StlExportDefinitions.h
@@ -35,6 +35,8 @@
#include <vector>
#include <set>
+using boost::python::arg;
+
namespace Mantid {
namespace PythonInterface {
/**
@@ -153,19 +155,20 @@ template <typename ElementType> struct std_set_exporter {
boost::python::class_<w_t, std::auto_ptr<w_t>>(python_name.c_str())
.def(boost::python::init<w_t const &>())
// special methods
- .def("__str__", &std_set_exporter::to_string)
- .def("__len__", &w_t::size)
- .def("__contains__", contains)
- .def("__getitem__", getitem)
- .def("__getinitargs__", getinitargs)
+ .def("__str__", &std_set_exporter::to_string, arg("self"))
+ .def("__len__", &w_t::size, arg("self"))
+ .def("__contains__", contains, (arg("self"), arg("element")))
+ .def("__getitem__", getitem, (arg("self"), arg("index")))
+ .def("__getinitargs__", getinitargs, arg("self"))
// Standard methods
- .def("size", &w_t::size)
- .def("insert", insert_element)
- .def("append", insert_element)
- .def("insert", insert_set)
- .def("extend", insert_set)
- .def("erase", (std::size_t (w_t::*)(e_t const &)) & w_t::erase)
- .def("clear", &w_t::clear)
+ .def("size", &w_t::size, arg("self"))
+ .def("insert", insert_element, (arg("self"), arg("element")))
+ .def("append", insert_element, (arg("self"), arg("element")))
+ .def("insert", insert_set, (arg("self"), arg("set")))
+ .def("extend", insert_set, (arg("self"), arg("set")))
+ .def("erase", (std::size_t (w_t::*)(e_t const &)) & w_t::erase,
+ (arg("self"), arg("index")))
+ .def("clear", &w_t::clear, arg("self"))
.enable_pickling()
;
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayBoundedValidator.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayBoundedValidator.cpp
index 34625d4c7d1ecc8a5990dafa34750de305d1e77c..04d050698f8a9cf2020d253438220c7d3c56bc62 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayBoundedValidator.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayBoundedValidator.cpp
@@ -12,26 +12,26 @@ namespace {
class_<ArrayBoundedValidator<type>, bases<IValidator>, boost::noncopyable>( \
#prefix "ArrayBoundedValidator") \
.def(init<type, type>( \
- (arg("lowerBound"), arg("upperBound")), \
+ (arg("self"), arg("lowerBound"), arg("upperBound")), \
"A validator to ensure each value is in the given range")) \
- .def("hasLower", &ArrayBoundedValidator<type>::hasLower, \
+ .def("hasLower", &ArrayBoundedValidator<type>::hasLower, arg("self"), \
"Returns true if a lower bound has been set") \
- .def("hasUpper", &ArrayBoundedValidator<type>::hasUpper, \
+ .def("hasUpper", &ArrayBoundedValidator<type>::hasUpper, arg("self"), \
"Returns true if an upper bound has been set") \
- .def("lower", &ArrayBoundedValidator<type>::lower, \
+ .def("lower", &ArrayBoundedValidator<type>::lower, arg("self"), \
return_value_policy<copy_const_reference>(), \
"Returns the lower bound") \
- .def("upper", &ArrayBoundedValidator<type>::upper, \
+ .def("upper", &ArrayBoundedValidator<type>::upper, arg("self"), \
return_value_policy<copy_const_reference>(), \
"Returns the upper bound") \
.def("setLower", &ArrayBoundedValidator<type>::setLower, \
- "Sets the lower bound") \
+ (arg("self"), arg("lower")), "Sets the lower bound") \
.def("setUpper", &ArrayBoundedValidator<type>::setUpper, \
- "Sets the upper bound") \
+ (arg("self"), arg("upper")), "Sets the upper bound") \
.def("clearLower", &ArrayBoundedValidator<type>::clearLower, \
- "Clear any set lower bound") \
+ arg("self"), "Clear any set lower bound") \
.def("clearUpper", &ArrayBoundedValidator<type>::clearUpper, \
- "Clear any set upper bound");
+ arg("self"), "Clear any set upper bound");
}
void export_ArrayBoundedValidator() {
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayLengthValidator.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayLengthValidator.cpp
index a275edcf7cbd7d2e22a7b6f7c6531dba434a8122..1c405b0a82329d73a07155177f8d132e2285c48d 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayLengthValidator.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayLengthValidator.cpp
@@ -12,38 +12,42 @@ namespace {
#define EXPORT_LENGTHVALIDATOR(type, prefix) \
class_<ArrayLengthValidator<type>, bases<IValidator>, boost::noncopyable>( \
#prefix "ArrayLengthValidator") \
- .def(init<int>(arg("length"), "Constructs a validator verifying that " \
- "an array is of the exact length given")) \
- .def(init<int, int>((arg("lenmin"), arg("lenmax")), \
+ .def(init<int>((arg("self"), arg("length")), \
+ "Constructs a validator verifying that " \
+ "an array is of the exact length given")) \
+ .def(init<int, int>((arg("self"), arg("lenmin"), arg("lenmax")), \
"Constructs a validator verifying that the length " \
"of an array is within the range given")) \
- .def("hasLength", &ArrayLengthValidator<type>::hasLength, \
+ .def("hasLength", &ArrayLengthValidator<type>::hasLength, arg("self"), \
"Returns true if a single length has been set") \
.def("hasMinLength", &ArrayLengthValidator<type>::hasMinLength, \
- "Returns true if a minimum length has been set") \
+ arg("self"), "Returns true if a minimum length has been set") \
.def("hasMaxLength", &ArrayLengthValidator<type>::hasMaxLength, \
- "Returns true if a maximum length has been set") \
+ arg("self"), "Returns true if a maximum length has been set") \
.def("getLength", &ArrayLengthValidator<type>::getLength, \
- return_value_policy<copy_const_reference>(), \
+ return_value_policy<copy_const_reference>(), arg("self"), \
"Returns the set fixed length") \
.def("getMinLength", &ArrayLengthValidator<type>::getMinLength, \
- return_value_policy<copy_const_reference>(), \
+ return_value_policy<copy_const_reference>(), arg("self"), \
"Returns the set minimum length") \
.def("getMaxLength", &ArrayLengthValidator<type>::getMaxLength, \
- return_value_policy<copy_const_reference>(), \
+ return_value_policy<copy_const_reference>(), arg("self"), \
"Returns the set maximum length") \
.def("setLength", &ArrayLengthValidator<type>::setLength, \
+ (arg("self"), arg("length")), \
"Set the accepted length of an array") \
.def("clearLength", &ArrayLengthValidator<type>::clearLength, \
- "Clears accepted length of an array") \
+ arg("self"), "Clears accepted length of an array") \
.def("setLengthMin", &ArrayLengthValidator<type>::setLengthMin, \
+ (arg("self"), arg("minimum length")), \
"Set the accepted minimum length of an array") \
.def("setLengthMax", &ArrayLengthValidator<type>::setLengthMax, \
+ (arg("self"), arg("maximum length")), \
"Set the accepted maximum length of an array") \
.def("clearLengthMin", &ArrayLengthValidator<type>::clearLengthMin, \
- "Set the accepted minimum length of an array") \
+ arg("self"), "Set the accepted minimum length of an array") \
.def("clearLengthMax", &ArrayLengthValidator<type>::clearLengthMax, \
- "Set the accepted maximum length of an array");
+ arg("self"), "Set the accepted maximum length of an array");
}
void export_ArrayLengthValidator() {
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayProperty.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayProperty.cpp
index 1316a070c69f5ed41ab2510ba1cf5e87d5209747..0a44570ab12ebb2728ead06f93df0c79c704c98d 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayProperty.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ArrayProperty.cpp
@@ -30,17 +30,17 @@ typedef return_value_policy<Policies::VectorRefToNumpy<Converters::Clone>>
class_<ArrayProperty<type>, bases<PropertyWithValue<std::vector<type>>>, \
boost::noncopyable>(#prefix "ArrayProperty", no_init) \
.def(init<const std::string &, const unsigned int>( \
- (arg("name"), arg("direction") = Direction::Input), \
+ (arg("self"), arg("name"), arg("direction") = Direction::Input), \
"Construct an ArrayProperty of type" #type)) \
\
.def(init<const std::string &, IValidator_sptr, const unsigned int>( \
- (arg("name"), arg("validator"), \
+ (arg("self"), arg("name"), arg("validator"), \
arg("direction") = Direction::Input), \
"Construct an ArrayProperty of type" #type "with a validator")) \
\
.def(init<const std::string &, const std::string &, IValidator_sptr, \
const unsigned int>( \
- (arg("name"), arg("values"), \
+ (arg("self"), arg("name"), arg("values"), \
arg("validator") = IValidator_sptr(new NullValidator), \
arg("direction") = Direction::Input), \
"Construct an ArrayProperty of type" #type \
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/BoundedValidator.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/BoundedValidator.cpp
index ada791077b4c3e5fe554f008ceb14cbc49896776..5aef737a654e84fc3e27b1d69d2519589aae449d 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/BoundedValidator.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/BoundedValidator.cpp
@@ -68,34 +68,37 @@ createExclusiveBoundedValidator(object lower = object(),
(arg("lower") = object(), arg("upper") = object(), \
arg("exclusive") = false))) \
.def("setLower", &BoundedValidator<ElementType>::setLower, \
- "Set the lower bound") \
+ (arg("self"), arg("lower")), "Set the lower bound") \
.def("setUpper", &BoundedValidator<ElementType>::setUpper, \
- "Set the upper bound") \
+ (arg("self"), arg("upper")), "Set the upper bound") \
.def("setLowerExclusive", \
&BoundedValidator<ElementType>::setLowerExclusive, \
+ (arg("self"), arg("exclusive")), \
"Sets if the lower bound is exclusive") \
.def("setUpperExclusive", \
&BoundedValidator<ElementType>::setUpperExclusive, \
+ (arg("self"), arg("exclusive")), \
"Sets if the upper bound is exclsuive") \
.def("setExclusive", &BoundedValidator<ElementType>::setExclusive, \
+ (arg("self"), arg("exclusive")), \
"Sets both bounds to be inclusive/exclusive") \
- .def("lower", &BoundedValidator<ElementType>::lower, \
+ .def("lower", &BoundedValidator<ElementType>::lower, arg("self"), \
return_value_policy<copy_const_reference>(), \
"Returns the lower bound") \
- .def("upper", &BoundedValidator<ElementType>::upper, \
+ .def("upper", &BoundedValidator<ElementType>::upper, arg("self"), \
return_value_policy<copy_const_reference>(), \
"Returns the upper bound") \
.def("setBounds", &BoundedValidator<ElementType>::setBounds, \
- "Set both bounds") \
- .def("hasLower", &BoundedValidator<ElementType>::hasLower, \
+ (arg("self"), arg("lower"), arg("upper")), "Set both bounds") \
+ .def("hasLower", &BoundedValidator<ElementType>::hasLower, arg("self"), \
"Returns True if a lower bound has been set") \
- .def("hasUpper", &BoundedValidator<ElementType>::hasUpper, \
+ .def("hasUpper", &BoundedValidator<ElementType>::hasUpper, arg("self"), \
"Returns True if an upper bound has been set") \
.def("isLowerExclusive", \
- &BoundedValidator<ElementType>::isLowerExclusive, \
+ &BoundedValidator<ElementType>::isLowerExclusive, arg("self"), \
"Returns True if the lower bound is exclusive") \
.def("isUpperExclusive", \
- &BoundedValidator<ElementType>::isUpperExclusive, \
+ &BoundedValidator<ElementType>::isUpperExclusive, arg("self"), \
"Returns True if the upper bound is exclusive");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/CompositeValidator.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/CompositeValidator.cpp
index 83780f72d6a41f262e386eef9018eee819ab7ca6..94f4416922ee772c84d371210918a467694f1e29 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/CompositeValidator.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/CompositeValidator.cpp
@@ -40,5 +40,5 @@ void export_CompositeValidator() {
.def("add", (void (CompositeValidator::*)(IValidator_sptr)) &
CompositeValidator::add,
- "Add another validator to the list");
+ (arg("self"), arg("other")), "Add another validator to the list");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ConfigService.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ConfigService.cpp
index 0798d303ee64747d4d2ea69fce29625f04b81f88..61163771c9d2d3e88a73a25de32ab62e32c6cecb 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ConfigService.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ConfigService.cpp
@@ -41,102 +41,117 @@ void export_ConfigService() {
std_vector_exporter<FacilityInfo *>::wrap("std_vector_facilityinfo");
class_<ConfigServiceImpl, boost::noncopyable>("ConfigServiceImpl", no_init)
- .def("reset", &ConfigServiceImpl::reset,
+ .def("reset", &ConfigServiceImpl::reset, arg("self"),
"Clears all user settings and removes the user properties file")
.def("getLocalFilename", &ConfigServiceImpl::getLocalFilename,
- "Returns the path to the system wide properties file.")
+ arg("self"), "Returns the path to the system wide properties file.")
- .def("getUserFilename", &ConfigServiceImpl::getUserFilename,
+ .def("getUserFilename", &ConfigServiceImpl::getUserFilename, arg("self"),
"Returns the path to the user properties file")
.def("getInstrumentDirectory", &ConfigServiceImpl::getInstrumentDirectory,
+ arg("self"),
"Returns the directory used for the instrument definitions")
.def("getInstrumentDirectories",
- &ConfigServiceImpl::getInstrumentDirectories,
+ &ConfigServiceImpl::getInstrumentDirectories, arg("self"),
return_value_policy<reference_existing_object>(),
"Returns the list of directories searched for the instrument "
"definitions")
.def("getFacilityNames", &ConfigServiceImpl::getFacilityNames,
- "Returns the default facility")
+ arg("self"), "Returns the default facility")
- .def("getFacilities", &ConfigServiceImpl::getFacilities,
+ .def("getFacilities", &ConfigServiceImpl::getFacilities, arg("self"),
"Returns the default facility")
.def("getFacility", (const FacilityInfo &(ConfigServiceImpl::*)() const) &
ConfigServiceImpl::getFacility,
- return_value_policy<reference_existing_object>(),
+ arg("self"), return_value_policy<reference_existing_object>(),
"Returns the default facility")
.def("getFacility",
(const FacilityInfo &(ConfigServiceImpl::*)(const std::string &)
const) &
ConfigServiceImpl::getFacility,
- (arg("facilityName")),
+ (arg("self"), arg("facilityName")),
return_value_policy<reference_existing_object>(),
"Returns the named facility. Raises an RuntimeError if it does not "
"exist")
.def("setFacility", &ConfigServiceImpl::setFacility,
+ (arg("self"), arg("facilityName")),
"Sets the current facility to the given name")
.def("updateFacilities", &ConfigServiceImpl::updateFacilities,
+ (arg("self"), arg("fileName")),
"Loads facility information from a provided file")
.def("getInstrument", &ConfigServiceImpl::getInstrument,
getInstrument_Overload(
"Returns the named instrument. If name = \"\" then the "
"default.instrument is returned",
- (arg("instrumentName") =
+ (arg("self"),
+ arg("instrumentName") =
""))[return_value_policy<copy_const_reference>()])
.def("getString", &ConfigServiceImpl::getString,
- getString_Overload("Returns the named key's value. If use_cache = "
- "true [default] then relative paths->absolute",
- (arg("key"), arg("use_cache") = true)))
+ getString_Overload(
+ "Returns the named key's value. If use_cache = "
+ "true [default] then relative paths->absolute",
+ (arg("self"), arg("key"), arg("use_cache") = true)))
.def("setString", &ConfigServiceImpl::setString,
+ (arg("self"), arg("key"), arg("value")),
"Set the given property name. "
"If it does not exist it is added to the current configuration")
- .def("hasProperty", &ConfigServiceImpl::hasProperty)
+ .def("hasProperty", &ConfigServiceImpl::hasProperty,
+ (arg("self"), arg("rootName")))
.def("getDataSearchDirs", &ConfigServiceImpl::getDataSearchDirs,
- return_value_policy<copy_const_reference>(),
+ arg("self"), return_value_policy<copy_const_reference>(),
"Return the current list of data search paths")
.def("appendDataSearchDir", &ConfigServiceImpl::appendDataSearchDir,
+ (arg("self"), arg("path")),
"Append a directory to the current list of data search paths")
.def("setDataSearchDirs",
(void (ConfigServiceImpl::*)(const std::string &)) &
ConfigServiceImpl::setDataSearchDirs,
+ (arg("self"), arg("searchDirs")),
"Set the whole datasearch.directories property from a single "
"string. Entries should be separated by a ; character")
.def("setDataSearchDirs", &setDataSearchDirs,
+ (arg("self"), arg("searchDirs")),
"Set the datasearch.directories property from a list of strings.")
.def("saveConfig", &ConfigServiceImpl::saveConfig,
+ (arg("self"), arg("filename")),
"Saves the keys that have changed from their default to the given "
"filename")
.def("setFileLogLevel", &ConfigServiceImpl::setFileLogLevel,
- "Sets the log level priority for the File log channel, logLevel 1 = "
- "Fatal, 6 = information, 7 = Debug")
+ (arg("self"), arg("logLevel")), "Sets the log level priority for "
+ "the File log channel, logLevel 1 = "
+ "Fatal, 6 = information, 7 = Debug")
.def("setConsoleLogLevel", &ConfigServiceImpl::setConsoleLogLevel,
+ (arg("self"), arg("logLevel")),
"Sets the log level priority for the Console log channel, logLevel "
"1 = Fatal, 6 = information, 7 = Debug")
- .def("keys", &ConfigServiceImpl::keys)
+ .def("keys", &ConfigServiceImpl::keys, arg("self"))
// Treat this as a dictionary
- .def("__getitem__", &getStringUsingCache)
- .def("__setitem__", &ConfigServiceImpl::setString)
- .def("__contains__", &ConfigServiceImpl::hasProperty)
+ .def("__getitem__", &getStringUsingCache, (arg("self"), arg("key")))
+ .def("__setitem__", &ConfigServiceImpl::setString,
+ (arg("self"), arg("key"), arg("value")))
+ .def("__contains__", &ConfigServiceImpl::hasProperty,
+ (arg("self"), arg("key")))
.def("Instance", &ConfigService::Instance,
return_value_policy<reference_existing_object>(),
"Returns a reference to the ConfigService")
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/DataItem.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/DataItem.cpp
index d9bc41f197f3602d975b346075e3f9841cf79ccf..00138aa8bb7557bd71cf8b05bb29e429f9c7556e 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/DataItem.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/DataItem.cpp
@@ -10,13 +10,14 @@ void export_DataItem() {
register_ptr_to_python<boost::shared_ptr<DataItem>>();
class_<DataItem, boost::noncopyable>("DataItem", no_init)
- .def("id", &DataItem::id, "The string ID of the class")
- .def("name", &DataItem::name, "The name of the object")
- .def("threadSafe", &DataItem::threadSafe, "Returns true if the object "
- "can be accessed safely from "
- "multiple threads")
- .def("__str__", &DataItem::name,
+ .def("id", &DataItem::id, arg("self"), "The string ID of the class")
+ .def("name", &DataItem::name, arg("self"), "The name of the object")
+ .def("threadSafe", &DataItem::threadSafe, arg("self"),
+ "Returns true if the object "
+ "can be accessed safely from "
+ "multiple threads")
+ .def("__str__", &DataItem::name, arg("self"),
"Returns the string name of the object if it has been stored")
- .def("__repr__", &DataItem::toString,
+ .def("__repr__", &DataItem::toString, arg("self"),
"Returns a description of the object");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/DateAndTime.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/DateAndTime.cpp
index 89e35bf42b13ab837f83f58986d79e16f39ecbb1..4928393000b1b61d19e99d649308dca8a408f8f2 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/DateAndTime.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/DateAndTime.cpp
@@ -5,6 +5,7 @@
using Mantid::Kernel::DateAndTime;
using Mantid::Kernel::time_duration;
using namespace boost::python;
+using boost::python::arg;
/** Circumvent a bug in IPython 1.1, which chokes on nanosecond precision
* datetimes.
@@ -19,17 +20,21 @@ std::string ISO8601StringPlusSpace(DateAndTime &self) {
void export_DateAndTime() {
class_<DateAndTime>("DateAndTime", no_init)
// Constructors
- .def(init<const std::string>("Construct from an ISO8601 string"))
+ .def(init<const std::string>((arg("self"), arg("ISO8601 string")),
+ "Construct from an ISO8601 string"))
.def(init<double, double>(
+ (arg("self"), arg("seconds"), arg("nanoseconds")),
"Construct using a number of seconds and nanoseconds (floats)"))
.def(init<int64_t, int64_t>(
+ (arg("self"), arg("seconds"), arg("nanoseconds")),
"Construct using a number of seconds and nanoseconds (integers)"))
- .def(init<int64_t>("Construct a total number of nanoseconds"))
- .def("total_nanoseconds", &DateAndTime::totalNanoseconds)
- .def("totalNanoseconds", &DateAndTime::totalNanoseconds)
- .def("setToMinimum", &DateAndTime::setToMinimum)
- .def("__str__", &ISO8601StringPlusSpace)
- .def("__long__", &DateAndTime::totalNanoseconds)
+ .def(init<int64_t>((arg("self"), arg("total nanoseconds")),
+ "Construct a total number of nanoseconds"))
+ .def("total_nanoseconds", &DateAndTime::totalNanoseconds, arg("self"))
+ .def("totalNanoseconds", &DateAndTime::totalNanoseconds, arg("self"))
+ .def("setToMinimum", &DateAndTime::setToMinimum, arg("self"))
+ .def("__str__", &ISO8601StringPlusSpace, arg("self"))
+ .def("__long__", &DateAndTime::totalNanoseconds, arg("self"))
.def(self == self)
.def(self != self)
// cppcheck-suppress duplicateExpression
@@ -43,22 +48,24 @@ void export_DateAndTime() {
void export_time_duration() {
class_<time_duration>("time_duration", no_init)
- .def("hours", &time_duration::hours,
+ .def("hours", &time_duration::hours, arg("self"),
"Returns the normalized number of hours")
- .def("minutes", &time_duration::minutes,
+ .def("minutes", &time_duration::minutes, arg("self"),
"Returns the normalized number of minutes +/-(0..59)")
- .def("seconds", &time_duration::seconds,
+ .def("seconds", &time_duration::seconds, arg("self"),
"Returns the normalized number of seconds +/-(0..59)")
- .def("total_seconds", &time_duration::total_seconds,
+ .def("total_seconds", &time_duration::total_seconds, arg("self"),
"Get the total number of seconds truncating any fractional seconds")
.def("total_milliseconds", &time_duration::total_milliseconds,
+ arg("self"),
"Get the total number of milliseconds truncating any remaining "
"digits")
.def("total_microseconds", &time_duration::total_microseconds,
+ arg("self"),
"Get the total number of microseconds truncating any remaining "
"digits")
.def(
- "total_nanoseconds", &time_duration::total_nanoseconds,
+ "total_nanoseconds", &time_duration::total_nanoseconds, arg("self"),
"Get the total number of nanoseconds truncating any remaining digits")
;
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/DeltaEMode.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/DeltaEMode.cpp
index 981ff7c54407f79e6b685664d118cf2be0c7209f..e3148bede17616f65de8dfa5494dc590a4beb101 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/DeltaEMode.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/DeltaEMode.cpp
@@ -17,9 +17,9 @@ void export_DeltaEMode() {
.export_values();
class_<DeltaEMode, boost::noncopyable>("DeltaEMode", no_init)
- .def("asString", &DeltaEMode::asString,
+ .def("asString", &DeltaEMode::asString, arg("self"),
"Returns the given type translated to a string")
- .def("fromString", &DeltaEMode::fromString,
+ .def("fromString", &DeltaEMode::fromString, arg("modeStr"),
"Returns the enumerated type translated from a string")
.def("availableTypes", &DeltaEMode::availableTypes,
return_value_policy<Policies::VectorToNumpy>(),
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/EnabledWhenProperty.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/EnabledWhenProperty.cpp
index 32066286b3c981d1468a5d81ff13daba4c244206..9982028e943d1892288b44e4dc7eb4b9b8f38b32 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/EnabledWhenProperty.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/EnabledWhenProperty.cpp
@@ -18,12 +18,12 @@ void export_EnabledWhenProperty() {
"EnabledWhenProperty", no_init) // no default constructor
.def(init<std::string, ePropertyCriterion, std::string>(
- (arg("otherPropName"), arg("when"), arg("value")),
+ (arg("self"), arg("otherPropName"), arg("when"), arg("value")),
"Enabled otherPropName property when value criterion meets that "
"given by the 'when' argument"))
.def(init<std::string, ePropertyCriterion>(
- (arg("otherPropName"), arg("when")),
+ (arg("self"), arg("otherPropName"), arg("when")),
"Enabled otherPropName property when criterion does not require a "
"value, i.e isDefault"));
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/FacilityInfo.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/FacilityInfo.cpp
index e250fc97f7fca21f470c4b50c6ace25bb113862f..907c51778cf610aba31d1a672e6df9a6a320a04e 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/FacilityInfo.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/FacilityInfo.cpp
@@ -13,56 +13,58 @@ void export_FacilityInfo() {
class_<FacilityInfo>("FacilityInfo", no_init)
- .def("name", &FacilityInfo::name,
+ .def("name", &FacilityInfo::name, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns name of the facility as definined in the Facilities.xml "
"file")
- .def("__str__", &FacilityInfo::name,
+ .def("__str__", &FacilityInfo::name, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns name of the facility as definined in the Facilities.xml "
"file")
- .def("zeroPadding", &FacilityInfo::zeroPadding,
+ .def("zeroPadding", &FacilityInfo::zeroPadding, arg("self"),
"Returns default zero padding for this facility")
- .def("delimiter", &FacilityInfo::delimiter,
+ .def("delimiter", &FacilityInfo::delimiter, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the delimiter between the instrument name and the run "
"number.")
- .def("extensions", &FacilityInfo::extensions,
+ .def("extensions", &FacilityInfo::extensions, arg("self"),
"Returns the list of file extensions that are considered as "
"instrument data files.")
- .def("preferredExtension", &FacilityInfo::preferredExtension,
+ .def("preferredExtension", &FacilityInfo::preferredExtension, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the extension that is preferred for this facility")
- .def("archiveSearch", &FacilityInfo::archiveSearch,
+ .def("archiveSearch", &FacilityInfo::archiveSearch, arg("self"),
return_value_policy<copy_const_reference>(),
"Return the archive search interface names")
.def("instruments",
(const std::vector<InstrumentInfo> &(FacilityInfo::*)() const) &
FacilityInfo::instruments,
- return_value_policy<copy_const_reference>(),
+ arg("self"), return_value_policy<copy_const_reference>(),
"Returns a list of instruments of this facility as defined in the "
"Facilities.xml file")
.def("instruments", (std::vector<InstrumentInfo>(
FacilityInfo::*)(const std::string &) const) &
FacilityInfo::instruments,
+ (arg("self"), arg("technique")),
"Returns a list of instruments of given technique")
.def("instrument", &FacilityInfo::instrument,
+ (arg("self"), arg("instrumentName")),
return_value_policy<copy_const_reference>(),
"Returns the instrument with the given name")
- .def("liveListener", &FacilityInfo::liveListener,
+ .def("liveListener", &FacilityInfo::liveListener, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the name of the default live listener")
- .def("computeResources", &FacilityInfo::computeResources,
+ .def("computeResources", &FacilityInfo::computeResources, arg("self"),
"Returns a vector of the available compute resources");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/FilteredTimeSeriesProperty.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/FilteredTimeSeriesProperty.cpp
index fc543101449c48e50a06c5bbfbaab9b53b9fc271..dcf283dbc0448b16201f5058ef507836cec2488a 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/FilteredTimeSeriesProperty.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/FilteredTimeSeriesProperty.cpp
@@ -19,10 +19,11 @@ namespace {
class_<FilteredTimeSeriesProperty<TYPE>, bases<TimeSeriesProperty<TYPE>>, \
boost::noncopyable>(#Prefix "FilteredTimeSeriesProperty", no_init) \
.def(init<TimeSeriesProperty<TYPE> *, const TimeSeriesProperty<bool> &, \
- const bool>("Constructor", (arg("source"), arg("filter"), \
- arg("transferOwner")))) \
+ const bool>( \
+ "Constructor", \
+ (arg("self"), arg("source"), arg("filter"), arg("transferOwner")))) \
.def("unfiltered", &FilteredTimeSeriesProperty<TYPE>::unfiltered, \
- return_value_policy<RemoveConst>(), \
+ (arg("self")), return_value_policy<RemoveConst>(), \
"Returns a time series containing the unfiltered data");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertyManager.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertyManager.cpp
index 6d95138c3c6571b6393ba45ed621e5a80e8f27fc..c1ff7244e8324999b904c3ed2a66dfde8be51dab 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertyManager.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertyManager.cpp
@@ -111,65 +111,69 @@ void export_IPropertyManager() {
register_ptr_to_python<IPropertyManager *>();
class_<IPropertyManager, boost::noncopyable>("IPropertyManager", no_init)
- .def("propertyCount", &IPropertyManager::propertyCount, args("self"),
+ .def("propertyCount", &IPropertyManager::propertyCount, arg("self"),
"Returns the number of properties being managed")
.def("getProperty", &IPropertyManager::getPointerToProperty,
- args("self", "name"), return_value_policy<return_by_value>(),
+ (arg("self"), arg("name")), return_value_policy<return_by_value>(),
"Returns the property of the given name. Use .value to give the "
"value")
.def("getPropertyValue", &IPropertyManager::getPropertyValue,
- args("self", "name"),
+ (arg("self"), arg("name")),
"Returns a string representation of the named property's value")
- .def("getProperties", &IPropertyManager::getProperties, args("self"),
+ .def("getProperties", &IPropertyManager::getProperties, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the list of properties managed by this object")
- .def("declareProperty", &declareProperty, args("self", "name", "value"),
+ .def("declareProperty", &declareProperty,
+ (arg("self"), arg("name"), arg("value")),
"Create a new named property")
.def("setPropertyValue", &IPropertyManager::setPropertyValue,
- args("self", "name", "value"),
+ (arg("self"), arg("name"), arg("value")),
"Set the value of the named property via a string")
- .def("setProperty", &setProperty, args("self", "name", "value"),
+ .def("setProperty", &setProperty,
+ (arg("self"), arg("name"), arg("value")),
"Set the value of the named property")
.def("setPropertySettings", &setPropertySettings,
- args("self", "name", "settingsManager"),
+ (arg("self"), arg("name"), arg("settingsManager")),
"Assign the given IPropertySettings object to the named property")
.def("setPropertyGroup", &IPropertyManager::setPropertyGroup,
- args("self", "name", "group"), "Set the group for a given property")
+ (arg("self"), arg("name"), arg("group")),
+ "Set the group for a given property")
.def("existsProperty", &IPropertyManager::existsProperty,
- args("self", "name"), "Returns whether a property exists")
+ (arg("self"), arg("name")), "Returns whether a property exists")
// Special methods so that IPropertyManager acts like a dictionary
// __len__, __getitem__, __setitem__, __delitem__, __iter__ and
// __contains__
- .def("__len__", &IPropertyManager::propertyCount, args("self"),
+ .def("__len__", &IPropertyManager::propertyCount, arg("self"),
"Returns the number of properties being managed")
.def("__getitem__", &IPropertyManager::getPointerToProperty,
- args("self", "name"), return_value_policy<return_by_value>(),
+ (arg("self"), arg("name")), return_value_policy<return_by_value>(),
"Returns the property of the given name. Use .value to give the "
"value")
- .def("__setitem__", &declareOrSetProperty, args("self", "name", "value"),
+ .def("__setitem__", &declareOrSetProperty,
+ (arg("self"), arg("name"), arg("value")),
"Set the value of the named property or create it if it doesn't "
"exist")
- .def("__delitem__", &deleteProperty, args("self", "name"),
+ .def("__delitem__", &deleteProperty, (arg("self"), arg("name")),
"Delete the named property")
// TODO .def("__iter__", iterator<std::vector<std::string> > ())
.def("__contains__", &IPropertyManager::existsProperty,
- args("self", "name"), "Returns whether a property exists")
+ (arg("self"), arg("name")), "Returns whether a property exists")
// Bonus methods to be even more like a dict
- .def("has_key", &IPropertyManager::existsProperty, args("self", "name"),
- "Returns whether a property exists")
- .def("keys", &getKeys, args("self"))
- .def("values", &IPropertyManager::getProperties, args("self"),
+ .def("has_key", &IPropertyManager::existsProperty,
+ (arg("self"), arg("name")), "Returns whether a property exists")
+ .def("keys", &getKeys, arg("self"))
+ .def("values", &IPropertyManager::getProperties, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the list of properties managed by this object");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertySettings.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertySettings.cpp
index 0cb00ba141e633c59b91a6642f84425371fb5e0c..fd960fc825ee672f356b8e749aaf328be27b2c69 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertySettings.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/IPropertySettings.cpp
@@ -11,8 +11,10 @@ void export_IPropertySettings() {
class_<IPropertySettings, boost::noncopyable>("IPropertySettings", no_init)
.def("isEnabled", &IPropertySettings::isEnabled,
+ (arg("self"), arg("alg")),
"Is the property to be shown as enabled in the GUI. Default true.")
.def("isVisible", &IPropertySettings::isVisible,
+ (arg("self"), arg("alg")),
"Is the property to be shown in the GUI? Default true.");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/InstrumentInfo.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/InstrumentInfo.cpp
index 6d11545e04e9fd70d1322f49cd3c7a4c72998c7a..d72da5eea64e8dc3adddb0ec6e846008889996a8 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/InstrumentInfo.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/InstrumentInfo.cpp
@@ -12,38 +12,41 @@ void export_InstrumentInfo() {
std_vector_exporter<InstrumentInfo>::wrap("std_vector_InstrumentInfo");
class_<InstrumentInfo>("InstrumentInfo", no_init)
- .def("name", &InstrumentInfo::name,
+ .def("name", &InstrumentInfo::name, arg("self"),
""
"Returns the full name of the instrument as defined in the "
"Facilites.xml file")
- .def("shortName", &InstrumentInfo::shortName,
+ .def("shortName", &InstrumentInfo::shortName, arg("self"),
"Returns the abbreviated name of the instrument as definined in the "
"Facilites.xml file")
- .def("__str__", &InstrumentInfo::shortName,
+ .def("__str__", &InstrumentInfo::shortName, arg("self"),
"Returns the abbreviated name of the instrument as definined in the "
"Facilites.xml file")
.def("zeroPadding", &InstrumentInfo::zeroPadding,
+ (arg("self"), arg("runNumber")),
"Returns zero padding for this instrument")
.def("filePrefix", &InstrumentInfo::filePrefix,
+ (arg("self"), arg("runNumber")),
"Returns file prefix for this instrument")
- .def("delimiter", &InstrumentInfo::delimiter, "Returns the delimiter "
- "between the instrument "
- "name and the run number.")
+ .def("delimiter", &InstrumentInfo::delimiter, arg("self"),
+ "Returns the delimiter "
+ "between the instrument "
+ "name and the run number.")
- .def("techniques", &InstrumentInfo::techniques,
+ .def("techniques", &InstrumentInfo::techniques, arg("self"),
return_value_policy<copy_const_reference>(),
"Return list of techniques this instrument supports")
- .def("facility", &InstrumentInfo::facility,
+ .def("facility", &InstrumentInfo::facility, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the facility that contains this instrument.")
- .def("instdae", &InstrumentInfo::liveDataAddress,
+ .def("instdae", &InstrumentInfo::liveDataAddress, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the host name and the port of the machine hosting DAE and "
"providing port to connect to for a live data stream")
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ListValidator.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ListValidator.cpp
index 75c2ae54ac615913071285c7dc662c2554369922..d13676fc3f7917019aac076cd0c6daa88a08e5f2 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ListValidator.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ListValidator.cpp
@@ -35,6 +35,7 @@ createListValidator(const boost::python::list &allowedValues) {
make_constructor(&createListValidator<type>, \
default_call_policies(), arg("allowedValues"))) \
.def("addAllowedValue", &ListValidator<type>::addAllowedValue, \
+ (arg("self"), arg("value")), \
"Adds a value to the list of accepted values");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/LogFilter.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/LogFilter.cpp
index 89f9e7e29a98e6e89637ec0f45c5712be655f2a4..4a8b24348cd44569214bdd954ddeb8db54a5ee78 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/LogFilter.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/LogFilter.cpp
@@ -11,10 +11,12 @@ using namespace boost::python;
void export_LogFilter() {
class_<LogFilter, boost::noncopyable>(
"LogFilter", init<const Property *>(
+ (arg("self"), arg("property")),
"Creates a log filter using the log to be filtered"))
- .def("data", &LogFilter::data, return_value_policy<return_by_value>(),
+ .def("data", &LogFilter::data, arg("self"),
+ return_value_policy<return_by_value>(),
"Returns a time series property filtered on current filter property")
- .def("addFilter", &LogFilter::addFilter,
+ .def("addFilter", &LogFilter::addFilter, (arg("self"), arg("filter")),
"Adds a filter to the current list");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Logger.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Logger.cpp
index 40d5a9c310f0b72fe6056a1cc90f53840a12882c..8494bdcd5fce1ec6680049775a0b6d5c466420bb 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Logger.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Logger.cpp
@@ -25,28 +25,35 @@ void export_Logger() {
// To distinguish between the overloaded functions
typedef void (Logger::*LogLevelFunction)(const std::string &);
- class_<Logger, boost::noncopyable>("Logger", init<std::string>(arg("name")))
+ class_<Logger, boost::noncopyable>(
+ "Logger", init<std::string>((arg("self"), arg("name"))))
.def("fatal", (LogLevelFunction)&Logger::fatal,
+ (arg("self"), arg("message")),
"Send a message at fatal priority: "
"An unrecoverable error has occured and the application will "
"terminate")
.def("error", (LogLevelFunction)&Logger::error,
+ (arg("self"), arg("message")),
"Send a message at error priority: "
"An error has occured but the framework is able to handle it and "
"continue")
.def("warning", (LogLevelFunction)&Logger::warning,
+ (arg("self"), arg("message")),
"Send a message at warning priority: "
"Something was wrong but the framework was able to continue despite "
"the problem.")
.def("notice", (LogLevelFunction)&Logger::notice,
+ (arg("self"), arg("message")),
"Sends a message at notice priority: "
"Really important information that should be displayed to the user, "
"this should be minimal. The default logging level is set here "
"unless it is altered.")
.def("information", (LogLevelFunction)&Logger::information,
+ (arg("self"), arg("message")),
"Send a message at information priority: "
"Useful but not vital information to be relayed back to the user.")
.def("debug", (LogLevelFunction)&Logger::debug,
+ (arg("self"), arg("message")),
"Send a message at debug priority:"
". Anything that may be useful to understand what the code has been "
"doing for debugging purposes.")
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Material.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Material.cpp
index 36ee205659c6535475e268471bead2bbb0442b8e..5928f46115c8e5d58263a3324306403c9e23d6b3 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Material.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Material.cpp
@@ -14,8 +14,8 @@ void export_Material() {
register_ptr_to_python<boost::shared_ptr<Material>>();
class_<Material, boost::noncopyable>("Material", no_init)
- .def("name", &Material::name, return_value_policy<copy_const_reference>(),
- "Name of the material")
+ .def("name", &Material::name, arg("self"),
+ return_value_policy<copy_const_reference>(), "Name of the material")
.add_property("numberDensity", make_function(&Material::numberDensity),
"Number density")
.add_property("temperature", make_function(&Material::temperature),
@@ -23,18 +23,18 @@ void export_Material() {
.add_property("pressure", make_function(&Material::pressure), "Pressure")
.def("cohScatterXSection",
(double (Material::*)(double) const)(&Material::cohScatterXSection),
- (arg("lambda") = (double)NeutronAtom::ReferenceLambda),
+ (arg("self"), arg("lambda") = (double)NeutronAtom::ReferenceLambda),
"Coherent Scattering Cross-Section")
.def("incohScatterXSection", (double (Material::*)(double)
const)(&Material::incohScatterXSection),
- (arg("lambda") = (double)NeutronAtom::ReferenceLambda),
+ (arg("self"), arg("lambda") = (double)NeutronAtom::ReferenceLambda),
"Incoherent Scattering Cross-Section")
.def("totalScatterXSection", (double (Material::*)(double)
const)(&Material::totalScatterXSection),
- (arg("lambda") = (double)NeutronAtom::ReferenceLambda),
+ (arg("self"), arg("lambda") = (double)NeutronAtom::ReferenceLambda),
"Total Scattering Cross-Section")
.def("absorbXSection",
(double (Material::*)(double) const)(&Material::absorbXSection),
- (arg("lambda") = (double)NeutronAtom::ReferenceLambda),
+ (arg("self"), arg("lambda") = (double)NeutronAtom::ReferenceLambda),
"Absorption Cross-Section");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Memory.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Memory.cpp
index 46aad239e32e0b3cebd83ae3ca11ca510013c9b5..a3bcdc1420274326010e8d42717fd136c4a8d160 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Memory.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Memory.cpp
@@ -6,14 +6,15 @@ using namespace boost::python;
void export_MemoryStats() {
- class_<MemoryStats>("MemoryStats", init<>("Construct MemoryStats object."))
- .def("update", &MemoryStats::update, args("self"))
- .def("totalMem", &MemoryStats::totalMem, args("self"))
- .def("availMem", &MemoryStats::availMem, args("self"))
- .def("residentMem", &MemoryStats::residentMem, args("self"))
- .def("virtualMem", &MemoryStats::virtualMem, args("self"))
- .def("reservedMem", &MemoryStats::reservedMem, args("self"))
- .def("getFreeRatio", &MemoryStats::getFreeRatio, args("self"))
- .def("getCurrentRSS", &MemoryStats::getCurrentRSS, args("self"))
- .def("getPeakRSS", &MemoryStats::getPeakRSS, args("self"));
+ class_<MemoryStats>("MemoryStats",
+ init<>(arg("self"), "Construct MemoryStats object."))
+ .def("update", &MemoryStats::update, arg("self"))
+ .def("totalMem", &MemoryStats::totalMem, arg("self"))
+ .def("availMem", &MemoryStats::availMem, arg("self"))
+ .def("residentMem", &MemoryStats::residentMem, arg("self"))
+ .def("virtualMem", &MemoryStats::virtualMem, arg("self"))
+ .def("reservedMem", &MemoryStats::reservedMem, arg("self"))
+ .def("getFreeRatio", &MemoryStats::getFreeRatio, arg("self"))
+ .def("getCurrentRSS", &MemoryStats::getCurrentRSS, arg("self"))
+ .def("getPeakRSS", &MemoryStats::getPeakRSS, arg("self"));
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/ProgressBase.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/ProgressBase.cpp
index 20b0764a66dcdc8dd73531372150a68aa9027c93..0dcef5d1d7e65df2895e25f7f5346f9a00fd0039 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/ProgressBase.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/ProgressBase.cpp
@@ -7,35 +7,41 @@ using namespace boost::python;
void export_ProgressBase() {
class_<ProgressBase, boost::noncopyable>("ProgressBase", no_init)
.def("report", (void (ProgressBase::*)()) & ProgressBase::report,
+ arg("self"),
"Increment the progress by 1 and report with no message")
.def("report",
(void (ProgressBase::*)(const std::string &)) & ProgressBase::report,
- (arg("msg")), "Increment the progress by 1 and report along with "
- "the given message")
+ (arg("self"), arg("msg")),
+ "Increment the progress by 1 and report along with "
+ "the given message")
.def("report", (void (ProgressBase::*)(int64_t, const std::string &)) &
ProgressBase::report,
- (arg("i"), arg("msg")), "Set the progress to given amount and "
- "report along with the given message")
+ (arg("self"), arg("i"), arg("msg")),
+ "Set the progress to given amount and "
+ "report along with the given message")
.def("reportIncrement",
(void (ProgressBase::*)(size_t, const std::string &)) &
ProgressBase::reportIncrement,
- (arg("i"), arg("msg")), "Increment the progress by given amount and "
- "report along with the given message")
+ (arg("self"), arg("i"), arg("msg")),
+ "Increment the progress by given amount and "
+ "report along with the given message")
- .def("setNumSteps", &ProgressBase::setNumSteps, (arg("nsteps")),
+ .def("setNumSteps", &ProgressBase::setNumSteps,
+ (arg("self"), arg("nsteps")),
"Sets a new number of steps for the current progress range")
.def("resetNumSteps", &ProgressBase::resetNumSteps,
- (arg("nsteps"), arg("start"), arg("end")),
+ (arg("self"), arg("nsteps"), arg("start"), arg("end")),
"Resets the number of steps & progress range to the given values")
- .def("setNotifyStep", &ProgressBase::setNotifyStep, (arg("notifyStep")),
+ .def("setNotifyStep", &ProgressBase::setNotifyStep,
+ (arg("self"), arg("notifyStep")),
"Set how often the notifications are actually reported")
- .def("getEstimatedTime", &ProgressBase::getEstimatedTime,
+ .def("getEstimatedTime", &ProgressBase::getEstimatedTime, arg("self"),
"Returns an estimate of the time remaining. May not be to accurate "
"if the reporting is lumpy.");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/PropertyHistory.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/PropertyHistory.cpp
index 1459fee276c6ea112d01a47bfb4bb7e600d385a0..b373cd85709094ce91c42507fab412c66e54a5fe 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/PropertyHistory.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/PropertyHistory.cpp
@@ -14,22 +14,22 @@ void export_PropertyHistory() {
class_<PropertyHistory>("PropertyHistory", no_init)
- .def("name", &PropertyHistory::name,
+ .def("name", &PropertyHistory::name, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the name of the property.")
- .def("value", &PropertyHistory::value,
+ .def("value", &PropertyHistory::value, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the value of the property.")
- .def("type", &PropertyHistory::type,
+ .def("type", &PropertyHistory::type, arg("self"),
return_value_policy<copy_const_reference>(),
"Returns the type of the property.")
- .def("isDefault", &PropertyHistory::isDefault,
+ .def("isDefault", &PropertyHistory::isDefault, arg("self"),
"Returns if the property value is the default value.")
- .def("direction", &PropertyHistory::direction,
+ .def("direction", &PropertyHistory::direction, arg("self"),
"Returns the direction of the property.")
// ----------------- Operators --------------------------------------
.def(self_ns::str(self));
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Quat.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Quat.cpp
index 03d71fc376c4d774f2243b8f51f323a2a663694b..abcba6155a2a13b3dc1a9a711887e3754578a120 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Quat.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Quat.cpp
@@ -5,11 +5,11 @@
#include <boost/python/copy_const_reference.hpp>
#include <boost/python/register_ptr_to_python.hpp>
#include <boost/python/return_value_policy.hpp>
+#include <boost/python/return_arg.hpp>
using Mantid::Kernel::Quat;
using Mantid::Kernel::V3D;
-
-using boost::python::args;
+using boost::python::arg;
using boost::python::init;
using boost::python::class_;
using boost::python::self;
@@ -28,43 +28,49 @@ void export_Quat() {
"Quaternions are used for roations in 3D spaces and often "
"implemented for "
"computer graphics applications.",
- init<>(args("self"),
+ init<>(arg("self"),
"Construct a default Quat that will perform no transformation."))
.def(init<double, double, double, double>(
- args("self", "w", "a", "b", "c"), "Constructor with values"))
- .def(init<V3D, V3D>(args("self", "src", "dest"),
+ (arg("self"), arg("w"), arg("a"), arg("b"), arg("c")),
+ "Constructor with values"))
+ .def(init<V3D, V3D>((arg("self"), arg("src"), arg("dest")),
"Construct a Quat between two vectors"))
- .def(init<V3D, V3D, V3D>(args("self", "rX", "rY", "rZ"),
+ .def(init<V3D, V3D, V3D>((arg("self"), arg("rX"), arg("rY"), arg("rZ")),
"Construct a Quaternion that performs a "
"reference frame rotation.\nThe initial X,Y,Z "
"vectors are aligned as expected: X=(1,0,0), "
"Y=(0,1,0), Z=(0,0,1)"))
- .def(init<double, V3D>(args("self", "deg", "axis"),
+ .def(init<double, V3D>((arg("self"), arg("deg"), arg("axis")),
"Constructor from an angle(degrees) and an axis."))
- .def("rotate", &Quat::rotate, args("self", "v"),
+ .def("rotate", &Quat::rotate, (arg("self"), arg("v")),
"Rotate the quaternion by the given vector")
- .def("real", &Quat::real, args("self"),
+ .def("real", &Quat::real, arg("self"),
"Returns the real part of the quaternion")
- .def("imagI", &Quat::imagI, args("self"),
+ .def("imagI", &Quat::imagI, arg("self"),
"Returns the ith imaginary component")
- .def("imagJ", &Quat::imagJ, args("self"),
+ .def("imagJ", &Quat::imagJ, arg("self"),
"Returns the jth imaginary component")
- .def("imagK", &Quat::imagK, args("self"),
+ .def("imagK", &Quat::imagK, arg("self"),
"Returns the kth imaginary component")
- .def("len", &Quat::len, args("self"),
+ .def("len", &Quat::len, arg("self"),
"Returns the 'length' of the quaternion")
- .def("len2", &Quat::len2, args("self"),
+ .def("len2", &Quat::len2, arg("self"),
"Returns the square of the 'length' of the quaternion")
- .def(self + self)
- .def(self += self)
- .def(self - self)
- .def(self -= self)
- .def(self * self)
- .def(self *= self)
- .def(self == self)
- .def(self != self)
+ .def("__add__", &Quat::operator+, (arg("left"), arg("right")))
+ .def("__iadd__", &Quat::operator+=, boost::python::return_self<>(),
+ (arg("self"), arg("other")))
+ .def("__sub__", &Quat::operator-, (arg("left"), arg("right")))
+ .def("__isub__", &Quat::operator-=, boost::python::return_self<>(),
+ (arg("self"), arg("other")))
+ .def("__mul__", &Quat::operator*, (arg("left"), arg("right")))
+ .def("__imul__", &Quat::operator*=, boost::python::return_self<>(),
+ (arg("self"), arg("other")))
+ .def("__eq__", &Quat::operator==, (arg("self"), arg("other")))
+ .def("__ne__", &Quat::operator!=, (arg("self"), arg("other")))
.def("__getitem__",
(const double &(Quat::*)(int) const) & Quat::operator[],
- return_value_policy<copy_const_reference>())
- .def(boost::python::self_ns::str(self));
+ return_value_policy<copy_const_reference>(),
+ (arg("self"), arg("index")))
+ .def("__str__", &Quat::toString, arg("self"));
+ //.def(boost::python::self_ns::str(self));
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Statistics.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Statistics.cpp
index 388fd50a172eda835b51d9927120893ef9c79d53..3cfaf72e9ec1d44d7e3816714d8a8d30c5f98de4 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Statistics.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Statistics.cpp
@@ -233,33 +233,34 @@ void export_Statistics() {
class_<Stats>("Stats", no_init)
.def("getStatistics", &getStatisticsNumpy,
getStatisticsOverloads(
- args("data", "sorted"),
+ (arg("data"), arg("sorted")),
"Determine the statistics for an array of data"))
.staticmethod("getStatistics")
- .def("getZscore", &getZscoreNumpy, args("data"),
+ .def("getZscore", &getZscoreNumpy, arg("data"),
"Determine the Z score for an array of data")
- .def("getZscore", &getZscoreNumpyDeprecated, args("data", "sorted"),
+ .def("getZscore", &getZscoreNumpyDeprecated,
+ (arg("data"), arg("sorted")),
"Determine the Z score for an array of "
"data (deprecated sorted argument)")
.staticmethod("getZscore")
.def("getModifiedZscore", &getModifiedZscoreNumpy,
getModifiedZscoreOverloads(
- args("data", "sorted"),
+ (arg("data"), arg("sorted")),
"Determine the modified Z score for an array of data"))
.staticmethod("getModifiedZscore")
.def("getMomentsAboutOrigin", &getMomentsAboutOriginNumpy,
getMomentsAboutOriginOverloads(
- args("indep", "depend", "maxMoment"),
+ (arg("indep"), arg("depend"), arg("maxMoment")),
"Calculate the first n-moments (inclusive) about the origin")
[ReturnNumpyArray()])
.staticmethod("getMomentsAboutOrigin")
.def("getMomentsAboutMean", &getMomentsAboutMeanNumpy,
getMomentsAboutMeanOverloads(
- args("indep", "depend", "maxMoment"),
+ (arg("indep"), arg("depend"), arg("maxMoment")),
"Calculate the first n-moments (inclusive) about the mean")
[ReturnNumpyArray()])
.staticmethod("getMomentsAboutMean");
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/TimeSeriesProperty.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/TimeSeriesProperty.cpp
index 933d2862f9bb37333438a49df8a1e0785b6e0e0f..7311d4ac1c2e826d66a3f4692a7a2cfa91317106 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/TimeSeriesProperty.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/TimeSeriesProperty.cpp
@@ -12,6 +12,7 @@ using Mantid::Kernel::DateAndTime;
using Mantid::Kernel::TimeSeriesProperty;
using Mantid::Kernel::Property;
using namespace boost::python;
+using boost::python::arg;
namespace {
@@ -22,7 +23,8 @@ using Mantid::PythonInterface::Policies::VectorToNumpy;
register_ptr_to_python<TimeSeriesProperty<TYPE> *>(); \
\
class_<TimeSeriesProperty<TYPE>, bases<Property>, boost::noncopyable>( \
- #Prefix "TimeSeriesProperty", init<const std::string &>()) \
+ #Prefix "TimeSeriesProperty", \
+ init<const std::string &>((arg("self"), arg("value")))) \
.add_property( \
"value", \
make_function( \
@@ -32,20 +34,26 @@ using Mantid::PythonInterface::Policies::VectorToNumpy;
&Mantid::Kernel::TimeSeriesProperty<TYPE>::timesAsVector) \
.def("addValue", (void (TimeSeriesProperty<TYPE>::*)( \
const DateAndTime &, const TYPE)) & \
- TimeSeriesProperty<TYPE>::addValue) \
+ TimeSeriesProperty<TYPE>::addValue, \
+ (arg("self"), arg("time"), arg("value"))) \
.def("addValue", (void (TimeSeriesProperty<TYPE>::*)( \
const std::string &, const TYPE)) & \
- TimeSeriesProperty<TYPE>::addValue) \
- .def("valueAsString", &TimeSeriesProperty<TYPE>::value) \
- .def("size", &TimeSeriesProperty<TYPE>::size) \
- .def("firstTime", &TimeSeriesProperty<TYPE>::firstTime) \
- .def("firstValue", &TimeSeriesProperty<TYPE>::firstValue) \
- .def("lastTime", &TimeSeriesProperty<TYPE>::lastTime) \
- .def("lastValue", &TimeSeriesProperty<TYPE>::lastValue) \
- .def("nthValue", &TimeSeriesProperty<TYPE>::nthValue) \
- .def("nthTime", &TimeSeriesProperty<TYPE>::nthTime) \
- .def("getStatistics", &TimeSeriesProperty<TYPE>::getStatistics) \
- .def("timeAverageValue", &TimeSeriesProperty<TYPE>::timeAverageValue);
+ TimeSeriesProperty<TYPE>::addValue, \
+ (arg("self"), arg("time"), arg("value"))) \
+ .def("valueAsString", &TimeSeriesProperty<TYPE>::value, arg("self")) \
+ .def("size", &TimeSeriesProperty<TYPE>::size, arg("self")) \
+ .def("firstTime", &TimeSeriesProperty<TYPE>::firstTime, arg("self")) \
+ .def("firstValue", &TimeSeriesProperty<TYPE>::firstValue, arg("self")) \
+ .def("lastTime", &TimeSeriesProperty<TYPE>::lastTime, arg("self")) \
+ .def("lastValue", &TimeSeriesProperty<TYPE>::lastValue, arg("self")) \
+ .def("nthValue", &TimeSeriesProperty<TYPE>::nthValue, \
+ (arg("self"), arg("index"))) \
+ .def("nthTime", &TimeSeriesProperty<TYPE>::nthTime, \
+ (arg("self"), arg("index"))) \
+ .def("getStatistics", &TimeSeriesProperty<TYPE>::getStatistics, \
+ arg("self")) \
+ .def("timeAverageValue", &TimeSeriesProperty<TYPE>::timeAverageValue, \
+ arg("self"));
}
void export_TimeSeriesProperty_Double() {
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Unit.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Unit.cpp
index 41214aab50099f1331d4969307dd2757746c8391..ff85cee044ec2791322b67118a6bbf0a7a9aaf84 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Unit.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Unit.cpp
@@ -33,15 +33,18 @@ void export_Unit() {
register_ptr_to_python<boost::shared_ptr<Unit>>();
class_<Unit, boost::noncopyable>("Unit", no_init)
- .def("name", &deprecatedName,
+ .def("name", &deprecatedName, arg("self"),
"Return the full name of the unit (deprecated, use caption)")
- .def("caption", &Unit::caption, "Return the full name of the unit")
- .def("label", &deprecatedLabel, "Returns a plain-text label to be used "
- "as the symbol for the unit (deprecated, "
- "use symbol())")
- .def("symbol", &Unit::label, "Returns a UnitLabel object that holds "
- "information on the symbol to use for unit")
+ .def("caption", &Unit::caption, arg("self"),
+ "Return the full name of the unit")
+ .def("label", &deprecatedLabel, arg("self"),
+ "Returns a plain-text label to be used "
+ "as the symbol for the unit (deprecated, "
+ "use symbol())")
+ .def("symbol", &Unit::label, arg("self"),
+ "Returns a UnitLabel object that holds "
+ "information on the symbol to use for unit")
.def(
- "unitID", &Unit::unitID,
+ "unitID", &Unit::unitID, arg("self"),
"Returns the string ID of the unit. This may/may not match its name");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitConversion.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitConversion.cpp
index c39d60da1ef271a30b5e6b0a5496f5d65037fecc..f2f7ea98ad5f94a21f9d019ad326588dc0e50232 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitConversion.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitConversion.cpp
@@ -1,6 +1,5 @@
#include "MantidKernel/UnitConversion.h"
#include <boost/python/class.hpp>
-#include <boost/python/args.hpp>
using Mantid::Kernel::UnitConversion;
using Mantid::Kernel::DeltaEMode;
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitFactory.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitFactory.cpp
index 8bdf277857fdc6791f4777c96d10a4189e5e024a..361e6b1a50e6df26d75f66c7a7af9e43a7701585 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitFactory.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitFactory.cpp
@@ -14,10 +14,10 @@ using namespace boost::python;
void export_UnitFactory() {
class_<UnitFactoryImpl, boost::noncopyable>("UnitFactoryImpl", no_init)
- .def("create", &UnitFactoryImpl::create,
+ .def("create", &UnitFactoryImpl::create, (arg("self"), arg("className")),
"Creates a named unit if it exists in the factory")
- .def("getKeys", &UnitFactoryImpl::getKeys,
+ .def("getKeys", &UnitFactoryImpl::getKeys, arg("self"),
return_value_policy<Policies::VectorToNumpy>(),
"Returns a list of units available from the factory")
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitLabel.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitLabel.cpp
index 757fafecd8652725a165b004321d18a48ab158df..c85ced6900046f9cf9250cbaf3bc4687583b4779 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/UnitLabel.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/UnitLabel.cpp
@@ -52,18 +52,19 @@ void export_UnitLabel() {
.def(init<UnitLabel::AsciiString>(
(arg("ascii")), "Construct a label from a plain-text string"))
- .def("ascii", &UnitLabel::ascii,
+ .def("ascii", &UnitLabel::ascii, arg("self"),
return_value_policy<copy_const_reference>(),
"Return the label as a plain-text string")
- .def("utf8", &utf8ToUnicode, "Return the label as a unicode string")
+ .def("utf8", &utf8ToUnicode, arg("self"),
+ "Return the label as a unicode string")
.def("latex", &UnitLabel::latex,
- return_value_policy<copy_const_reference>(),
+ return_value_policy<copy_const_reference>(), arg("self"),
"Return the label as a plain-text string with latex formatting")
// special functions
.def("__str__", &UnitLabel::ascii,
- return_value_policy<copy_const_reference>())
- .def("__unicode__", &utf8ToUnicode);
+ return_value_policy<copy_const_reference>(), arg("self"))
+ .def("__unicode__", &utf8ToUnicode, arg("self"));
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/Units.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/Units.cpp
index fd07fd24004cb2c7c3d7a61445016b23a09b1834..54888c959e00c8a0dd44c6306045505598c7afc1 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/Units.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/Units.cpp
@@ -25,13 +25,15 @@ void setLabelFromStdString(Label &self, const std::string &caption,
// have additional functionality over the base class
void export_Label() {
class_<Label, bases<Unit>, boost::noncopyable>("Label", no_init)
- .def("setLabel", &setLabelFromStdString, (arg("caption"), arg("label")),
+ .def("setLabel", &setLabelFromStdString,
+ (arg("self"), arg("caption"), arg("label")),
"Set the caption (e.g.Temperature) & label (K) on the unit")
.def("setLabel",
(void (Label::*)(const std::string &, const UnitLabel &)) &
Label::setLabel,
- (arg("caption"), arg("label")), "Set the caption (e.g.Temperature) "
- "& label (K) on the unit, See the "
- "UnitLabel class");
+ (arg("self"), arg("caption"), arg("label")),
+ "Set the caption (e.g.Temperature) "
+ "& label (K) on the unit, See the "
+ "UnitLabel class");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/V3D.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/V3D.cpp
index bc4d9ce7ebd38b09a75b82c692408524dda1f32d..3b9f94dd6291bd7e797c990899758ee229354495 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/V3D.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/V3D.cpp
@@ -28,30 +28,38 @@ void export_V3D() {
class_<V3D>("V3D", init<>("Construct a V3D at the origin"))
.def(init<double, double, double>(
"Construct a V3D with X,Y,Z coordinates"))
- .def("X", &V3D::X, return_value_policy<copy_const_reference>(),
+ .def("X", &V3D::X, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the X coordinate")
- .def("Y", &V3D::Y, return_value_policy<copy_const_reference>(),
+ .def("Y", &V3D::Y, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the Y coordinate")
- .def("Z", &V3D::Z, return_value_policy<copy_const_reference>(),
+ .def("Z", &V3D::Z, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the Z coordinate")
- .def("getX", &V3D::X, return_value_policy<copy_const_reference>(),
+ .def("getX", &V3D::X, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the X coordinate") // Traditional name
- .def("getY", &V3D::Y, return_value_policy<copy_const_reference>(),
+ .def("getY", &V3D::Y, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the Y coordinate") // Traditional name
- .def("getZ", &V3D::Z, return_value_policy<copy_const_reference>(),
+ .def("getZ", &V3D::Z, arg("self"),
+ return_value_policy<copy_const_reference>(),
"Returns the Z coordinate") // Traditional name
- .def("distance", &V3D::distance,
+ .def("distance", &V3D::distance, (arg("self"), arg("other")),
"Returns the distance between this vector and another")
- .def("angle", &V3D::angle,
+ .def("angle", &V3D::angle, (arg("self"), arg("other")),
"Returns the angle between this vector and another")
- .def("zenith", &V3D::zenith,
+ .def("zenith", &V3D::zenith, (arg("self"), arg("other")),
"Returns the zenith between this vector and another")
- .def("scalar_prod", &V3D::scalar_prod,
+ .def("scalar_prod", &V3D::scalar_prod, (arg("self"), arg("other")),
"Computes the scalar product between this and another vector")
- .def("cross_prod", &V3D::cross_prod,
+ .def("cross_prod", &V3D::cross_prod, (arg("self"), arg("other")),
"Computes the cross product between this and another vector")
- .def("norm", &V3D::norm, "Calculates the length of the vector")
- .def("norm2", &V3D::norm2, "Calculates the squared length of the vector")
+ .def("norm", &V3D::norm, arg("self"),
+ "Calculates the length of the vector")
+ .def("norm2", &V3D::norm2, arg("self"),
+ "Calculates the squared length of the vector")
.def(self + self)
.def(self += self)
.def(self - self)
@@ -73,7 +81,8 @@ void export_V3D() {
.def(self_ns::repr(self))
.def("__hash__", &hashV3D)
.def("directionAngles", &V3D::directionAngles,
+ (arg("self"), arg("inDegrees")),
"Calculate direction angles from direction cosines")
- .def("directionAngles", &directionAnglesDefault,
+ .def("directionAngles", &directionAnglesDefault, arg("self"),
"Calculate direction angles from direction cosines");
}
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/VMD.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/VMD.cpp
index 3bcdb46bba8de05180940dc0dee22b01b5542526..aafd51e6176cf9bcbc87faac5768a7d8c560dd90 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/VMD.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/VMD.cpp
@@ -48,50 +48,56 @@ void setItem(VMD &self, const size_t index, const VMD_t value) {
void export_VMD() {
class_<VMD>("VMD",
- init<>("Default constructor gives an object with 1 dimension"))
+ init<>(arg("self"),
+ "Default constructor gives an object with 1 dimension"))
.def(init<VMD_t, VMD_t>(
"Constructs a 2 dimensional vector at the point given",
- args(("val0"), ("val1"))))
+ (arg("self"), arg("val0"), arg("val1"))))
.def(init<VMD_t, VMD_t, VMD_t>(
"Constructs a 3 dimensional vector at the point given",
- args(("val0"), ("val1"), ("val2"))))
+ (arg("self"), arg("val0"), arg("val1"), arg("val2"))))
.def(init<VMD_t, VMD_t, VMD_t, VMD_t>(
"Constructs a 4 dimensional vector at the point given",
- args(("val0"), ("val1"), ("val2"), ("val3"))))
+ (arg("self"), arg("val0"), arg("val1"), arg("val2"), arg("val3"))))
.def(init<VMD_t, VMD_t, VMD_t, VMD_t, VMD_t>(
"Constructs a 5 dimensional vector at the point given",
- args(("val0"), ("val1"), ("val2"), ("val3"), ("val4"))))
+ (arg("self"), arg("val0"), arg("val1"), arg("val2"), arg("val3"),
+ arg("val4"))))
.def(init<VMD_t, VMD_t, VMD_t, VMD_t, VMD_t, VMD_t>(
"Constructs a 6 dimensional vector at the point given",
- args(("val0"), ("val1"), ("val2"), ("val3"), ("val5"))))
+ (arg("self"), arg("val0"), arg("val1"), arg("val2"), arg("val3"),
+ arg("val4"), arg("val5"))))
- .def("getNumDims", &VMD::getNumDims,
+ .def("getNumDims", &VMD::getNumDims, arg("self"),
"Returns the number of dimensions the contained in the vector")
- .def("scalar_prod", &VMD::scalar_prod,
+ .def("scalar_prod", &VMD::scalar_prod, (arg("self"), arg("other")),
"Returns the scalar product of this vector with another. If the "
"number of dimensions do not match a RuntimeError is raised")
- .def("cross_prod", &VMD::cross_prod,
+ .def("cross_prod", &VMD::cross_prod, (arg("self"), arg("other")),
"Returns the cross product of this vector with another. If the "
"number of dimensions do not match a RuntimeError is raised")
- .def("norm", &VMD::norm, "Returns the length of the vector")
+ .def("norm", &VMD::norm, arg("self"), "Returns the length of the vector")
- .def("norm2", &VMD::norm2, "Returns the the squared length of the vector")
+ .def("norm2", &VMD::norm2, arg("self"),
+ "Returns the the squared length of the vector")
- .def("normalize", &VMD::normalize, "Normalizes the length of the vector "
- "to unity and returns the length "
- "before it was normalized")
+ .def("normalize", &VMD::normalize, arg("self"),
+ "Normalizes the length of the vector "
+ "to unity and returns the length "
+ "before it was normalized")
- .def("angle", &VMD::angle, "Returns the angle between the vectors in "
- "radians (0 < theta < pi). If the dimensions "
- "do not match a RuntimeError is raised")
+ .def("angle", &VMD::angle, (arg("self"), arg("other")),
+ "Returns the angle between the vectors in "
+ "radians (0 < theta < pi). If the dimensions "
+ "do not match a RuntimeError is raised")
//----------------------------- special methods
//--------------------------------
- .def("__getitem__", &getItem)
- .def("__setitem__", &setItem)
+ .def("__getitem__", &getItem, (arg("self"), arg("value")))
+ .def("__setitem__", &setItem, (arg("self"), arg("index"), arg("value")))
.def(self == self)
.def(self != self) // must define != as Python's default is to compare
// object address
diff --git a/Framework/PythonInterface/mantid/kernel/src/Exports/VisibleWhenProperty.cpp b/Framework/PythonInterface/mantid/kernel/src/Exports/VisibleWhenProperty.cpp
index 4ea24b4b27c5cc146e46a2fcf0a343ec968648e6..c1797a4e592052d345362a0ccc444f0821d495c3 100644
--- a/Framework/PythonInterface/mantid/kernel/src/Exports/VisibleWhenProperty.cpp
+++ b/Framework/PythonInterface/mantid/kernel/src/Exports/VisibleWhenProperty.cpp
@@ -8,12 +8,12 @@ void export_VisibleWhenProperty() {
class_<VisibleWhenProperty, bases<EnabledWhenProperty>, boost::noncopyable>(
"VisibleWhenProperty", no_init)
.def(init<std::string, ePropertyCriterion, std::string>(
- (arg("otherPropName"), arg("when"), arg("value")),
+ (arg("self"), arg("otherPropName"), arg("when"), arg("value")),
"Enabled otherPropName property when value criterion meets that "
"given by the 'when' argument"))
.def(init<std::string, ePropertyCriterion>(
- (arg("otherPropName"), arg("when")),
+ (arg("self"), arg("otherPropName"), arg("when")),
"Enabled otherPropName property when criterion does not require a "
"value, i.e isDefault"));
}
diff --git a/Framework/PythonInterface/plugins/algorithms/TOFTOFMergeRuns.py b/Framework/PythonInterface/plugins/algorithms/TOFTOFMergeRuns.py
new file mode 100644
index 0000000000000000000000000000000000000000..443a8249b46b60ca036b0bec1e6482e55d983c88
--- /dev/null
+++ b/Framework/PythonInterface/plugins/algorithms/TOFTOFMergeRuns.py
@@ -0,0 +1,191 @@
+from mantid.kernel import Direction, StringArrayProperty, StringArrayLengthValidator
+from mantid.api import PythonAlgorithm, AlgorithmFactory, WorkspaceProperty, WorkspaceGroup
+import mantid.simpleapi as api
+import numpy as np
+from dateutil.parser import parse
+import mlzutils
+
+
+class TOFTOFMergeRuns(PythonAlgorithm):
+ """ Clean the Sample Logs of workspace after merging for TOFTOF instrument
+ """
+
+ mandatory_properties = ['channel_width', 'chopper_ratio', 'chopper_speed', 'Ei', 'wavelength', 'full_channels', 'EPP']
+ optional_properties = ['temperature', 'run_title']
+ properties_to_merge = ['temperature', 'monitor_counts', 'duration', 'run_number', 'run_start', 'run_end']
+ must_have_properties = ['monitor_counts', 'duration', 'run_number', 'run_start', 'run_end']
+
+ def __init__(self):
+ """
+ Init
+ """
+ PythonAlgorithm.__init__(self)
+
+ def category(self):
+ """ Return category
+ """
+ return "PythonAlgorithms\\MLZ\\TOFTOF;Utility"
+
+ def name(self):
+ """ Return summary
+ """
+ return "TOFTOFMergeRuns"
+
+ def summary(self):
+ return "Merge runs and the sample logs."
+
+ def PyInit(self):
+ """ Declare properties
+ """
+ validator = StringArrayLengthValidator()
+ validator.setLengthMin(1)
+ self.declareProperty(StringArrayProperty(name="InputWorkspaces", direction=Direction.Input, validator=validator),
+ doc="Comma separated list of workspaces or groups of workspaces.")
+ self.declareProperty(WorkspaceProperty("OutputWorkspace", "", direction=Direction.Output),
+ doc="Name of the workspace that will contain the merged workspaces.")
+ return
+
+ def _validate_input(self):
+ """
+ Checks for the valid input:
+ all given workspaces and/or groups must exist
+ gets names of the grouped workspaces
+ """
+ workspaces = self.getProperty("InputWorkspaces").value
+ mlzutils.ws_exist(workspaces, self.log())
+ input_workspaces = []
+ if len(workspaces) < 1:
+ message = "List of workspaces is empty. Nothing to merge."
+ self.log().error(message)
+ raise RuntimeError(message)
+ for wsname in workspaces:
+ wks = api.AnalysisDataService.retrieve(wsname)
+ if isinstance(wks, WorkspaceGroup):
+ input_workspaces.extend(wks.getNames())
+ else:
+ input_workspaces.append(wsname)
+ return input_workspaces
+
+ def _can_merge(self, wsnames):
+ """
+ Checks whether given workspaces can be merged
+ """
+ # mandatory properties must be identical
+ mlzutils.compare_mandatory(wsnames, self.mandatory_properties, self.log())
+
+ # timing (x-axis binning) must match
+ # is it possible to use WorkspaceHelpers::matchingBins from python?
+ self.timingsMatch(wsnames)
+
+ # Check sample logs for must have properties
+ for wsname in wsnames:
+ wks = api.AnalysisDataService.retrieve(wsname)
+ run = wks.getRun()
+ for prop in self.must_have_properties:
+ if not run.hasProperty(prop):
+ message = "Error: Workspace " + wsname + " does not have property " + prop +\
+ ". Cannot merge."
+ self.log().error(message)
+ raise RuntimeError(message)
+
+ # warnig if optional properties are not identical must be given
+ ws1 = api.AnalysisDataService.retrieve(wsnames[0])
+ run1 = ws1.getRun()
+ for wsname in wsnames[1:]:
+ wks = api.AnalysisDataService.retrieve(wsname)
+ run = wks.getRun()
+ mlzutils.compare_properties(run1, run, self.optional_properties, self.log(), tolerance=0.01)
+ return True
+
+ def PyExec(self):
+ """ Main execution body
+ """
+ # get list of input workspaces
+ input_workspace_list = self._validate_input()
+ workspaceCount = len(input_workspace_list)
+ self.log().information("Workspaces to merge " + str(workspaceCount))
+ wsOutput = self.getPropertyValue("OutputWorkspace")
+
+ if workspaceCount < 2:
+ api.CloneWorkspace(InputWorkspace=self.wsNames[0], OutputWorkspace=wsOutput)
+ self.log().warning("Cannot merge one workspace. Clone is produced.")
+ return
+
+ # check whether given workspaces can be merged
+ self._can_merge(input_workspace_list)
+
+ # delete output workspace if it exists
+ if api.mtd.doesExist(wsOutput):
+ api.DeleteWorkspace(Workspace=wsOutput)
+
+ # Merge runs
+ api.MergeRuns(InputWorkspaces=input_workspace_list, OutputWorkspace=wsOutput)
+
+ # Merge logs
+ # MergeRuns by default copies all logs from the first workspace
+ pdict = {}
+ for prop in self.properties_to_merge:
+ pdict[prop] = []
+
+ for wsname in input_workspace_list:
+ wks = api.AnalysisDataService.retrieve(wsname)
+ run = wks.getRun()
+ for prop in self.properties_to_merge:
+ if run.hasProperty(prop):
+ pdict[prop].append(run.getProperty(prop).value)
+
+ # take average for temperatures
+ nentries = len(pdict['temperature'])
+ if nentries > 0:
+ temps = [float(temp) for temp in pdict['temperature']]
+ tmean = sum(temps)/nentries
+ api.AddSampleLog(Workspace=wsOutput, LogName='temperature', LogText=str(tmean),
+ LogType='Number', LogUnit='K')
+ # sum monitor counts
+ mcounts = [int(mco) for mco in pdict['monitor_counts']]
+ # check for zero monitor counts
+ zeros = np.where(np.array(mcounts) == 0)[0]
+ if len(zeros) > 0:
+ for index in zeros:
+ self.log().warning("Workspace " + self.wsNames[index] + " has zero monitor counts.")
+ # create sample log
+ api.AddSampleLog(Workspace=wsOutput, LogName='monitor_counts', LogText=str(sum(mcounts)),
+ LogType='Number')
+ # sum durations
+ durations = [int(dur) for dur in pdict['duration']]
+ api.AddSampleLog(Workspace=wsOutput, LogName='duration', LogText=str(sum(durations)),
+ LogType='Number', LogUnit='s')
+ # get minimal run_start
+ fmt = "%Y-%m-%dT%H:%M:%S%z"
+ run_start = [parse(entry) for entry in pdict['run_start']]
+ api.AddSampleLog(Workspace=wsOutput, LogName='run_start',
+ LogText=min(run_start).strftime(fmt), LogType='String')
+ # get maximal run_end
+ run_end = [parse(entry) for entry in pdict['run_end']]
+ api.AddSampleLog(Workspace=wsOutput, LogName='run_end',
+ LogText=max(run_end).strftime(fmt), LogType='String')
+ # list of run_numbers
+ api.AddSampleLog(Workspace=wsOutput, LogName='run_number',
+ LogText=str(pdict['run_number']), LogType='String')
+
+ self.setProperty("OutputWorkspace", wsOutput)
+
+ def timingsMatch(self, wsNames):
+ """
+ :param wsNames:
+ :return:
+ """
+ for i in range(len(wsNames)):
+ leftWorkspace = wsNames[i]
+ rightWorkspace = wsNames[i+1]
+ leftXData = api.mtd[leftWorkspace].dataX(0)
+ rightXData = api.mtd[rightWorkspace].dataX(0)
+ leftDeltaX = leftXData[0] - leftXData[1]
+ rightDeltaX = rightXData[0] - rightXData[1]
+ if abs(leftDeltaX - rightDeltaX) >= 1e-4 or abs(rightXData[0] - leftXData[0]) >= 1e-4:
+ raise RuntimeError("Timings don't match")
+ else:
+ return True
+
+# Register algorithm with Mantid.
+AlgorithmFactory.subscribe(TOFTOFMergeRuns)
diff --git a/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/DetectorFloodWeighting.py b/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/DetectorFloodWeighting.py
index 473dffd5a2cd9ceb3b3e4d0f63a9fcd9d8a9ec27..c929a3c23b3afe00c1ed0770e6b38ef0424e4a96 100644
--- a/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/DetectorFloodWeighting.py
+++ b/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/DetectorFloodWeighting.py
@@ -1,4 +1,5 @@
-from mantid.api import DataProcessorAlgorithm, AlgorithmFactory, MatrixWorkspaceProperty, WorkspaceUnitValidator
+from mantid.api import DataProcessorAlgorithm, AlgorithmFactory, MatrixWorkspaceProperty, WorkspaceUnitValidator, \
+ Progress
from mantid.kernel import Direction, FloatArrayProperty, FloatArrayBoundedValidator
@@ -32,6 +33,8 @@ class DetectorFloodWeighting(DataProcessorAlgorithm):
direction=Direction.Output),
doc='Normalized flood weighting measurement')
+ self.declareProperty("SolidAngleCorrection", True, direction=Direction.Input, doc="Perform final solid angle correction")
+
def validateInputs(self):
"""
@@ -69,9 +72,18 @@ class DetectorFloodWeighting(DataProcessorAlgorithm):
return issues
+ def _divide(self, lhs, rhs):
+ divide = self.createChildAlgorithm("Divide")
+ divide.setProperty("LHSWorkspace", lhs)
+ divide.setProperty("RHSWorkspace", rhs)
+ divide.execute()
+ return divide.getProperty("OutputWorkspace").value
+
def PyExec(self):
+ progress = Progress(self, 0, 1, 4) # Four coarse steps
+
in_ws = self.getProperty('InputWorkspace').value
bands = self.getProperty('Bands').value
@@ -82,6 +94,7 @@ class DetectorFloodWeighting(DataProcessorAlgorithm):
upper = bands[i+1]
step = upper - lower
params.append((lower, step, upper))
+ progress.report()
accumulated_output = None
rebin = self.createChildAlgorithm("Rebin")
@@ -89,6 +102,7 @@ class DetectorFloodWeighting(DataProcessorAlgorithm):
rebin.setProperty("InputWorkspace", in_ws)
rebin.execute()
accumulated_output = rebin.getProperty("OutputWorkspace").value
+ progress.report()
# Determine the max across all spectra
y_values = accumulated_output.extractY()
@@ -101,11 +115,17 @@ class DetectorFloodWeighting(DataProcessorAlgorithm):
max_ws = create.getProperty("OutputWorkspace").value
# Divide each entry by max
- divide = self.createChildAlgorithm("Divide")
- divide.setProperty("LHSWorkspace", accumulated_output)
- divide.setProperty("RHSWorkspace", max_ws)
- divide.execute()
- normalized = divide.getProperty("OutputWorkspace").value
+ normalized = self._divide(accumulated_output, max_ws)
+ progress.report()
+
+ # Perform solid angle correction. Calculate solid angle then divide through.
+ if self.getProperty("SolidAngleCorrection").value:
+ solidAngle = self.createChildAlgorithm("SolidAngle")
+ solidAngle.setProperty("InputWorkspace", normalized)
+ solidAngle.execute()
+ solid_angle_weighting = solidAngle.getProperty("OutputWorkspace").value
+ normalized = self._divide(normalized, solid_angle_weighting)
+ progress.report()
self.setProperty('OutputWorkspace', normalized)
diff --git a/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/ResNorm2.py b/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/ResNorm2.py
index 93db61443b45cd5cf23a6c3b11be156408bd20a6..02de852f0963d86fd61d806772c7f34c9e6ceebf 100644
--- a/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/ResNorm2.py
+++ b/Framework/PythonInterface/plugins/algorithms/WorkflowAlgorithms/ResNorm2.py
@@ -1,6 +1,6 @@
#pylint: disable=no-init
from mantid.api import (PythonAlgorithm, AlgorithmFactory, MatrixWorkspaceProperty,
- WorkspaceGroup, WorkspaceGroupProperty)
+ WorkspaceGroup, WorkspaceGroupProperty, Progress)
from mantid.kernel import Direction
from mantid.simpleapi import *
@@ -99,10 +99,11 @@ class ResNorm(PythonAlgorithm):
# Process resolution workspace
padded_res_ws = self._process_res_ws(num_hist)
-
+ prog_namer = Progress(self, start=0.0, end=0.02, nreports=num_hist)
input_str = ''
for idx in range(num_hist):
input_str += '%s,i%d;' % (padded_res_ws, idx)
+ prog_namer.report()
out_name = getWSprefix(self._res_ws) + 'ResNorm_Fit'
function = 'name=TabulatedFunction,Workspace=%s,Scaling=1,Shift=0,XScaling=1,ties=(Shift=0)' % self._van_ws
@@ -118,8 +119,10 @@ class ResNorm(PythonAlgorithm):
params = {'XScaling':'Stretch', 'Scaling':'Intensity'}
result_workspaces = []
+ prog_process = Progress(self, start=0.94, end=1.0, nreports=3)
for param_name, output_name in params.items():
result_workspaces.append(self._process_fit_params(fit_params, param_name, v_values, v_unit, output_name))
+ prog_process.report()
GroupWorkspaces(InputWorkspaces=result_workspaces,
OutputWorkspace=self._out_ws)
@@ -127,6 +130,7 @@ class ResNorm(PythonAlgorithm):
DeleteWorkspace(van_ws)
DeleteWorkspace(padded_res_ws)
+ prog_process.report()
if not self._create_output:
DeleteWorkspace(fit_params)
diff --git a/Framework/PythonInterface/plugins/algorithms/mlzutils.py b/Framework/PythonInterface/plugins/algorithms/mlzutils.py
index 11929ab069adf73a25a143413a867ff4127985b6..3b69302522b7ef2cd6d2eba41c946e3e548d5673 100644
--- a/Framework/PythonInterface/plugins/algorithms/mlzutils.py
+++ b/Framework/PythonInterface/plugins/algorithms/mlzutils.py
@@ -55,7 +55,7 @@ def ws_exist(wslist, logger):
return True
-def compare_properties(lhs_run, rhs_run, plist, logger):
+def compare_properties(lhs_run, rhs_run, plist, logger, tolerance=5e-3):
"""
checks whether properties match in the given runs, produces warnings
@param lhs_run Left-hand-side run
@@ -65,11 +65,16 @@ def compare_properties(lhs_run, rhs_run, plist, logger):
"""
lhs_title = ""
rhs_title = ""
- if lhs_run.hasProperty('run_title'):
+ if lhs_run.hasProperty('run_title') and rhs_run.hasProperty('run_title'):
lhs_title = lhs_run.getProperty('run_title').value
- if rhs_run.hasProperty('run_title'):
rhs_title = rhs_run.getProperty('run_title').value
+ # for TOFTOF run_titles can be identical
+ if lhs_title == rhs_title:
+ if lhs_run.hasProperty('run_number') and rhs_run.hasProperty('run_number'):
+ lhs_title = str(lhs_run.getProperty('run_number').value)
+ rhs_title = str(rhs_run.getProperty('run_number').value)
+
for property_name in plist:
if lhs_run.hasProperty(property_name) and rhs_run.hasProperty(property_name):
lhs_property = lhs_run.getProperty(property_name)
@@ -81,8 +86,8 @@ def compare_properties(lhs_run, rhs_run, plist, logger):
lhs_title + ": " + lhs_property.value + ", but " + \
rhs_title + ": " + rhs_property.value
logger.warning(message)
- if lhs_property.type == 'number':
- if abs(lhs_property.value - rhs_property.value) > 5e-3:
+ elif lhs_property.type == 'number':
+ if abs(lhs_property.value - rhs_property.value) > tolerance:
message = "Property " + property_name + " does not match! " + \
lhs_title + ": " + str(lhs_property.value) + ", but " + \
rhs_title + ": " + str(rhs_property.value)
@@ -98,3 +103,54 @@ def compare_properties(lhs_run, rhs_run, plist, logger):
lhs_title + " or " + rhs_title + " - skipping comparison."
logger.warning(message)
return
+
+
+def compare_mandatory(wslist, plist, logger, tolerance=0.01):
+ """
+ Compares properties which are required to be the same.
+ Produces error message and throws exception if difference is observed
+ or if one of the sample logs is not found.
+ Important: exits after the first difference is observed. No further check is performed.
+ @param wslist List of workspaces
+ @param plist List of properties to compare
+ @param logger Logger self.log()
+ @param tolerance Tolerance for comparison of the double values.
+ """
+ # retrieve the workspaces, form dictionary {wsname: run}
+ runs = {}
+ for wsname in wslist:
+ wks = api.AnalysisDataService.retrieve(wsname)
+ runs[wsname] = wks.getRun()
+
+ for prop in plist:
+ properties = []
+ for wsname in wslist:
+ run = runs[wsname]
+ if not run.hasProperty(prop):
+ message = "Workspace " + wsname + " does not have sample log " + prop
+ logger.error(message)
+ raise RuntimeError(message)
+
+ curprop = run.getProperty(prop)
+ if curprop.type == 'string':
+ properties.append(curprop.value)
+ elif curprop.type == 'number':
+ properties.append(int(curprop.value/tolerance))
+ else:
+ message = "Unknown type " + str(curprop.type) + " for the sample log " +\
+ prop + " in the workspace " + wsname
+ logger.error(message)
+ raise RuntimeError(message)
+ # this should never happen, but lets check
+ nprop = len(properties)
+ if nprop != len(wslist):
+ message = "Error. Number of properties " + str(nprop) + " for property " + prop +\
+ " is not equal to number of workspaces " + str(len(wslist))
+ logger.error(message)
+ raise RuntimeError(message)
+ pvalue = properties[0]
+ if properties.count(pvalue) != nprop:
+ message = "Sample log " + prop + " is not identical in the given list of workspaces. \n" +\
+ "Workspaces: " + ", ".join(wslist) + "\n Values: " + str(properties)
+ logger.error(message)
+ raise RuntimeError(message)
diff --git a/Framework/PythonInterface/test/python/plugins/algorithms/CMakeLists.txt b/Framework/PythonInterface/test/python/plugins/algorithms/CMakeLists.txt
index de4e7b03fe0ea0b3a6254c43932631235a9777d0..512bbcf54bb99005c226817590357887ddf922e3 100644
--- a/Framework/PythonInterface/test/python/plugins/algorithms/CMakeLists.txt
+++ b/Framework/PythonInterface/test/python/plugins/algorithms/CMakeLists.txt
@@ -76,6 +76,7 @@ set ( TEST_PY_FILES
SANSSubtractTest.py
TimeSliceTest.py
TOFTOFCropWorkspaceTest.py
+ TOFTOFMergeRunsTest.py
TOSCABankCorrectionTest.py
TransformToIqtTest.py
ExportSampleLogsToCSVFileTest.py
diff --git a/Framework/PythonInterface/test/python/plugins/algorithms/DetectorFloodWeightingTest.py b/Framework/PythonInterface/test/python/plugins/algorithms/DetectorFloodWeightingTest.py
index 64167eec36dcf9ad6c674f1a367c0180d6965fe1..b2ca793e6254f263fb1d48b216104cfcf7f6b3fc 100644
--- a/Framework/PythonInterface/test/python/plugins/algorithms/DetectorFloodWeightingTest.py
+++ b/Framework/PythonInterface/test/python/plugins/algorithms/DetectorFloodWeightingTest.py
@@ -1,5 +1,6 @@
import unittest
from mantid.api import AlgorithmManager
+from mantid.simpleapi import CreateSampleWorkspace, DeleteWorkspace
class DetectorFloodWeightingTest(unittest.TestCase):
@@ -47,10 +48,11 @@ class DetectorFloodWeightingTest(unittest.TestCase):
alg.setPropertyValue("OutputWorkspace", "dummy")
self.assertRaises(RuntimeError, alg.execute)
- def test_execute_single(self):
+ def test_execute_single_no_solid_angle(self):
alg = AlgorithmManager.create("DetectorFloodWeighting")
alg.setChild(True)
alg.initialize()
+ alg.setProperty("SolidAngleCorrection", False)
signal_value = 2
in_ws = self._create_ws(units="Wavelength", signal_value=signal_value, data_x=range(0,10,1))
alg.setProperty("InputWorkspace", in_ws)
@@ -69,12 +71,23 @@ class DetectorFloodWeightingTest(unittest.TestCase):
print out_ws.readY(0)[0]
self.assertEquals(out_ws.readY(0)[0], 1.0)
+ def test_execute_single_with_solid_angle(self):
+ alg = AlgorithmManager.create("DetectorFloodWeighting")
+ alg.setChild(True)
+ alg.initialize()
+ alg.setProperty("SolidAngleCorrection", True)
+ signal_value = 2
+ in_ws = CreateSampleWorkspace(NumBanks=1, XUnit="Wavelength")
+ alg.setProperty("InputWorkspace", in_ws)
+ bands = [1,10]
+ alg.setProperty("Bands", bands) # One band
+ alg.setPropertyValue("OutputWorkspace", "dummy")
+ alg.execute()
-
-
-
-
-
+ out_ws = alg.getProperty("OutputWorkspace").value
+ self.assertEqual(1, out_ws.blocksize())
+ self.assertEqual("Wavelength", out_ws.getAxis(0).getUnit().unitID())
+ self.assertEqual(in_ws.getNumberHistograms(), out_ws.getNumberHistograms(), msg="Number of histograms should be unchanged.")
if __name__ == '__main__':
diff --git a/Framework/PythonInterface/test/python/plugins/algorithms/TOFTOFMergeRunsTest.py b/Framework/PythonInterface/test/python/plugins/algorithms/TOFTOFMergeRunsTest.py
new file mode 100644
index 0000000000000000000000000000000000000000..3e0b4dac93aa19f9044bba5ab938da751a5f231c
--- /dev/null
+++ b/Framework/PythonInterface/test/python/plugins/algorithms/TOFTOFMergeRunsTest.py
@@ -0,0 +1,93 @@
+import unittest
+from mantid.simpleapi import Load, DeleteWorkspace, AddSampleLogMultiple, \
+ DeleteLog
+from testhelpers import run_algorithm
+from mantid.api import AnalysisDataService
+
+
+class TOFTOFMergeRunsTest(unittest.TestCase):
+
+ def setUp(self):
+ input_ws = Load(Filename="TOFTOFTestdata.nxs")
+ self._input_ws_base = input_ws
+ self._input_good = input_ws
+ AddSampleLogMultiple(Workspace=self._input_good, LogNames=['run_number'], LogValues=[001])
+
+ self._input_bad_entry = input_ws+0
+ # remove a compulsory entry in Logs
+ DeleteLog(self._input_bad_entry, 'duration')
+
+ self._input_bad_value = input_ws+0
+ AddSampleLogMultiple(Workspace=self._input_bad_value, LogNames=['wavelength'], LogValues=[0.])
+
+ def test_success(self):
+ OutputWorkspaceName = "output_ws"
+ Inputws = "%s, %s" % (self._input_ws_base.name(), self._input_good.name())
+
+ alg_test = run_algorithm("TOFTOFMergeRuns",
+ InputWorkspaces=Inputws,
+ OutputWorkspace=OutputWorkspaceName)
+ self.assertTrue(alg_test.isExecuted())
+
+ wsoutput = AnalysisDataService.retrieve(OutputWorkspaceName)
+
+ run_out = wsoutput.getRun()
+ run_in = self._input_ws_base.getRun()
+ self.assertEqual(run_out.getLogData('wavelength').value, run_in.getLogData('wavelength').value)
+ self.assertEqual(run_out.getLogData('chopper_speed').value, run_in.getLogData('chopper_speed').value)
+ self.assertEqual(run_out.getLogData('chopper_ratio').value, run_in.getLogData('chopper_ratio').value)
+ self.assertEqual(run_out.getLogData('channel_width').value, run_in.getLogData('channel_width').value)
+ self.assertEqual(run_out.getLogData('Ei').value, run_in.getLogData('Ei').value)
+ self.assertEqual(run_out.getLogData('EPP').value, run_in.getLogData('EPP').value)
+ self.assertEqual(run_out.getLogData('proposal_number').value, run_in.getLogData('proposal_number').value)
+ self.assertEqual(run_out.getLogData('proposal_title').value, run_in.getLogData('proposal_title').value)
+ self.assertEqual(run_out.getLogData('mode').value, run_in.getLogData('mode').value)
+ self.assertEqual(run_out.getLogData('experiment_team').value, run_in.getLogData('experiment_team').value)
+
+ run_in_good = self._input_good.getRun()
+ self.assertEqual(run_out.getLogData('run_number').value,
+ str([run_in.getLogData('run_number').value, run_in_good.getLogData('run_number').value]))
+
+ self.assertEqual(run_out.getLogData('temperature').value, float(run_in.getLogData('temperature').value))
+ self.assertEqual(run_out.getLogData('duration').value,
+ float(run_in.getLogData('duration').value) + float(run_in_good.getLogData('duration').value))
+ self.assertEqual(run_out.getLogData('run_start').value, run_in.getLogData('run_start').value)
+ self.assertEqual(run_out.getLogData('run_end').value, run_in.getLogData('run_end').value)
+ self.assertEqual(run_out.getLogData('full_channels').value, run_in.getLogData('full_channels').value)
+ self.assertEqual(run_out.getLogData('monitor_counts').value, 2*int(run_in.getLogData('monitor_counts').value))
+ # Dimension output workspace
+ self.assertEqual(wsoutput.getNumberHistograms(), self._input_ws_base.getNumberHistograms())
+ self.assertEqual(wsoutput.blocksize(), self._input_ws_base.blocksize())
+ # check instrument
+ self.assertEqual(wsoutput.getInstrument().getName(), "TOFTOF")
+
+ AnalysisDataService.remove("output_ws")
+
+ def test_failed(self):
+ """
+ Failed tests because of missing keys or different values
+ """
+ OutputWorkspaceName = "output_ws"
+ Inputws_badvalue = "%s, %s" % (self._input_ws_base.name(), self._input_bad_value.name())
+ self.assertRaises(RuntimeError,
+ run_algorithm, 'TOFTOFMergeRuns',
+ InputWorkspaces=Inputws_badvalue,
+ OutputWorkspace=OutputWorkspaceName,
+ rethrow=True)
+
+ Inputws_badentry = "%s, %s" % (self._input_ws_base.name(), self._input_bad_entry.name())
+ self.assertRaises(RuntimeError,
+ run_algorithm, 'TOFTOFMergeRuns',
+ InputWorkspaces=Inputws_badentry,
+ OutputWorkspace=OutputWorkspaceName,
+ rethrow=True)
+
+ if "output_ws" is not None:
+ AnalysisDataService.remove("output_ws")
+
+ def cleanUp(self):
+ if self._input_ws_base is not None:
+ DeleteWorkspace(self._input_ws_base)
+
+if __name__ == "__main__":
+ unittest.main()
diff --git a/Framework/SINQ/src/LoadFlexiNexus.cpp b/Framework/SINQ/src/LoadFlexiNexus.cpp
index 2bb6ca7cd7c68e2f318925b7e6852205c334abd5..d589ce89c86d6df3055e64532ff7ba7071916091 100644
--- a/Framework/SINQ/src/LoadFlexiNexus.cpp
+++ b/Framework/SINQ/src/LoadFlexiNexus.cpp
@@ -5,7 +5,6 @@
#include "MantidGeometry/MDGeometry/MDTypes.h"
#include "MantidDataObjects/MDHistoWorkspace.h"
#include "MantidKernel/Utils.h"
-#include <iostream>
#include <fstream>
#include <sstream>
#include <boost/algorithm/string.hpp>
diff --git a/Framework/SINQ/src/MDHistoToWorkspace2D.cpp b/Framework/SINQ/src/MDHistoToWorkspace2D.cpp
index 25153f13116175287ce20080935335240801e021..2433e266d31d3c8c4e2320b3d07579760c6d05f0 100644
--- a/Framework/SINQ/src/MDHistoToWorkspace2D.cpp
+++ b/Framework/SINQ/src/MDHistoToWorkspace2D.cpp
@@ -13,7 +13,6 @@
#include "MantidAPI/IMDHistoWorkspace.h"
#include <cmath>
-#include <iostream>
// Register the algorithm into the AlgorithmFactory
DECLARE_ALGORITHM(MDHistoToWorkspace2D)
diff --git a/Framework/SINQ/src/SINQHMListener.cpp b/Framework/SINQ/src/SINQHMListener.cpp
index d8434b56b5cb7b3ab127f952316e51dfee9aeab3..fd449cb9648dd54cadb67cea330d91aa46ed5fcd 100644
--- a/Framework/SINQ/src/SINQHMListener.cpp
+++ b/Framework/SINQ/src/SINQHMListener.cpp
@@ -4,7 +4,6 @@
* Created on: Nov 14, 2012
* Author: mark.koennecke@psi.ch
*/
-#include <iostream>
#include <sstream>
#include "MantidAPI/LiveListenerFactory.h"
diff --git a/Framework/TestHelpers/inc/MantidTestHelpers/FakeObjects.h b/Framework/TestHelpers/inc/MantidTestHelpers/FakeObjects.h
index d114a1ee434bb7a670fe77d3f9a9a90af498da6d..b9c906a2804d32c3049699391f332ba19d3fa9c3 100644
--- a/Framework/TestHelpers/inc/MantidTestHelpers/FakeObjects.h
+++ b/Framework/TestHelpers/inc/MantidTestHelpers/FakeObjects.h
@@ -18,19 +18,19 @@
* Author: Janik Zikovsky
*/
+#include <fstream>
+#include <map>
+#include <string>
+
#include "MantidAPI/ISpectrum.h"
#include "MantidAPI/ITableWorkspace.h"
#include "MantidAPI/MatrixWorkspace.h"
-#include "MantidKernel/cow_ptr.h"
#include "MantidAPI/RefAxis.h"
#include "MantidAPI/SpectraAxis.h"
#include "MantidGeometry/Instrument.h"
#include "MantidGeometry/Instrument/DetectorGroup.h"
#include "MantidGeometry/Instrument/INearestNeighbours.h"
-#include <iostream>
-#include <fstream>
-#include <map>
-#include <string>
+#include "MantidKernel/cow_ptr.h"
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/Framework/TestHelpers/inc/MantidTestHelpers/ScopedFileHelper.h b/Framework/TestHelpers/inc/MantidTestHelpers/ScopedFileHelper.h
index e1701b8e755d30b6d97e22cd57d4cddecd5cec98..430cba7905b24eff879ea925528431386c272253 100644
--- a/Framework/TestHelpers/inc/MantidTestHelpers/ScopedFileHelper.h
+++ b/Framework/TestHelpers/inc/MantidTestHelpers/ScopedFileHelper.h
@@ -1,12 +1,13 @@
//------------------------------------------------------------------------------
// Includes
//------------------------------------------------------------------------------
-#include <string>
-#include <iostream>
#include <fstream>
-#include <Poco/Path.h>
+#include <string>
+
#include "MantidKernel/ConfigService.h"
+#include <Poco/Path.h>
+
namespace ScopedFileHelper {
/** File object type. Provides exception save file creation/destruction.
diff --git a/Framework/TestHelpers/src/LoggingCleaner.cpp b/Framework/TestHelpers/src/LoggingCleaner.cpp
index 7e6bcdaef45e5d3d25e7872759a2e4ce215c06e8..81b7cead7dcce200d1711df3f7a0846dfd5c4231 100644
--- a/Framework/TestHelpers/src/LoggingCleaner.cpp
+++ b/Framework/TestHelpers/src/LoggingCleaner.cpp
@@ -1,5 +1,4 @@
#include "MantidKernel/Logger.h"
-#include <iostream>
class LoggingCleaner {
public:
diff --git a/MantidPlot/src/CanvasPicker.cpp b/MantidPlot/src/CanvasPicker.cpp
index 2e918d8e064e3c9ad54900ec84662cafb6205846..96b5f6f4f3269e6226602ab49465c56be6f1709e 100644
--- a/MantidPlot/src/CanvasPicker.cpp
+++ b/MantidPlot/src/CanvasPicker.cpp
@@ -39,7 +39,6 @@
#include <QVector>
#include <qwt_text_label.h>
#include <qwt_plot_canvas.h>
-//#include <iostream>
CanvasPicker::CanvasPicker(Graph *graph):
QObject(graph)
diff --git a/MantidPlot/src/Graph.cpp b/MantidPlot/src/Graph.cpp
index 4896dda0ac8f5465a4115391ded20133c46cac61..db3b3e6fcd290c43819c2df94f5f38d021aee8a4 100644
--- a/MantidPlot/src/Graph.cpp
+++ b/MantidPlot/src/Graph.cpp
@@ -107,7 +107,6 @@
#include <stdlib.h>
#include <stdio.h>
#include <stddef.h>
-#include <iostream>
// We can safely ignore warnings about assuming signed overflow does not occur from qvector.h
// (They really should have implemented it with unsigned types!
diff --git a/MantidPlot/src/ImportASCIIDialog.cpp b/MantidPlot/src/ImportASCIIDialog.cpp
index c93828a254594e8a1b6f68ab3d0b7fd17e373427..44c2ff0105b2c0636fe4a8fcebce9f9dbdcb0dcd 100644
--- a/MantidPlot/src/ImportASCIIDialog.cpp
+++ b/MantidPlot/src/ImportASCIIDialog.cpp
@@ -46,7 +46,6 @@
#include <QHeaderView>
#include <gsl/gsl_math.h>
-#include<iostream>
ImportASCIIDialog::ImportASCIIDialog(bool new_windows_only, QWidget * parent, bool extended, Qt::WFlags flags )
: ExtensibleFileDialog(parent, extended, flags )
diff --git a/MantidPlot/src/LegendWidget.cpp b/MantidPlot/src/LegendWidget.cpp
index d17de38685353e8b345e06f214dc8afb5d20038f..b11a10f70fd5790cb42c0ce7bb97b793f9203562 100644
--- a/MantidPlot/src/LegendWidget.cpp
+++ b/MantidPlot/src/LegendWidget.cpp
@@ -45,7 +45,6 @@
#include <qwt_layout_metrics.h>
#include <qwt_symbol.h>
-#include <iostream>
LegendWidget::LegendWidget(Plot *plot):QWidget(plot),
d_plot(plot),
diff --git a/MantidPlot/src/Mantid/AlgorithmHistoryWindow.cpp b/MantidPlot/src/Mantid/AlgorithmHistoryWindow.cpp
index 3a3b77c8fd9c788f9f46b7b025966ebbf9909c42..54bd5afaec5e3c1f91ef237834b4d8d3626b8308 100644
--- a/MantidPlot/src/Mantid/AlgorithmHistoryWindow.cpp
+++ b/MantidPlot/src/Mantid/AlgorithmHistoryWindow.cpp
@@ -19,7 +19,6 @@
#include <QDir>
#include <numeric>
-#include <iostream>
#include <fstream>
#include <stdio.h>
diff --git a/MantidPlot/src/Mantid/AlgorithmMonitor.cpp b/MantidPlot/src/Mantid/AlgorithmMonitor.cpp
index 04364ef9d714cf1906b8061f77ce398dfc9a1111..5b4ffee3981e6414ebcc919bc80ebb93873f75e8 100644
--- a/MantidPlot/src/Mantid/AlgorithmMonitor.cpp
+++ b/MantidPlot/src/Mantid/AlgorithmMonitor.cpp
@@ -8,7 +8,6 @@
#include <QtGui>
#include <QThread>
-#include <iostream>
#include <algorithm>
using namespace std;
diff --git a/MantidPlot/src/Mantid/FitParameterTie.cpp b/MantidPlot/src/Mantid/FitParameterTie.cpp
index 928315ab13ef0ca142b535fe3e2db67c1a74e247..28bdb2c7bc4fbed6c23d4ed7e02c32d6ef078c71 100644
--- a/MantidPlot/src/Mantid/FitParameterTie.cpp
+++ b/MantidPlot/src/Mantid/FitParameterTie.cpp
@@ -2,7 +2,6 @@
#include "MantidAPI/CompositeFunction.h"
#include <QRegExp>
#include <stdexcept>
-#include <iostream>
/// Constructor
FitParameterTie::FitParameterTie(boost::shared_ptr<Mantid::API::CompositeFunction> cf)
diff --git a/MantidPlot/src/Mantid/InputHistory.cpp b/MantidPlot/src/Mantid/InputHistory.cpp
index 9487afac9e6d080a582f193d7bd9795e4ec12187..3b0da1e014ed39f61c1bd199d0ffe0890727a769 100644
--- a/MantidPlot/src/Mantid/InputHistory.cpp
+++ b/MantidPlot/src/Mantid/InputHistory.cpp
@@ -3,7 +3,6 @@
#include <QSettings>
#include <vector>
-#include <iostream>
using namespace Mantid::API;
using namespace Mantid::Kernel;
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/CollapsiblePanel.cpp b/MantidPlot/src/Mantid/InstrumentWidget/CollapsiblePanel.cpp
index 1aa71735f6e784ad9d982caf55f25155722ca9bd..6876cced0e8ccadf8e4d76c0dae2bc8f0c23eb87 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/CollapsiblePanel.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/CollapsiblePanel.cpp
@@ -6,7 +6,6 @@
#include <QPolygon>
#include <stdexcept>
-#include <iostream>
CaptionLabel::CaptionLabel(const QString& caption,QWidget* parent):QLabel(caption,parent),m_collapsed(false)
{
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/GLActorCollection.cpp b/MantidPlot/src/Mantid/InstrumentWidget/GLActorCollection.cpp
index ad3abc03981b6faef83220de41f85f927b4fa08c..b023799998cf149676534041c557d4df7a28ebd6 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/GLActorCollection.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/GLActorCollection.cpp
@@ -5,7 +5,6 @@
#include "MantidKernel/Exception.h"
#include <stdexcept>
-#include <iostream>
#include <functional>
#include <algorithm>
#include <float.h>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/GLColor.cpp b/MantidPlot/src/Mantid/InstrumentWidget/GLColor.cpp
index a7fe4c671ca1e83893816939532eab28202aa57b..2c232127ba143b343e6320f33c974a4382d256ff 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/GLColor.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/GLColor.cpp
@@ -4,6 +4,8 @@
#include "GLColor.h"
#include "MantidGeometry/Rendering/OpenGL_Headers.h"
+#include <iostream>
+
/**
* Default Constructor
* @param red :: The red component of the RGB colour
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/GLColor.h b/MantidPlot/src/Mantid/InstrumentWidget/GLColor.h
index 612efad0ba01a26a05abe6e403185a5dcca7832b..8bbe5681766eaff40f8c4bc03c7065535481cc13 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/GLColor.h
+++ b/MantidPlot/src/Mantid/InstrumentWidget/GLColor.h
@@ -1,7 +1,7 @@
#ifndef GLCOLOR_H_
#define GLCOLOR_H_
-#include <iostream>
+#include <iosfwd>
/**
\class GLColor
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/GLObject.cpp b/MantidPlot/src/Mantid/InstrumentWidget/GLObject.cpp
index 87815c5cf413272d650f3aab450c0300440354cf..f93d0d9e942e48c16b2795256bcaf30f9bdee588 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/GLObject.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/GLObject.cpp
@@ -5,7 +5,6 @@
#include "ObjCompAssemblyActor.h"
#include "MantidKernel/Exception.h"
#include "MantidKernel/System.h"
-#include <iostream>
int icount;
GLObject::GLObject(bool withDisplayList,const std::string& name):mName(name), mChanged(true)
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/InstrumentTreeWidget.cpp b/MantidPlot/src/Mantid/InstrumentWidget/InstrumentTreeWidget.cpp
index d725f60827949f724eee0152ddc0578c5e16a4cd..1b9cd0ce1eafb79f97f334cfaca7f75eb6c78fe1 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/InstrumentTreeWidget.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/InstrumentTreeWidget.cpp
@@ -12,7 +12,6 @@
#include <QMessageBox>
#include <QString>
#include <cfloat>
-#include <iostream>
InstrumentTreeWidget::InstrumentTreeWidget(QWidget *w):QTreeView(w), m_instrActor(NULL), m_treeModel(NULL)
{
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/MantidGLWidget.cpp b/MantidPlot/src/Mantid/InstrumentWidget/MantidGLWidget.cpp
index 9fea8e14de806cabe6faeb579156b03f33cb1dd3..dcd5dfc856a00b5b23900a0b88fea4af1e773d19 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/MantidGLWidget.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/MantidGLWidget.cpp
@@ -15,7 +15,6 @@
#include <map>
#include <string>
-#include <iostream>
#include <cfloat>
#include <typeinfo>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/OneCurvePlot.cpp b/MantidPlot/src/Mantid/InstrumentWidget/OneCurvePlot.cpp
index ea8e944da9099156c470d2fd8454272e96f7891b..090cde16df102ee36381f572326b508b332454e3 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/OneCurvePlot.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/OneCurvePlot.cpp
@@ -16,7 +16,6 @@
#include <QPainter>
#include <QFont>
-#include <iostream>
#include <cmath>
OneCurvePlot::OneCurvePlot(QWidget* parent):
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/OpenGLError.cpp b/MantidPlot/src/Mantid/InstrumentWidget/OpenGLError.cpp
index e8cea2ea006df06912600df2cb708f998ce0f88f..8da241a02ea906a903b8742b08ca3c812e99e00f 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/OpenGLError.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/OpenGLError.cpp
@@ -1,5 +1,4 @@
#include "OpenGLError.h"
-#include <iostream>
#include <sstream>
#include "MantidKernel/Logger.h"
#include "MantidGeometry/Rendering/OpenGL_Headers.h"
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/PeakMarker2D.cpp b/MantidPlot/src/Mantid/InstrumentWidget/PeakMarker2D.cpp
index e7c5915aea5925c316a306b4db337360b1a3d0b2..99135d6c0b948016cac8b2109721c52eb4cb27f6 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/PeakMarker2D.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/PeakMarker2D.cpp
@@ -7,7 +7,6 @@
#include <QMouseEvent>
#include <QWheelEvent>
-#include <iostream>
#include <algorithm>
#include <stdexcept>
#include <cmath>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/Projection3D.cpp b/MantidPlot/src/Mantid/InstrumentWidget/Projection3D.cpp
index d02948d9a19c79fe9251eef460285871c14a0e53..688652c8c9e7cdaba8bafa19adc2f8fbd9e9632a 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/Projection3D.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/Projection3D.cpp
@@ -23,7 +23,6 @@
#include <map>
#include <string>
-#include <iostream>
#include <cfloat>
#include <algorithm>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/Shape2D.cpp b/MantidPlot/src/Mantid/InstrumentWidget/Shape2D.cpp
index 0a40a6ff188c653ab6e139072d4222438edba486..bb5d301443a4fe282d1975a18a132873a43e21df 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/Shape2D.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/Shape2D.cpp
@@ -8,7 +8,6 @@
#include <QLine>
#include <QMap>
-#include <iostream>
#include <algorithm>
#include <stdexcept>
#include <cmath>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/Shape2DCollection.cpp b/MantidPlot/src/Mantid/InstrumentWidget/Shape2DCollection.cpp
index dcbb04b15d4e764292ac601c3cffcda4c42b11ae..f2c380116003a2f527969cd3420e481512cbdc5b 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/Shape2DCollection.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/Shape2DCollection.cpp
@@ -7,7 +7,6 @@
#include <QApplication>
#include <QStringList>
-#include <iostream>
#include <stdexcept>
#include <cmath>
diff --git a/MantidPlot/src/Mantid/InstrumentWidget/Viewport.cpp b/MantidPlot/src/Mantid/InstrumentWidget/Viewport.cpp
index fe0de8deb055bc5721ab9bbc5df3eec66ff61e4d..1c1c1cce8e769f9a132a535867b0ca279c79a35f 100644
--- a/MantidPlot/src/Mantid/InstrumentWidget/Viewport.cpp
+++ b/MantidPlot/src/Mantid/InstrumentWidget/Viewport.cpp
@@ -1,6 +1,5 @@
#include "Viewport.h"
#include <math.h>
-#include <iostream>
#include "MantidGeometry/Rendering/OpenGL_Headers.h"
#include "MantidKernel/V3D.h"
#include "OpenGLError.h"
diff --git a/MantidPlot/src/Mantid/MantidApplication.cpp b/MantidPlot/src/Mantid/MantidApplication.cpp
index 67a264b7b77f1f1be7793be6bf5c16e7a5c5d138..00d38187960f9b55ee9851b0e879cbad491d2a97 100644
--- a/MantidPlot/src/Mantid/MantidApplication.cpp
+++ b/MantidPlot/src/Mantid/MantidApplication.cpp
@@ -8,6 +8,7 @@
#include <QMessageBox>
#include <QPushButton>
+
#include <iostream>
namespace
diff --git a/MantidPlot/src/Mantid/MantidMatrix.cpp b/MantidPlot/src/Mantid/MantidMatrix.cpp
index 1bfeabebe8f9a032becd58732e730038e2dfc296..0702315186ac550a91dc62e1b6df5826e94ac62c 100644
--- a/MantidPlot/src/Mantid/MantidMatrix.cpp
+++ b/MantidPlot/src/Mantid/MantidMatrix.cpp
@@ -49,7 +49,6 @@
#include <QTabWidget>
#include <stdlib.h>
-#include <iostream>
#include <algorithm>
#include <limits>
diff --git a/MantidPlot/src/Mantid/MantidMatrix.h b/MantidPlot/src/Mantid/MantidMatrix.h
index a26a55d01a9f14ce20ce8f56b5a0280f7c04d9d1..84aed7cef4775f634683751b6ad72c058c4e60f5 100644
--- a/MantidPlot/src/Mantid/MantidMatrix.h
+++ b/MantidPlot/src/Mantid/MantidMatrix.h
@@ -1,6 +1,26 @@
#ifndef MANTIDMATRIX_H
#define MANTIDMATRIX_H
+#include <map>
+#include <math.h>
+#include <string>
+
+#include "MantidMatrixExtensionRequest.h"
+#include "MantidMatrixModel.h"
+#include "MantidMatrixTabExtension.h"
+
+#include "Mantid/IProjectSerialisable.h"
+#include "MantidAPI/AnalysisDataService.h"
+#include "MantidAPI/FrameworkManager.h"
+#include "MantidAPI/MatrixWorkspace_fwd.h"
+#include "MantidQtAPI/WorkspaceObserver.h"
+#include "../ContourLinesEditor.h"
+#include "../Graph.h"
+#include "../MdiSubWindow.h"
+#include "../UserFunction.h"
+
+#include <Poco/NObserver.h>
+
#include <QHeaderView>
#include <QTableView>
#include <QPrinter>
@@ -11,32 +31,9 @@
#include <QMap>
#include <QPointer>
-#include <Poco/NObserver.h>
-
-#include "MantidAPI/MatrixWorkspace_fwd.h"
-#include "MantidAPI/AnalysisDataService.h"
-#include "../UserFunction.h"
-#include "../MdiSubWindow.h"
-#include "../Graph.h"
-#include "MantidQtAPI/WorkspaceObserver.h"
-#include "Mantid/IProjectSerialisable.h"
-
#include <qwt_double_rect.h>
#include <qwt_color_map.h>
-#include <math.h>
-#include <string>
-#include <iostream>
-#include <map>
-
-#include "MantidAPI/FrameworkManager.h"
-#include "../ContourLinesEditor.h"
-
-#include "MantidMatrixExtensionRequest.h"
-#include "MantidMatrixModel.h"
-#include "MantidMatrixTabExtension.h"
-
-
class QLabel;
class QStackedWidget;
class QShortcut;
diff --git a/MantidPlot/src/Mantid/MantidSampleLogDialog.cpp b/MantidPlot/src/Mantid/MantidSampleLogDialog.cpp
index 75d103842c8439fd2fbb44d37adcfa4b29c259b0..7e5969971fe53fce5369bf8ad52f4b959d085be1 100644
--- a/MantidPlot/src/Mantid/MantidSampleLogDialog.cpp
+++ b/MantidPlot/src/Mantid/MantidSampleLogDialog.cpp
@@ -20,7 +20,6 @@
#include <QRadioButton>
#include <QFileInfo>
#include <QMessageBox>
-#include <iostream>
#include <sstream>
#include "MantidAPI/ExperimentInfo.h"
#include "MantidAPI/MultipleExperimentInfos.h"
diff --git a/MantidPlot/src/Mantid/MantidTable.cpp b/MantidPlot/src/Mantid/MantidTable.cpp
index de0d7ddf84284a23f0317a2f6706c59727fff950..722da9ddc3519154666b378b65b8d86c072d0549 100644
--- a/MantidPlot/src/Mantid/MantidTable.cpp
+++ b/MantidPlot/src/Mantid/MantidTable.cpp
@@ -10,7 +10,6 @@
#include <QMessageBox>
#include <QHash>
-#include <iostream>
#include <qfontmetrics.h>
using namespace MantidQt::API;
diff --git a/MantidPlot/src/Mantid/MantidUI.cpp b/MantidPlot/src/Mantid/MantidUI.cpp
index 57ff719e17bc3fd07f193f9f5c3b20f7e6bfee5c..d076bdf157480feeeb4f10b4ff922a8c1a7c90e4 100644
--- a/MantidPlot/src/Mantid/MantidUI.cpp
+++ b/MantidPlot/src/Mantid/MantidUI.cpp
@@ -68,7 +68,6 @@
#include <locale>
#include <set>
#include <fstream>
-#include <iostream>
#include <sstream>
#include <boost/tokenizer.hpp>
diff --git a/MantidPlot/src/Mantid/PeakPickerTool.cpp b/MantidPlot/src/Mantid/PeakPickerTool.cpp
index 2b5f31ed2bc51a2af4b37429a6176a008c24d6e4..0e071aa584dd73b7adaa756478eaabb70c859273 100644
--- a/MantidPlot/src/Mantid/PeakPickerTool.cpp
+++ b/MantidPlot/src/Mantid/PeakPickerTool.cpp
@@ -22,7 +22,6 @@
#include <QInputDialog>
#include <QMessageBox>
-#include <iostream>
namespace
{
diff --git a/MantidPlot/src/Mantid/UserFitFunctionDialog.cpp b/MantidPlot/src/Mantid/UserFitFunctionDialog.cpp
index eee79fa5b3a03980875658b2bc2ab34e142fa100..0814da59551452e138cd5f902fd2f43905eb3a33 100644
--- a/MantidPlot/src/Mantid/UserFitFunctionDialog.cpp
+++ b/MantidPlot/src/Mantid/UserFitFunctionDialog.cpp
@@ -7,7 +7,6 @@
#include <qcheckbox.h>
#include <qmessagebox.h>
#include <qheaderview.h>
-#include <iostream>
//---------------------------------------
// Public member functions
diff --git a/MantidPlot/src/PythonScript.cpp b/MantidPlot/src/PythonScript.cpp
index 23717ada1dba6da691120c87e945f34295fce876..a83c5a096e4263f5e624afbbbed2ba2f5645a962 100644
--- a/MantidPlot/src/PythonScript.cpp
+++ b/MantidPlot/src/PythonScript.cpp
@@ -39,7 +39,6 @@
#include <QVariant>
#include <QMessageBox>
-#include <iostream>
#include <stdexcept>
diff --git a/MantidPlot/src/Spectrogram.cpp b/MantidPlot/src/Spectrogram.cpp
index ece80d7b100332f706b13ad4a60a7d516e7de05b..db3ab2aaa13618f36329caf4fa1f9918c9e69fad 100644
--- a/MantidPlot/src/Spectrogram.cpp
+++ b/MantidPlot/src/Spectrogram.cpp
@@ -46,7 +46,6 @@
#include "TSVSerialiser.h"
-#include <iostream>
#include <numeric>
Spectrogram::Spectrogram():
diff --git a/MantidPlot/src/origin/OPJFile.cpp b/MantidPlot/src/origin/OPJFile.cpp
index 4a37431010cf8227260a305495d68edbddf115b8..c0eaf257564f31fb9b64b0ffd2f0ac8fb75696b6 100644
--- a/MantidPlot/src/origin/OPJFile.cpp
+++ b/MantidPlot/src/origin/OPJFile.cpp
@@ -51,7 +51,6 @@
#endif
#include <stdio.h>
-#include <iostream>
#include <stdlib.h>
#include <math.h>
#include <cstring>
diff --git a/MantidPlot/src/pixmaps.cpp b/MantidPlot/src/pixmaps.cpp
index ddb37192d961e4258e27d187fe1fc5ef72ea7aa6..75faddbc7aebf93d8e47a4779b26f8ffe73fb07c 100644
--- a/MantidPlot/src/pixmaps.cpp
+++ b/MantidPlot/src/pixmaps.cpp
@@ -6,7 +6,6 @@
*/
#include "pixmaps.h"
-#include <iostream>
#include <sstream>
#include <stdexcept>
diff --git a/MantidQt/API/inc/MantidQtAPI/Message.h b/MantidQt/API/inc/MantidQtAPI/Message.h
index c14f3a1fd7adab22e8c8ca8bcb1d494179fc9b99..6ce90fd89149090e3aed2b73247b6cba9d538d10 100644
--- a/MantidQt/API/inc/MantidQtAPI/Message.h
+++ b/MantidQt/API/inc/MantidQtAPI/Message.h
@@ -12,8 +12,6 @@
#include <QObject>
#include <QString>
-#include <iostream>
-
//----------------------------------------------------------
// Forward declarations
//----------------------------------------------------------
diff --git a/MantidQt/API/src/UserSubWindow.cpp b/MantidQt/API/src/UserSubWindow.cpp
index 4c9354d8f67228ad51da3ea29e94ed5b04c76b43..6dace365d7f4fcdb8535a853873e8c3ac22c9547 100644
--- a/MantidQt/API/src/UserSubWindow.cpp
+++ b/MantidQt/API/src/UserSubWindow.cpp
@@ -12,8 +12,6 @@
#include <QTemporaryFile>
#include <QTextStream>
-#include <iostream>
-
using namespace MantidQt::API;
//------------------------------------------------------
diff --git a/MantidQt/API/test/MantidColorMapTest.h b/MantidQt/API/test/MantidColorMapTest.h
index 0c2af82d2111505cc7474e1ccc8ac09b3345be67..21cacf06e872d7fdd7a4146732f25df254882f63 100644
--- a/MantidQt/API/test/MantidColorMapTest.h
+++ b/MantidQt/API/test/MantidColorMapTest.h
@@ -2,8 +2,6 @@
#define MANTIDQT_API_MANTIDCOLORMAPTEST_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include "MantidQtAPI/MantidColorMap.h"
#include <limits>
#include <QRgb>
diff --git a/MantidQt/API/test/QwtWorkspaceSpectrumDataTest.h b/MantidQt/API/test/QwtWorkspaceSpectrumDataTest.h
index d86d2e172bf10fde39a8de066bf272ec40d65018..a0a0dd32aefbbafb4fbab1362a033b5e3c0e99bc 100644
--- a/MantidQt/API/test/QwtWorkspaceSpectrumDataTest.h
+++ b/MantidQt/API/test/QwtWorkspaceSpectrumDataTest.h
@@ -2,8 +2,6 @@
#define MANTIDQT_API_MANTIDQWTWORKSPACESPECTRUMDATA_H_
#include <cxxtest/TestSuite.h>
-#include <iostream>
-#include <iomanip>
#include <limits>
#include <QRgb>
#include "MantidAPI/MatrixWorkspace.h"
diff --git a/MantidQt/CustomInterfaces/CMakeLists.txt b/MantidQt/CustomInterfaces/CMakeLists.txt
index ada8021d700646e914d4bbe412a8e155037d3058..be571e64c996a33e8e2b1b6535783bbb32c3a6e6 100644
--- a/MantidQt/CustomInterfaces/CMakeLists.txt
+++ b/MantidQt/CustomInterfaces/CMakeLists.txt
@@ -90,7 +90,11 @@ set ( SRC_FILES
src/SANSPlotSpecial.cpp
src/SANSRunWindow.cpp
src/StepScan.cpp
+ src/Tomography/ImageROIPresenter.cpp
+ src/Tomography/ImageROIViewQtWidget.cpp
+ src/Tomography/ImageStackPreParams.cpp
src/Tomography/SavuConfigDialog.cpp
+ src/Tomography/StackOfImagesDirs.cpp
src/Tomography/TomographyIfaceModel.cpp
src/Tomography/TomographyIfacePresenter.cpp
src/Tomography/TomographyIfaceViewQtGUI.cpp
@@ -205,8 +209,14 @@ set ( INC_FILES
inc/MantidQtCustomInterfaces/SANSPlotSpecial.h
inc/MantidQtCustomInterfaces/SANSRunWindow.h
inc/MantidQtCustomInterfaces/StepScan.h
+ inc/MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h
+ inc/MantidQtCustomInterfaces/Tomography/IImageROIView.h
+ inc/MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h
+ inc/MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h
+ inc/MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h
inc/MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h
inc/MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h
+ inc/MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h
inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceModel.h
@@ -308,6 +318,7 @@ set ( MOC_FILES inc/MantidQtCustomInterfaces/Background.h
inc/MantidQtCustomInterfaces/SANSEventSlicing.h
inc/MantidQtCustomInterfaces/SANSDiagnostics.h
inc/MantidQtCustomInterfaces/StepScan.h
+ inc/MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h
inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h
inc/MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h
@@ -370,6 +381,7 @@ set ( UI_FILES inc/MantidQtCustomInterfaces/DataComparison.ui
inc/MantidQtCustomInterfaces/SANSRunWindow.ui
inc/MantidQtCustomInterfaces/SANSEventSlicing.ui
inc/MantidQtCustomInterfaces/StepScan.ui
+ inc/MantidQtCustomInterfaces/Tomography/ImageSelectCoRAndRegions.ui
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtGUI.ui
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabSetup.ui
inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabRun.ui
@@ -386,12 +398,14 @@ set ( TEST_FILES
ALCPeakFittingModelTest.h
ALCPeakFittingPresenterTest.h
EnggDiffractionPresenterTest.h
+ ImageROIPresenterTest.h
IO_MuonGroupingTest.h
MuonAnalysisHelperTest.h
ParseKeyValueStringTest.h
ReflGenerateNotebookTest.h
ReflLegacyTransferStrategyTest.h
ReflMainViewPresenterTest.h
+ StackOfImagesDirsTest.h
TomographyIfacePresenterTest.h
UserInputValidatorTest.h
)
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCBaselineModellingView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCBaselineModellingView.h
index a6b72f65f76b91c92af1c62d53bac166a5cff6ff..fe46ceea2256ad849e8c50756ee189d2a0894087 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCBaselineModellingView.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCBaselineModellingView.h
@@ -63,6 +63,7 @@ namespace CustomInterfaces
SectionRow sectionRow(int row) const;
SectionSelector sectionSelector(int index) const;
int noOfSectionRows() const;
+ void emitFitRequested();
public slots:
void initialize();
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingPresenter.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingPresenter.h
index 547a57a971839b7bc5c39b0e742665ed0f7ee1c2..11ea73759178593c49edddf88f4d7e72c64ba15d 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingPresenter.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingPresenter.h
@@ -60,6 +60,10 @@ namespace CustomInterfaces
/// Updates the list of logs and number of periods
void updateAvailableInfo();
+ signals:
+ /// Signal emitted when data get changed
+ void dataChanged();
+
private:
/// View which the object works with
IALCDataLoadingView* const m_view;
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.h
index d9329f7144829ae550b54e047e56440b3d27c514..d1a4d3042e628ec26e154f221037afcc1e25f6f9 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.h
@@ -80,9 +80,9 @@ namespace CustomInterfaces
void setAvailablePeriods(const std::vector<std::string> &periods);
void setTimeLimits(double tMin, double tMax);
void setTimeRange (double tMin, double tMax);
- void setWaitingCursor();
- void restoreCursor();
void help();
+ void disableAll();
+ void enableAll();
// -- End of IALCDataLoadingView interface -----------------------------------------------------
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.ui b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.ui
index e42aeb104219368d0f519ce7ff6cef8d6a03773c..b99c1ebe7740a26e855601f7225a099e9c69852f 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.ui
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCDataLoadingView.ui
@@ -383,7 +383,7 @@
</widget>
</item>
<item>
- <widget class="QGroupBox" name="groupBox_2">
+ <widget class="QGroupBox" name="calculationGroup">
<property name="title">
<string>Calculation</string>
</property>
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCInterface.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCInterface.h
index 9666c82a6418790fd9a1f62af32a50421f9350a0..6dadad3cdc24e69671ec2c5391c48b3b573b2c8b 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCInterface.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCInterface.h
@@ -18,9 +18,11 @@ namespace CustomInterfaces
class ALCDataLoadingPresenter;
+ class ALCBaselineModellingView;
class ALCBaselineModellingPresenter;
class ALCBaselineModellingModel;
+ class ALCPeakFittingView;
class ALCPeakFittingPresenter;
class ALCPeakFittingModel;
@@ -68,11 +70,18 @@ namespace CustomInterfaces
void exportResults();
void importResults();
+ void updateBaselineData();
+ void updatePeakData();
+
private:
/// UI form
Ui::ALCInterface m_ui;
+ // Step views
+ ALCBaselineModellingView* m_baselineModellingView;
+ ALCPeakFittingView* m_peakFittingView;
+
// Step presenters
ALCDataLoadingPresenter* m_dataLoading;
ALCBaselineModellingPresenter* m_baselineModelling;
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCPeakFittingView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCPeakFittingView.h
index c45d9fd91981e5b8a921b394a5104bcd4f56c067..1f3272f995ab1d410e07b8b3f15d7d3ce016d305 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCPeakFittingView.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/ALCPeakFittingView.h
@@ -58,6 +58,7 @@ namespace CustomInterfaces
IFunction_const_sptr function(QString index) const;
boost::optional<QString> currentFunctionIndex() const;
IPeakFunction_const_sptr peakPicker() const;
+ void emitFitRequested();
public slots:
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/IALCDataLoadingView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/IALCDataLoadingView.h
index c5772cdbea8abb1c925a670eb17131d0e9741511..43c9bf2e2182991fd9f416eb280fe0c1c657127f 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/IALCDataLoadingView.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Muon/IALCDataLoadingView.h
@@ -119,15 +119,15 @@ namespace CustomInterfaces
/// @param tMax :: Maximum X value available
virtual void setTimeRange(double tMin, double tMax) = 0;
- /// Set waiting cursor for long operation
- virtual void setWaitingCursor() = 0;
-
- /// Restore the original cursor
- virtual void restoreCursor() = 0;
-
/// Opens the Mantid Wiki web page
virtual void help() = 0;
+ /// Disables all the widgets
+ virtual void disableAll() = 0;
+
+ /// Enables all the widgets
+ virtual void enableAll() = 0;
+
signals:
/// Request to load data
void loadRequested();
@@ -135,6 +135,9 @@ namespace CustomInterfaces
/// User has selected the first run
void firstRunSelected();
+ /// New data have been loaded
+ void dataChanged();
+
};
} // namespace CustomInterfaces
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h
new file mode 100644
index 0000000000000000000000000000000000000000..581accf1509477c8aa554e2bd2d128822391906e
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h
@@ -0,0 +1,77 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIPRESENTER_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIPRESENTER_H_
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+Presenter for the widget that handles the selection of the center of
+rotation, region of interest, region for normalization, etc. from an
+image or stack of images. This is the abstract base class / interface
+for the presenter (in the sense of the MVP pattern). The name
+ImageROI refers to the Center-of-Rotation, which is the most basic
+parameter that users can select via this widget. This class is
+QtGUI-free as it uses the interface of the view. The model is simply
+the ImageStackPreParams class which holds coordinates selected by the
+user.
+
+Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class IImageROIPresenter {
+
+public:
+ IImageROIPresenter(){};
+ virtual ~IImageROIPresenter(){};
+
+ /// These are user actions, triggered from the (passive) view, that need
+ /// handling by the presenter
+ enum Notification {
+ Init, ///< interface is initing (set, defaults, etc.)
+ BrowseImgOrStack, ///< User browses for an image file or stack
+ NewImgOrStack, ///< A new image or stack needs to be loaded
+ UpdateImgIndex, ///< Sliding/scrolling through the stack
+ SelectCoR, ///< Start picking of the center of rotation
+ SelectROI, ///< Start selection of the region of interest
+ SelectNormalization, ///< Start selection of the normalization region
+ FinishedCoR, ///< A CoR has been picked
+ FinishedROI, ///< The ROI is selected
+ FinishedNormalization,///< The normalization region is selected
+ ResetCoR, ///< Reset CoR to default/none/middle
+ ResetROI, ///< Reset ROI to default/empty
+ ResetNormalization, ///< Reet the normalization region to default/empty
+ ShutDown ///< The widget is being closed/destroyed
+ };
+
+ /**
+ * Notifications sent through the presenter when something changes
+ * in the view. This plays the role of signals emitted by the view
+ * to this presenter.
+ *
+ * @param notif Type of notification to process.
+ */
+ virtual void notify(IImageROIPresenter::Notification notif) = 0;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIPRESENTER_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIView.h
new file mode 100644
index 0000000000000000000000000000000000000000..592dc79a3a1d4e828bf35f1c7c6311257c7d4bb7
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/IImageROIView.h
@@ -0,0 +1,216 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIVIEW_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIVIEW_H_
+
+#include "MantidAPI/WorkspaceGroup_fwd.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h"
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+Widget to handle the selection of the center of rotation, region of
+interest, region for normalization, etc. from an image or stack of
+images. This is the abstract base class / interface for the view of
+this widget (in the sense of the MVP pattern). The name ImageROI
+refers to the Center-of-Rotation, which is the most basic parameter
+that users can select via this widget. This class is Qt-free. Qt
+specific functionality and dependencies are added in a class derived
+from this.
+
+Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class IImageROIView {
+
+public:
+ IImageROIView(){};
+ virtual ~IImageROIView(){};
+
+ // Selection states
+ enum SelectionState {
+ SelectNone, ///< Init, or after any reset
+ SelectCoR,
+ SelectROIFirst,
+ SelectROISecond,
+ SelectNormAreaFirst,
+ SelectNormAreaSecond
+ };
+
+ /**
+ * Sets the user selection. This should guarantee that all widgets
+ * are updated (including spin boxes, image, slider through the
+ * image stack, etc.
+ *
+ * @param params all user-modifyable parameters (coordinates for the
+ * CoR, ROI and area for normalization).
+ *
+ */
+ virtual void setParams(ImageStackPreParams ¶ms) = 0;
+
+ /**
+ * Provides the current user selection.
+ *
+ * @return parameters as set/edited by the user.
+ */
+ virtual ImageStackPreParams userSelection() const = 0;
+
+ /**
+ * The current selection state. For example: nothin/initialized,
+ * selecting CoR, selecting second corner of the normalization area,
+ * selecting first corner of the ROI.
+ *
+ * @return current state
+ */
+ virtual SelectionState selectionState() const = 0;
+
+ /**
+ * Update to a new state (for example select CoR).
+ *
+ * @param state new state we're transitioning into.
+ */
+ virtual void changeSelectionState(const SelectionState& state) = 0;
+
+ /**
+ * Display a special case of stack of images: individual image, from
+ * a path to a recognized directory structure (sample/dark/white) or
+ * image format. Here recognized format means something that is
+ * supported natively by the widgets library, in practice
+ * Qt. Normally you can expect that .tiff and .png images are
+ * supported.
+ *
+ * @param path path to the stack (directory) or individual image file.
+ */
+ virtual void showStack(const std::string &path) = 0;
+
+ /**
+ * Display a stack of images (or individual image as a particular
+ * case), from a workspace group containing matrix workspaces. It
+ * assumes that the workspace contains an image in the form in which
+ * LoadFITS loads FITS images (or spectrum per row, all of them with
+ * the same number of data points (columns)).
+ *
+ * @param ws Workspace group where every workspace is a FITS or
+ * similar image that has been loaded with LoadFITS or similar
+ * algorithm.
+ */
+ virtual void showStack(Mantid::API::WorkspaceGroup_sptr &ws) = 0;
+
+ /**
+ * Get the stack of images currently being displayed (it has been
+ * shown using showStack()), as a workspace group.
+ *
+ * @return workspace group containing the individual images, which
+ * can be empty if no stack has been loaded.
+ */
+ virtual const Mantid::API::WorkspaceGroup_sptr stack() const = 0;
+
+ /**
+ * Normally one image (projection for tomography stacks) will be
+ * shown on a 2D display. Show there a particular projection from a
+ * stack contained in a workspace group.
+ *
+ * @param wsg workspace holding a stack of images
+ *
+ * @param idx index (in the group) of the image to show
+ *
+ */
+ virtual void showProjection(const Mantid::API::WorkspaceGroup_sptr &wsg,
+ size_t idx) = 0;
+
+ /**
+ * Display a warning to the user (for example as a pop-up window).
+ *
+ * @param warn warning title, should be short and would normally be
+ * shown as the title of the window or a big banner.
+ *
+ * @param description longer, free form description of the issue.
+ */
+ virtual void userWarning(const std::string &warn,
+ const std::string &description) = 0;
+
+ /**
+ * Display an error message (for example as a pop-up window).
+ *
+ * @param err Error title, should be short and would normally be
+ * shown as the title of the window or a big banner.
+ *
+ * @param description longer, free form description of the issue.
+ */
+ virtual void userError(const std::string &err,
+ const std::string &description) = 0;
+
+ /**
+ * The index of the image currently shown (from the current stack if there's
+ * any).
+ *
+ * @return index from 0 to the total number of images in the
+ * stack-1, as used for example when indexing workspaces in
+ * workspacegroups
+ */
+ virtual size_t currentImgIndex() const = 0;
+
+ /**
+ * Display now this image (idx) from the stack.
+ *
+ * @param idx index of the image to display.
+ */
+ virtual void updateImgWithIndex(size_t idx) = 0;
+
+ /**
+ * Get the path/location of a stack of images (or single image as a
+ * particular case) that the user is requesting to display. The
+ * path would be expected to point to a recognized directory
+ * structure (sample/dark/white) or image file (as a particular
+ * case).
+ *
+ * @return location (can be a directory, file, etc.) that needs to
+ * be figured out elsewhere.
+ */
+ virtual std::string askImgOrStackPath() = 0;
+
+ /**
+ * Save settings (normally when closing this widget).
+ */
+ virtual void saveSettings() const = 0;
+
+ /**
+ * Forget the current center-of-rotation selection and set to
+ * default.
+ */
+ virtual void resetCoR() = 0;
+
+ /**
+ * Forget the current region-of-interest selection and set to
+ * default (all).
+ */
+ virtual void resetROI() = 0;
+
+ /**
+ * Forget the current selection of region-for-normalization and set
+ * to default (none).
+ */
+ virtual void resetNormArea() = 0;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IIMAGEROIVIEW_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h
index 77f46747a077d353afc005a2a3bbe7461230e8e3..be9585bc25ee1d01ede65b98fdd416566c7aa4d4 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h
@@ -9,7 +9,7 @@ Interface for what the presenter of the tomography GUI needs to
implement. Here the term presenter is used as in the MVP
(Model-View-Presenter) pattern. The (passive) view will use this.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h
index 3802a4b2b8cece79b1dc96f4b9dc12c18349e24c..0130f027370db9e29626b780bc78c2029c46b804 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h
@@ -15,7 +15,7 @@ Tomography GUI. Base class / interface for the view of the tomo GUI
specific functionality/dependencies are added in a class derived from
this.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h
new file mode 100644
index 0000000000000000000000000000000000000000..7aaeac9147ec95b82725d83a6b0bef36ccac27ae
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h
@@ -0,0 +1,95 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIPRESENTER_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIPRESENTER_H_
+
+#include "MantidAPI/WorkspaceGroup_fwd.h"
+#include "MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h"
+#include "MantidQtCustomInterfaces/Tomography/IImageROIView.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h"
+#include "MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h"
+
+#include <boost/scoped_ptr.hpp>
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+Presenter for the image center of rotation (and other parameters)
+selection widget. In principle, in a strict MVP setup, signals from
+the model should always be handled through this presenter and never go
+directly to the view, and viceversa.
+
+Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class DLLExport ImageROIPresenter : public IImageROIPresenter {
+
+public:
+ /// Default constructor - normally used from the concrete view
+ ImageROIPresenter(IImageROIView *view);
+ virtual ~ImageROIPresenter();
+
+ void notify(IImageROIPresenter::Notification notif);
+
+protected:
+ void initialize();
+
+ /// clean shut down of model, view, etc.
+ void cleanup();
+
+ void processInit();
+ void processBrowseImg();
+ void processNewStack();
+ void processUpdateImgIndex();
+ void processSelectCoR();
+ void processSelectROI();
+ void processSelectNormalization();
+ void processFinishedCoR();
+ void processFinishedROI();
+ void processFinishedNormalization();
+ void processResetCoR();
+ void processResetROI();
+ void processResetNormalization();
+ void processShutDown();
+
+private:
+ StackOfImagesDirs checkInputStack(const std::string &path);
+
+ /// loads a list of images from a stack, from their individual paths
+ Mantid::API::WorkspaceGroup_sptr
+ loadFITSStack(const std::vector<std::string> &imgs);
+
+ void loadFITSImage(const std::string &path, const std::string &wsName);
+
+ /// path to the image stack being visualized
+ std::string m_stackPath;
+
+ /// Associated view for this presenter (MVP pattern)
+ IImageROIView *const m_view;
+
+ /// Associated model for this presenter (MVP pattern). This is just
+ /// a set of coordinates
+ const boost::scoped_ptr<ImageStackPreParams> m_model;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIPRESENTER_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h
new file mode 100644
index 0000000000000000000000000000000000000000..739374aed282d5b19cf3fb1d097b4a95bc583d3e
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h
@@ -0,0 +1,186 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIVIEWQTWIDGET_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIVIEWQTWIDGET_H_
+
+#include "MantidAPI/WorkspaceGroup_fwd.h"
+#include "MantidKernel/System.h"
+#include "MantidQtCustomInterfaces/Tomography/IImageROIPresenter.h"
+#include "MantidQtCustomInterfaces/Tomography/IImageROIView.h"
+
+#include "ui_ImageSelectCoRAndRegions.h"
+
+#include <boost/scoped_ptr.hpp>
+
+// forward declarations for Qt
+class QWidget;
+class QPixmap;
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+Qt-based view of the widget to handle the selection of the center of
+rotation, region of interest, region for normalization, etc. from an
+image or stack of images. Provides a concrete view for the graphical
+interface for tomography functionality in Mantid. This view is
+Qt-based and it is probably the only one that will be implemented in a
+foreseeable horizon. The interface of this class is given by
+IImageROIView so that it fits in the MVP (Model-View-Presenter) design
+of the ImageROI widget.
+
+Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class DLLExport ImageROIViewQtWidget : public QWidget, public IImageROIView {
+ Q_OBJECT
+
+public:
+ ImageROIViewQtWidget(QWidget *parent = 0);
+ virtual ~ImageROIViewQtWidget(){};
+
+ void setParams(ImageStackPreParams ¶ms);
+
+ ImageStackPreParams userSelection() const;
+
+ SelectionState selectionState() const { return m_selectionState; }
+
+ void changeSelectionState(const SelectionState& state);
+
+ /// show a stack of images given the path to the files
+ void showStack(const std::string &path);
+
+ /// show a stack of images that have been loaded into a group of workspaces
+ void showStack(Mantid::API::WorkspaceGroup_sptr &ws);
+
+ const Mantid::API::WorkspaceGroup_sptr stack() const { return m_stack; }
+
+ void showProjection(const Mantid::API::WorkspaceGroup_sptr &wsg, size_t idx);
+
+ void userWarning(const std::string &warn, const std::string &description);
+
+ void userError(const std::string &err, const std::string &description);
+
+ size_t currentImgIndex() const;
+
+ void updateImgWithIndex(size_t idx);
+
+ std::string askImgOrStackPath();
+
+ void saveSettings() const;
+
+ void resetCoR();
+ void resetROI();
+ void resetNormArea();
+
+protected:
+ void initLayout();
+ void showImg();
+
+ /// update coordinates from mouse event
+ void mouseUpdateCoR(int x, int y);
+ void mouseUpdateROICorners12(int x, int y);
+ void mouseUpdateROICorner2(int x, int y);
+ void mouseFinishROI(int x, int y);
+ void mouseUpdateNormAreaCorners12(int x, int y);
+ void mouseUpdateNormAreaCorner2(int x, int y);
+ void mouseFinishNormArea(int x, int y);
+
+private slots:
+ void browseImgClicked();
+
+ void corClicked();
+ void corResetClicked();
+ void roiClicked();
+ void roiResetClicked();
+ void normAreaClicked();
+ void normAreaResetClicked();
+
+ void updateFromImagesSlider(int current);
+
+ void valueUpdatedCoR(int v);
+ void valueUpdatedROI(int v);
+ void valueUpdatedNormArea(int v);
+
+private:
+ void grabCoRFromWidgets();
+ void grabROIFromWidgets();
+ void grabNormAreaFromWidgets();
+
+ void grabCoRFromMousePoint(int x, int y);
+ void grabROICorner1FromMousePoint(int x, int y);
+ void grabROICorner2FromMousePoint(int x, int y);
+ void grabNormAreaCorner1FromMousePoint(int x, int y);
+ void grabNormAreaCorner2FromMousePoint(int x, int y);
+
+ void setupConnections();
+
+ void readSettings();
+
+ // widget closing
+ virtual void closeEvent(QCloseEvent *ev);
+
+ /// enable/disable the groups with spin boxes for the center and corners
+ void enableParamWidgets(bool enable);
+ /// initialize values to defaults and set max/min for the spin boxes
+ void initParamWidgets(size_t maxWidth, size_t maxHeight);
+
+ /// Set coordinates in the widgets from a params object
+ void setParamWidgets(ImageStackPreParams ¶ms);
+
+ // shows the image in a widget
+ void showProjectionImage(const Mantid::API::WorkspaceGroup_sptr &wsg,
+ size_t idx);
+
+ /// repaint the image with new positions of points and rectangles
+ void refreshROIetAl();
+ void refreshCoR();
+ void refreshROI();
+ void refreshNormArea();
+
+ bool eventFilter(QObject *obj, QEvent *event);
+
+ Ui::ImageSelectCoRAndRegions m_ui;
+
+ Mantid::API::WorkspaceGroup_sptr m_stack;
+
+ /// this holds the base image on top of which rectangles and other
+ /// objects are drawn
+ boost::scoped_ptr<QPixmap> m_basePixmap;
+
+ /// persistent settings
+ static const std::string m_settingsGroup;
+
+ /// parameters currently set by the user
+ ImageStackPreParams m_params;
+
+ /// max image size for the current stack
+ int m_imgWidth, m_imgHeight;
+
+ /// are we picking the CoR, or the first point of the ROI, etc.
+ SelectionState m_selectionState;
+
+ // presenter as in the model-view-presenter
+ boost::scoped_ptr<IImageROIPresenter> m_presenter;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGEROIVIEWQTWIDGET_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageSelectCoRAndRegions.ui b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageSelectCoRAndRegions.ui
new file mode 100644
index 0000000000000000000000000000000000000000..c71dbfed6a89027b1f6ea39a849f4df738db4671
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageSelectCoRAndRegions.ui
@@ -0,0 +1,669 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<ui version="4.0">
+ <class>ImageSelectCoRAndRegions</class>
+ <widget class="QWidget" name="ImageSelectCoRAndRegions">
+ <property name="geometry">
+ <rect>
+ <x>0</x>
+ <y>0</y>
+ <width>800</width>
+ <height>600</height>
+ </rect>
+ </property>
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Expanding">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="windowTitle">
+ <string>Form</string>
+ </property>
+ <layout class="QGridLayout" name="gridLayout_8">
+ <item row="0" column="0">
+ <widget class="QSplitter" name="splitter_main_horiz">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Preferred">
+ <horstretch>1</horstretch>
+ <verstretch>1</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <widget class="QSplitter" name="splitter_img_vertical">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Expanding">
+ <horstretch>2</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="orientation">
+ <enum>Qt::Vertical</enum>
+ </property>
+ <widget class="QWidget" name="layoutWidget">
+ <layout class="QGridLayout" name="gridLayout_5">
+ <property name="sizeConstraint">
+ <enum>QLayout::SetMinimumSize</enum>
+ </property>
+ <item row="0" column="0">
+ <widget class="QLabel" name="label_img_seq">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="minimumSize">
+ <size>
+ <width>0</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>16777215</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="text">
+ <string>Image:</string>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="1">
+ <widget class="QLineEdit" name="lineEdit_img_seq">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="minimumSize">
+ <size>
+ <width>100</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>100</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="text">
+ <string>0/0</string>
+ </property>
+ <property name="alignment">
+ <set>Qt::AlignRight|Qt::AlignTrailing|Qt::AlignVCenter</set>
+ </property>
+ <property name="readOnly">
+ <bool>true</bool>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="2">
+ <widget class="QLabel" name="label_img_name">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
+ <horstretch>1</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="minimumSize">
+ <size>
+ <width>0</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>16777215</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="text">
+ <string>none</string>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="3">
+ <widget class="QPushButton" name="pushButton_browse_img">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Minimum" vsizetype="Fixed">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="minimumSize">
+ <size>
+ <width>0</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>16777215</width>
+ <height>28</height>
+ </size>
+ </property>
+ <property name="text">
+ <string>Browse</string>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </widget>
+ <widget class="QWidget" name="layoutWidget">
+ <layout class="QGridLayout" name="gridLayout_7" rowstretch="0,1">
+ <property name="sizeConstraint">
+ <enum>QLayout::SetMaximumSize</enum>
+ </property>
+ <property name="spacing">
+ <number>3</number>
+ </property>
+ <item row="0" column="0">
+ <widget class="QScrollArea" name="scrollArea">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Preferred">
+ <horstretch>2</horstretch>
+ <verstretch>2</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="widgetResizable">
+ <bool>true</bool>
+ </property>
+ <widget class="QWidget" name="scrollAreaWidgetContents">
+ <property name="geometry">
+ <rect>
+ <x>0</x>
+ <y>0</y>
+ <width>510</width>
+ <height>402</height>
+ </rect>
+ </property>
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Preferred">
+ <horstretch>2</horstretch>
+ <verstretch>2</verstretch>
+ </sizepolicy>
+ </property>
+ <layout class="QGridLayout" name="gridLayout" rowstretch="0" columnstretch="0">
+ <property name="margin">
+ <number>0</number>
+ </property>
+ <property name="spacing">
+ <number>1</number>
+ </property>
+ <item row="0" column="0">
+ <widget class="QLabel" name="label_img">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Preferred" vsizetype="Preferred">
+ <horstretch>2</horstretch>
+ <verstretch>2</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="text">
+ <string/>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </widget>
+ </widget>
+ </item>
+ <item row="1" column="0">
+ <widget class="QScrollBar" name="horizontalScrollBar_img_stack">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Expanding" vsizetype="Fixed">
+ <horstretch>2</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <property name="invertedControls">
+ <bool>true</bool>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </widget>
+ </widget>
+ <widget class="QWidget" name="layoutWidget_2">
+ <layout class="QGridLayout" name="gridLayout_6" columnminimumwidth="0">
+ <property name="sizeConstraint">
+ <enum>QLayout::SetDefaultConstraint</enum>
+ </property>
+ <property name="spacing">
+ <number>4</number>
+ </property>
+ <item row="0" column="0">
+ <widget class="QGroupBox" name="groupBox_cor">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Minimum" vsizetype="Minimum">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>260</width>
+ <height>16777215</height>
+ </size>
+ </property>
+ <property name="title">
+ <string>Center of rotation</string>
+ </property>
+ <layout class="QGridLayout" name="gridLayout_2">
+ <property name="margin">
+ <number>3</number>
+ </property>
+ <property name="spacing">
+ <number>4</number>
+ </property>
+ <item row="1" column="0">
+ <layout class="QHBoxLayout" name="horizontalLayout">
+ <item>
+ <widget class="QLabel" name="label_3">
+ <property name="text">
+ <string>Column:</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QSpinBox" name="spinBox_cor_x">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QLabel" name="label_2">
+ <property name="text">
+ <string>Row:</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QSpinBox" name="spinBox_cor_y">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ <item row="2" column="0">
+ <layout class="QHBoxLayout" name="horizontalLayout_2">
+ <item>
+ <widget class="QPushButton" name="pushButton_cor">
+ <property name="toolTip">
+ <string>After pushing this button, click on the image to select</string>
+ </property>
+ <property name="text">
+ <string>Select</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <spacer name="horizontalSpacer_3">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>108</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item>
+ <widget class="QPushButton" name="pushButton_cor_reset">
+ <property name="text">
+ <string>Reset</string>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ <item row="0" column="0">
+ <layout class="QHBoxLayout" name="horizontalLayout_5">
+ <item>
+ <spacer name="horizontalSpacer_4">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>78</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item>
+ <widget class="QPushButton" name="pushButton">
+ <property name="enabled">
+ <bool>false</bool>
+ </property>
+ <property name="text">
+ <string>Auto-find</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QComboBox" name="comboBox">
+ <property name="enabled">
+ <bool>false</bool>
+ </property>
+ <item>
+ <property name="text">
+ <string>Method:</string>
+ </property>
+ </item>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ </layout>
+ </widget>
+ </item>
+ <item row="1" column="0">
+ <spacer name="verticalSpacer_2">
+ <property name="orientation">
+ <enum>Qt::Vertical</enum>
+ </property>
+ <property name="sizeType">
+ <enum>QSizePolicy::Minimum</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>20</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item row="2" column="0">
+ <widget class="QGroupBox" name="groupBox_roi">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Minimum" vsizetype="Minimum">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>260</width>
+ <height>16777215</height>
+ </size>
+ </property>
+ <property name="title">
+ <string>Region of interest:</string>
+ </property>
+ <layout class="QGridLayout" name="gridLayout_3">
+ <property name="margin">
+ <number>3</number>
+ </property>
+ <property name="spacing">
+ <number>2</number>
+ </property>
+ <item row="0" column="0">
+ <widget class="QLabel" name="label_4">
+ <property name="text">
+ <string>Corner 1</string>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="1">
+ <widget class="QSpinBox" name="spinBox_roi_top_x">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="2">
+ <widget class="QSpinBox" name="spinBox_roi_top_y">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="0">
+ <widget class="QLabel" name="label_5">
+ <property name="text">
+ <string>Corner 2</string>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="1">
+ <widget class="QSpinBox" name="spinBox_roi_bottom_x">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="2">
+ <widget class="QSpinBox" name="spinBox_roi_bottom_y">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="2" column="0" colspan="3">
+ <layout class="QHBoxLayout" name="horizontalLayout_3">
+ <item>
+ <widget class="QPushButton" name="pushButton_roi">
+ <property name="toolTip">
+ <string>After pushing this button, click and drag on the image to select</string>
+ </property>
+ <property name="text">
+ <string>Select</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <spacer name="horizontalSpacer_2">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>155</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item>
+ <widget class="QPushButton" name="pushButton_roi_reset">
+ <property name="toolTip">
+ <string>Reset to the whole field of view</string>
+ </property>
+ <property name="text">
+ <string>Reset</string>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ </layout>
+ </widget>
+ </item>
+ <item row="3" column="0">
+ <spacer name="verticalSpacer_3">
+ <property name="orientation">
+ <enum>Qt::Vertical</enum>
+ </property>
+ <property name="sizeType">
+ <enum>QSizePolicy::Minimum</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>20</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item row="4" column="0">
+ <widget class="QGroupBox" name="groupBox_norm">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Minimum" vsizetype="Minimum">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
+ <property name="maximumSize">
+ <size>
+ <width>260</width>
+ <height>16777215</height>
+ </size>
+ </property>
+ <property name="title">
+ <string>Area for normalization:</string>
+ </property>
+ <layout class="QGridLayout" name="gridLayout_4">
+ <property name="margin">
+ <number>3</number>
+ </property>
+ <property name="spacing">
+ <number>2</number>
+ </property>
+ <item row="0" column="0">
+ <widget class="QLabel" name="label_6">
+ <property name="text">
+ <string>Corner 1</string>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="1">
+ <widget class="QSpinBox" name="spinBox_norm_top_x">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="0" column="2">
+ <widget class="QSpinBox" name="spinBox_norm_top_y">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="0">
+ <widget class="QLabel" name="label_7">
+ <property name="text">
+ <string>Corner 2</string>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="1">
+ <widget class="QSpinBox" name="spinBox_norm_bottom_x">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="2">
+ <widget class="QSpinBox" name="spinBox_norm_bottom_y">
+ <property name="maximum">
+ <number>9999</number>
+ </property>
+ <property name="value">
+ <number>9999</number>
+ </property>
+ </widget>
+ </item>
+ <item row="2" column="0" colspan="3">
+ <layout class="QHBoxLayout" name="horizontalLayout_8">
+ <item>
+ <widget class="QPushButton" name="pushButton_norm_area">
+ <property name="toolTip">
+ <string>After pushing this button, click and drag on the image to select</string>
+ </property>
+ <property name="text">
+ <string>Select</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <spacer name="horizontalSpacer">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>98</width>
+ <height>20</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ <item>
+ <widget class="QPushButton" name="pushButton_norm_area_reset">
+ <property name="toolTip">
+ <string>Reset to empty/none</string>
+ </property>
+ <property name="text">
+ <string>Reset</string>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ </layout>
+ </widget>
+ </item>
+ <item row="5" column="0">
+ <spacer name="verticalSpacer">
+ <property name="orientation">
+ <enum>Qt::Vertical</enum>
+ </property>
+ <property name="sizeHint" stdset="0">
+ <size>
+ <width>20</width>
+ <height>68</height>
+ </size>
+ </property>
+ </spacer>
+ </item>
+ </layout>
+ </widget>
+ </widget>
+ </item>
+ </layout>
+ </widget>
+ <resources/>
+ <connections/>
+</ui>
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h
new file mode 100644
index 0000000000000000000000000000000000000000..164a3a475f7229f2b91fe6e9a82e15f102cb7065
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h
@@ -0,0 +1,63 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGESTACKPREPARAMS_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGESTACKPREPARAMS_H_
+
+#include "MantidKernel/System.h"
+#include "MantidKernel/V2D.h"
+
+#include <utility>
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+This holds parameters for pre-processing images or stacks of images
+for tomographic reconstruction. These parameters are used in different
+pre-processing steps in the tomographic reconstruction pipeline, and
+also for the reconstruction algorithms (iternative methods, FBP,
+etc.).
+
+The parameters include:
+- center of rotation
+- region of interest (clip from original or raw images)
+- region for normalization (where the beam is not blocked by any sample
+ object throughout the stack of images) other parameters describing
+ the stack of images:
+
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class ImageStackPreParams {
+public:
+
+ ImageStackPreParams();
+
+ typedef std::pair<Mantid::Kernel::V2D, Mantid::Kernel::V2D> Box2D;
+
+ Mantid::Kernel::V2D cor;
+ Box2D roi;
+ Box2D normalizationRegion; //< also known as 'air' region
+ bool medianFilter;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_IMAGESTACKPREPARAMS_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h
new file mode 100644
index 0000000000000000000000000000000000000000..3ef122016ea93de03b22395c15ab647d62ea9324
--- /dev/null
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h
@@ -0,0 +1,86 @@
+#ifndef MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_STACKOFIMAGESDIR_H_
+#define MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_STACKOFIMAGESDIR_H_
+
+#include "MantidKernel/System.h"
+
+#include <string>
+#include <vector>
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+/**
+Represents the structure of directories where a stack of images is
+stored on disk: data/flat/dark + processed + pre_filtered, etc.
+
+Copyright © 2015 ISIS Rutherford Appleton Laboratory, NScD
+Oak Ridge National Laboratory & European Spallation Source
+
+This file is part of Mantid.
+
+Mantid is free software; you can redistribute it and/or modify
+it under the terms of the GNU General Public License as published by
+the Free Software Foundation; either version 3 of the License, or
+(at your option) any later version.
+
+Mantid is distributed in the hope that it will be useful,
+but WITHOUT ANY WARRANTY; without even the implied warranty of
+MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+GNU General Public License for more details.
+
+You should have received a copy of the GNU General Public License
+along with this program. If not, see <http://www.gnu.org/licenses/>.
+
+File change history is stored at: <https://github.com/mantidproject/mantid>
+Code Documentation is available at: <http://doxygen.mantidproject.org>
+*/
+class DLLExport StackOfImagesDirs {
+public:
+ /// constructor from a path (to a directory)
+ StackOfImagesDirs(const std::string &path);
+
+ /// The current (simple) concept of valid is: there at least a
+ /// sample/data directory with at least one file in it.
+ bool isValid() const { return m_valid; }
+
+ // human readable description of the expected structure of directories
+ std::string description() const;
+
+ // string that describes the status/error message about this directory
+ std::string status() const;
+
+ std::string sampleImagesDir() const { return m_sampleDir; };
+ std::string flatImagesDir() const { return m_flatDir; };
+ std::string darkImagesDir() const { return m_darkDir; };
+
+ std::vector<std::string> sampleFiles() const;
+ std::vector<std::string> flatFiles() const;
+ std::vector<std::string> darkFiles() const;
+
+private:
+ /// tries to find the expected data_/dark_/flat_ directories
+ void findStackDirs(const std::string &path);
+ /// finds images in a directory
+ std::vector<std::string> findImgFiles(const std::string &path) const;
+
+ /// passes basic validity checks
+ bool m_valid;
+ /// string with informative messages specially when not valid
+ std::string m_statusDescStr;
+
+ std::string m_sampleDir;
+ std::string m_flatDir;
+ std::string m_darkDir;
+
+ static const std::string g_descr;
+ static const std::string g_sampleNamePrefix;
+ static const std::string g_flatNamePrefix;
+ static const std::string g_darkNamePrefix;
+ static const std::string g_processedNamePrefix;
+ static const std::string g_prefilteredNamePrefix;
+};
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
+
+#endif // MANTIDQTCUSTOMINTERFACES_TOMOGRAPHY_STACKOFIMAGESDIR_H_
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoPathsConfig.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoPathsConfig.h
index 92400342f4a0363d6d52588065ae557fc58994c3..ee3becb0206f8910ae585ab1f4cedae98c201d29 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoPathsConfig.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoPathsConfig.h
@@ -18,7 +18,7 @@ that define where the data for a particular dataset can be found, and
that are normally required to run reconstruction tools but also pre-
and post- processing steps.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoRecToolConfig.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoRecToolConfig.h
index 1ff91bd3933bcec2ee31c120f04e8e814e78bc12..256518618dcb17ac301ae2871bf615424cfb1f02 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoRecToolConfig.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoRecToolConfig.h
@@ -12,7 +12,7 @@ is under development, and as it is not necessarily related to custom
interfaces this class and some derived ones might be moved out of
here.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoReconToolsUserSettings.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoReconToolsUserSettings.h
index 25857af9e1a9827251c4b52c3453429c8837cb7a..a6047a19de1292643bf844af8fa30a6357b406a6 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoReconToolsUserSettings.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoReconToolsUserSettings.h
@@ -13,7 +13,7 @@ namespace CustomInterfaces {
/**
Settings for a set of tomographic reconstruction tools supported.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h
index 64cfc7a36aed82bdc7e6a1585e4b6895eb15ca0b..5196ca49bef979e5268b8dc9cbd68a5e1c20aca8 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h
@@ -15,7 +15,7 @@ namespace CustomInterfaces {
Third party tool configuration dialog(s) for the tomographic reconstruction
GUI.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceModel.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceModel.h
index a915f0c9ed1f7e54df8fa5b8249154eaef3410f8..4bd8001060f092397a3dec2d71d888c863d8f279 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceModel.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceModel.h
@@ -20,7 +20,7 @@ Tomography GUI. Model for the interface (as in the MVP
signals from this model should always be handled through the presenter
and never go directly to the view.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h
index f37b5569d582d5b09be32ecb775cd754c73d6b22..ec29c07091b112cb2ab2b5de01325dacdce081f0 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h
@@ -23,7 +23,7 @@ Tomography GUI. Presenter for the GUI (as in the MVP
signals from the model should always be handled through this presenter
and never go directly to the view, and viceversa.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabRun.ui b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabRun.ui
index ecfc5ff939ec2a361cae319847285f9d52c70162..ea670ee8a7158f0eb58a5f606461f3633d73f3a1 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabRun.ui
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceQtTabRun.ui
@@ -9,8 +9,8 @@
<rect>
<x>0</x>
<y>0</y>
- <width>462</width>
- <height>460</height>
+ <width>671</width>
+ <height>451</height>
</rect>
</property>
<layout class="QGridLayout" name="gridLayout">
@@ -74,7 +74,7 @@
<item row="1" column="0">
<widget class="QFrame" name="frame_image">
<property name="sizePolicy">
- <sizepolicy hsizetype="Preferred" vsizetype="Preferred">
+ <sizepolicy hsizetype="Expanding" vsizetype="Preferred">
<horstretch>2</horstretch>
<verstretch>2</verstretch>
</sizepolicy>
@@ -105,10 +105,16 @@
<rect>
<x>0</x>
<y>0</y>
- <width>151</width>
- <height>180</height>
+ <width>231</width>
+ <height>175</height>
</rect>
</property>
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Expanding" vsizetype="Preferred">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
<layout class="QGridLayout" name="gridLayout_5">
<property name="margin">
<number>0</number>
@@ -118,6 +124,12 @@
</property>
<item row="0" column="0">
<widget class="QLabel" name="label_image">
+ <property name="sizePolicy">
+ <sizepolicy hsizetype="Expanding" vsizetype="Preferred">
+ <horstretch>0</horstretch>
+ <verstretch>0</verstretch>
+ </sizepolicy>
+ </property>
<property name="text">
<string/>
</property>
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h
index 010abf23fbeaea0ce1a7fe1b47d4a7fe60bbecf7..3f78f8feafe18f03d52db0af5d4eab26556e76b1 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h
@@ -9,6 +9,8 @@
#include "MantidQtCustomInterfaces/Tomography/ITomographyIfacePresenter.h"
#include "MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h"
#include "MantidQtCustomInterfaces/Tomography/TomoToolConfigDialog.h"
+
+#include "ui_ImageSelectCoRAndRegions.h"
#include "ui_TomographyIfaceQtGUI.h"
#include "ui_TomographyIfaceQtTabSetup.h"
#include "ui_TomographyIfaceQtTabRun.h"
@@ -30,7 +32,7 @@ in a foreseeable horizon. The interface of this class is given by
ITomographyIfaceView so that it fits in the MVP (Model-View-Presenter)
design of the tomography GUI.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
@@ -176,8 +178,9 @@ private:
void processPathBrowseClick(QLineEdit *le, std::string &data);
// Begin of Savu related functionality. This will grow and will need
- // separation
-
+ // separation. They should find a better place to live.
+ ///@name Savu related methods
+ ///@{
/// to load plugins (savu classification / API)
void loadAvailablePlugins();
@@ -201,6 +204,7 @@ private:
const std::string &name);
std::string pluginParamValString(const Json::Value &jsonVal,
const std::string &name);
+ ///@}
static size_t g_nameSeqNo;
@@ -213,6 +217,7 @@ private:
// but they could be separate dialogs, widgets, etc.
Ui::TomographyIfaceQtTabSetup m_uiTabSetup;
Ui::TomographyIfaceQtTabRun m_uiTabRun;
+ Ui::ImageSelectCoRAndRegions m_uiTabCoR;
/// Tool specific setup dialogs
Ui::TomoToolConfigAstra m_uiAstra;
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigAstraToolbox.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigAstraToolbox.h
index 80d2b62a64138bcac14062a62289bb451a62e20e..8e4b19d2f7cdac14401455f43f7fbcf0e8c5bc86 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigAstraToolbox.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigAstraToolbox.h
@@ -15,7 +15,7 @@ Configuration of a third party tomographic reconstruction tool
specialized for the Astra Toolbox tomographic reconstruction tool
(C++, CUDA): Astra Toolbox <http://sourceforge.net/p/astra-toolbox/wiki/Home/
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
@@ -38,7 +38,7 @@ Code Documentation is available at: <http://doxygen.mantidproject.org>
*/
class DLLExport ToolConfigAstraToolbox : public TomoRecToolConfig {
public:
- ToolConfigAstraToolbox() { }
+ ToolConfigAstraToolbox();
ToolConfigAstraToolbox(const std::string &runnable, double centerRot,
double angleMin, double angleMax,
@@ -47,7 +47,7 @@ public:
const std::string &pathOpen,
const std::string &pathSample);
- ~ToolConfigAstraToolbox() { }
+ ~ToolConfigAstraToolbox() {}
protected:
virtual std::string makeCmdLineOptions() const;
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigCustom.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigCustom.h
index fe02d914dc2a9d2db490682fa9daf8e9fdaa845d..98c947dc793a6e7fed3e9f3297e0fe1da67ea057 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigCustom.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigCustom.h
@@ -18,7 +18,7 @@ custom interfaces might be moved out of here. Tools of other type
might be added, and then this should not be a sublcass of
TomoRecToolConfig but of a more general ToolConfig class.
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
diff --git a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigTomoPy.h b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigTomoPy.h
index 56eec90cbd50d02bc126f34a091192f029621a78..b3e9054938af5d0c8ecdf4a94751f6ab2628d65e 100644
--- a/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigTomoPy.h
+++ b/MantidQt/CustomInterfaces/inc/MantidQtCustomInterfaces/Tomography/ToolConfigTomoPy.h
@@ -14,7 +14,7 @@ Third party tomographic reconstruction tool configuration class
specialized for TomoPy (Python + C++):
https://www1.aps.anl.gov/Science/Scientific-Software/TomoPy
-Copyright © 2014,205 ISIS Rutherford Appleton Laboratory, NScD
+Copyright © 2014,2015 ISIS Rutherford Appleton Laboratory, NScD
Oak Ridge National Laboratory & European Spallation Source
This file is part of Mantid.
@@ -37,14 +37,14 @@ Code Documentation is available at: <http://doxygen.mantidproject.org>
*/
class DLLExport ToolConfigTomoPy : public TomoRecToolConfig {
public:
- ToolConfigTomoPy() { }
+ ToolConfigTomoPy();
ToolConfigTomoPy(const std::string &runnable, const std::string &pathOut,
const std::string &pathDark, const std::string &pathOpen,
const std::string &pathSample, double centerRot,
double angleMin, double angleMax);
- ~ToolConfigTomoPy() { }
+ ~ToolConfigTomoPy() {}
protected:
virtual std::string makeCmdLineOptions() const;
diff --git a/MantidQt/CustomInterfaces/src/Indirect/ConvFit.cpp b/MantidQt/CustomInterfaces/src/Indirect/ConvFit.cpp
index 379c194341bba5284c8abb7c32fe366869aeadde..c4e727187fc8084c0e25ba20eab0bc8384a87a9a 100644
--- a/MantidQt/CustomInterfaces/src/Indirect/ConvFit.cpp
+++ b/MantidQt/CustomInterfaces/src/Indirect/ConvFit.cpp
@@ -1316,9 +1316,17 @@ void ConvFit::hwhmUpdateRS(double val) {
void ConvFit::checkBoxUpdate(QtProperty *prop, bool checked) {
UNUSED_ARG(checked);
- if (prop == m_properties["UseDeltaFunc"])
+ if (prop == m_properties["UseDeltaFunc"]) {
updatePlotOptions();
- else if (prop == m_properties["UseFABADA"]) {
+ if (checked == true) {
+ m_properties["DeltaFunction"]->addSubProperty(
+ m_properties["DeltaHeight"]);
+ m_dblManager->setValue(m_properties["DeltaHeight"], 1.0000);
+ } else {
+ m_properties["DeltaFunction"]->removeSubProperty(
+ m_properties["DeltaHeight"]);
+ }
+ } else if (prop == m_properties["UseFABADA"]) {
if (checked) {
// FABADA needs a much higher iteration limit
m_dblManager->setValue(m_properties["MaxIterations"], 20000);
diff --git a/MantidQt/CustomInterfaces/src/Muon/ALCBaselineModellingView.cpp b/MantidQt/CustomInterfaces/src/Muon/ALCBaselineModellingView.cpp
index 03be4452b122836f19f757ae37bcf69382d3a89b..b1ec6576a13fb0f4df52ec856443a8bac8cbfec8 100644
--- a/MantidQt/CustomInterfaces/src/Muon/ALCBaselineModellingView.cpp
+++ b/MantidQt/CustomInterfaces/src/Muon/ALCBaselineModellingView.cpp
@@ -272,5 +272,9 @@ namespace CustomInterfaces
MantidQt::API::HelpWindow::showCustomInterface(NULL, QString("Muon_ALC"));
}
+ void ALCBaselineModellingView::emitFitRequested() {
+ emit fitRequested();
+ }
+
} // namespace CustomInterfaces
} // namespace MantidQt
diff --git a/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingPresenter.cpp b/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingPresenter.cpp
index 4492c6f91876c40633eb1ee49b7bd44d6d9eba94..fd6b1326b51c74c93e0bb75c553d573bc568abfd 100644
--- a/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingPresenter.cpp
+++ b/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingPresenter.cpp
@@ -36,7 +36,7 @@ namespace CustomInterfaces
void ALCDataLoadingPresenter::load()
{
- m_view->setWaitingCursor();
+ m_view->disableAll();
try
{
@@ -108,13 +108,15 @@ namespace CustomInterfaces
m_view->setDataCurve(*(ALCHelper::curveDataFromWs(m_loadedData, 0)),
ALCHelper::curveErrorsFromWs(m_loadedData, 0));
+ emit dataChanged();
+
}
catch(std::exception& e)
{
m_view->displayError(e.what());
}
- m_view->restoreCursor();
+ m_view->enableAll();
}
void ALCDataLoadingPresenter::updateAvailableInfo()
diff --git a/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingView.cpp b/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingView.cpp
index f2e6c9712f4cc86af3f1eea2f66670ae8ed47cac..7f1d5b578649dac18e4272bd25866676717e0341 100644
--- a/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingView.cpp
+++ b/MantidQt/CustomInterfaces/src/Muon/ALCDataLoadingView.cpp
@@ -40,6 +40,18 @@ namespace CustomInterfaces
m_dataCurve->setSymbol(QwtSymbol(QwtSymbol::Ellipse, QBrush(), QPen(), QSize(7,7)));
m_dataCurve->setRenderHint(QwtPlotItem::RenderAntialiased, true);
m_dataCurve->attach(m_ui.dataPlot);
+
+ // The following lines disable the groups' titles when the
+ // group is disabled
+ QPalette palette;
+ palette.setColor(QPalette::Disabled, QPalette::WindowText,
+ QApplication::palette().color(QPalette::Disabled,
+ QPalette::WindowText));
+ m_ui.dataGroup->setPalette(palette);
+ m_ui.deadTimeGroup->setPalette(palette);
+ m_ui.detectorGroupingGroup->setPalette(palette);
+ m_ui.periodsGroup->setPalette(palette);
+ m_ui.calculationGroup->setPalette(palette);
}
std::string ALCDataLoadingView::firstRun() const
@@ -221,14 +233,28 @@ namespace CustomInterfaces
MantidQt::API::HelpWindow::showCustomInterface(NULL, QString("Muon_ALC"));
}
- void ALCDataLoadingView::setWaitingCursor()
- {
- QApplication::setOverrideCursor(Qt::WaitCursor);
+ void ALCDataLoadingView::disableAll() {
+
+ // Disable all the widgets in the view
+ m_ui.dataGroup->setEnabled(false);
+ m_ui.deadTimeGroup->setEnabled(false);
+ m_ui.detectorGroupingGroup->setEnabled(false);
+ m_ui.periodsGroup->setEnabled(false);
+ m_ui.calculationGroup->setEnabled(false);
+ m_ui.load->setEnabled(false);
+
}
- void ALCDataLoadingView::restoreCursor()
- {
- QApplication::restoreOverrideCursor();
+ void ALCDataLoadingView::enableAll() {
+
+ // Enable all the widgets in the view
+ m_ui.deadTimeGroup->setEnabled(true);
+ m_ui.dataGroup->setEnabled(true);
+ m_ui.detectorGroupingGroup->setEnabled(true);
+ m_ui.periodsGroup->setEnabled(true);
+ m_ui.calculationGroup->setEnabled(true);
+ m_ui.load->setEnabled(true);
+
}
} // namespace CustomInterfaces
diff --git a/MantidQt/CustomInterfaces/src/Muon/ALCInterface.cpp b/MantidQt/CustomInterfaces/src/Muon/ALCInterface.cpp
index 5e0703eea02248d71696be2ee0b2dfb78329222b..a52e8a9ea46656ce5503523ea3af0e8a01bf2846 100644
--- a/MantidQt/CustomInterfaces/src/Muon/ALCInterface.cpp
+++ b/MantidQt/CustomInterfaces/src/Muon/ALCInterface.cpp
@@ -49,40 +49,61 @@ namespace CustomInterfaces
m_dataLoading = new ALCDataLoadingPresenter(dataLoadingView);
m_dataLoading->initialize();
- auto baselineModellingView = new ALCBaselineModellingView(m_ui.baselineModellingView);
- m_baselineModelling = new ALCBaselineModellingPresenter(baselineModellingView, m_baselineModellingModel);
+ m_baselineModellingView = new ALCBaselineModellingView(m_ui.baselineModellingView);
+ m_baselineModelling = new ALCBaselineModellingPresenter(m_baselineModellingView, m_baselineModellingModel);
m_baselineModelling->initialize();
- auto peakFittingView = new ALCPeakFittingView(m_ui.peakFittingView);
- m_peakFitting = new ALCPeakFittingPresenter(peakFittingView, m_peakFittingModel);
+ m_peakFittingView = new ALCPeakFittingView(m_ui.peakFittingView);
+ m_peakFitting = new ALCPeakFittingPresenter(m_peakFittingView, m_peakFittingModel);
m_peakFitting->initialize();
+ connect(m_dataLoading, SIGNAL(dataChanged()), SLOT(updateBaselineData()));
+ connect(m_baselineModellingModel, SIGNAL(correctedDataChanged()), SLOT(updatePeakData()));
+
assert(m_ui.stepView->count() == STEP_NAMES.count()); // Should have names for all steps
switchStep(0); // We always start from the first step
}
- void ALCInterface::nextStep()
- {
- int next = m_ui.stepView->currentIndex() + 1;
+ void ALCInterface::updateBaselineData() {
- auto nextWidget = m_ui.stepView->widget(next);
- assert(nextWidget);
+ // Make sure we do have some data
+ if (m_dataLoading->loadedData()) {
- if (nextWidget == m_ui.baselineModellingView)
- {
- if (m_dataLoading->loadedData())
- {
- m_baselineModellingModel->setData(m_dataLoading->loadedData());
+ // Send the data to BaselineModelling
+ m_baselineModellingModel->setData(m_dataLoading->loadedData());
+
+ // If we have a fitting function and a fitting range
+ // we can update the baseline model
+ if ((!m_baselineModellingView->function().isEmpty()) &&
+ (m_baselineModellingView->noOfSectionRows() > 0)) {
+
+ // Fit the data
+ m_baselineModellingView->emitFitRequested();
}
}
- if (nextWidget == m_ui.peakFittingView)
- {
- if (m_baselineModellingModel->correctedData())
- {
- m_peakFittingModel->setData(m_baselineModellingModel->correctedData());
+ }
+
+ void ALCInterface::updatePeakData() {
+
+ // Make sure we do have some data
+ if (m_baselineModellingModel->correctedData()) {
+
+ // Send the data to PeakFitting
+ m_peakFittingModel->setData(m_baselineModellingModel->correctedData());
+
+ // If we have a fitting function
+ if (m_peakFittingView->function("")) {
+
+ // Fit the data
+ m_peakFittingView->emitFitRequested();
}
}
+ }
+
+ void ALCInterface::nextStep()
+ {
+ int next = m_ui.stepView->currentIndex() + 1;
switchStep(next);
}
diff --git a/MantidQt/CustomInterfaces/src/Muon/ALCPeakFittingView.cpp b/MantidQt/CustomInterfaces/src/Muon/ALCPeakFittingView.cpp
index 9388240c13adbbcad1072ad4864196b9a25b37da..0049ec3e2f2a902e7c16d9923591772433b08e21 100644
--- a/MantidQt/CustomInterfaces/src/Muon/ALCPeakFittingView.cpp
+++ b/MantidQt/CustomInterfaces/src/Muon/ALCPeakFittingView.cpp
@@ -147,6 +147,10 @@ void ALCPeakFittingView::displayError(const QString& message)
QMessageBox::critical(m_widget, "Error", message);
}
+void ALCPeakFittingView::emitFitRequested() {
+ emit fitRequested();
+}
+
} // namespace CustomInterfaces
} // namespace Mantid
diff --git a/MantidQt/CustomInterfaces/src/Tomography/ImageROIPresenter.cpp b/MantidQt/CustomInterfaces/src/Tomography/ImageROIPresenter.cpp
new file mode 100644
index 0000000000000000000000000000000000000000..5f411515c231575349bb8e05fc40899892918a63
--- /dev/null
+++ b/MantidQt/CustomInterfaces/src/Tomography/ImageROIPresenter.cpp
@@ -0,0 +1,305 @@
+#include "MantidAPI/AlgorithmManager.h"
+#include "MantidAPI/AnalysisDataService.h"
+#include "MantidAPI/MatrixWorkspace.h"
+#include "MantidAPI/WorkspaceGroup.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h"
+#include "MantidQtCustomInterfaces/Tomography/IImageROIView.h"
+
+using namespace MantidQt::CustomInterfaces;
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+ImageROIPresenter::ImageROIPresenter(IImageROIView *view)
+ : m_view(view), m_model(new ImageStackPreParams()) {
+ if (!m_view) {
+ throw std::runtime_error("Severe inconsistency found. Presenter created "
+ "with an empty/null view (tomography interface). "
+ "Cannot continue.");
+ }
+}
+
+ImageROIPresenter::~ImageROIPresenter() { cleanup(); }
+
+void ImageROIPresenter::cleanup() {}
+
+void ImageROIPresenter::notify(Notification notif) {
+
+ switch (notif) {
+
+ case IImageROIPresenter::Init:
+ processInit();
+ break;
+
+ case IImageROIPresenter::BrowseImgOrStack:
+ processBrowseImg();
+ break;
+
+ case IImageROIPresenter::NewImgOrStack:
+ processNewStack();
+ break;
+
+ case IImageROIPresenter::UpdateImgIndex:
+ processUpdateImgIndex();
+ break;
+
+ case IImageROIPresenter::SelectCoR:
+ processSelectCoR();
+ break;
+
+ case IImageROIPresenter::SelectROI:
+ processSelectROI();
+ break;
+
+ case IImageROIPresenter::SelectNormalization:
+ processSelectNormalization();
+ break;
+
+ case IImageROIPresenter::FinishedCoR:
+ processFinishedCoR();
+ break;
+
+ case IImageROIPresenter::FinishedROI:
+ processFinishedROI();
+ break;
+
+ case IImageROIPresenter::FinishedNormalization:
+ processFinishedNormalization();
+ break;
+
+ case IImageROIPresenter::ResetCoR:
+ processResetCoR();
+ break;
+
+ case IImageROIPresenter::ResetROI:
+ processResetROI();
+ break;
+
+ case IImageROIPresenter::ResetNormalization:
+ processResetNormalization();
+ break;
+
+ case IImageROIPresenter::ShutDown:
+ processShutDown();
+ break;
+ }
+}
+
+void ImageROIPresenter::processInit() {
+ ImageStackPreParams p;
+ m_view->setParams(p);
+}
+
+void ImageROIPresenter::processBrowseImg() {
+ const std::string path = m_view->askImgOrStackPath();
+
+ if (path.empty())
+ return;
+
+ m_stackPath = path;
+ processNewStack();
+}
+
+/**
+ * Validates the input stack of images (directories and files), and
+ * shows warning/error messages as needed. The outocome of the
+ * validation can be checkec via isValid() on the returned stack of
+ * images object.
+ *
+ * @param path user provided path to the stack of images
+ *
+ * @return a stack of images built from the path passed, not
+ * necessarily correct (check with isValid())
+ */
+StackOfImagesDirs ImageROIPresenter::checkInputStack(const std::string &path) {
+ StackOfImagesDirs soid(path);
+
+ const std::string soiPath = soid.sampleImagesDir();
+ if (soiPath.empty()) {
+ m_view->userWarning("Error trying to find a stack of images",
+ "Could not find the sample images directory. The stack "
+ "of images is expected as: \n\n" +
+ soid.description());
+ } else if (!soid.isValid()) {
+ m_view->userWarning("Error while checking/validating the stack of images",
+ "The stack of images could not be loaded correctly. " +
+ soid.status());
+ }
+
+ return soid;
+}
+
+void ImageROIPresenter::processNewStack() {
+
+ StackOfImagesDirs soid("");
+ try {
+ soid = checkInputStack(m_stackPath);
+ } catch (std::exception &e) {
+ // Poco::FileNotFoundException: this should never happen, unless
+ // the open dir dialog misbehaves unexpectedly, or in tests
+ m_view->userWarning("Error trying to open directories/files",
+ "The path selected via the dialog cannot be openend or "
+ "there was a problem while trying to access it. This "
+ "is an unexpected inconsistency. Error details: " +
+ std::string(e.what()));
+ }
+
+ if (!soid.isValid())
+ return;
+
+ std::vector<std::string> imgs = soid.sampleFiles();
+ if (0 >= imgs.size()) {
+ m_view->userWarning(
+ "Error trying to find image/projection files in the stack directories",
+ "Could not find any image file in the samples subdirectory: " +
+ soid.sampleImagesDir());
+ return;
+ }
+
+ Mantid::API::WorkspaceGroup_sptr wsg = loadFITSStack(imgs);
+ if (!wsg)
+ return;
+
+ size_t imgCount = wsg->size();
+ if (0 == imgCount) {
+ m_view->userWarning(
+ "Failed to load any FITS images - directory structure issue",
+ "Even though a directory apparently holding a stack of images was "
+ "found, "
+ "it was not possible to load any image file correctly from: " +
+ m_stackPath);
+ return;
+ }
+
+ m_view->showStack(wsg);
+
+ // clean-up container group workspace? Not for now
+ if (false && wsg)
+ Mantid::API::AnalysisDataService::Instance().remove(wsg->getName());
+}
+
+void ImageROIPresenter::processUpdateImgIndex() {
+ m_view->updateImgWithIndex(m_view->currentImgIndex());
+}
+
+void ImageROIPresenter::processSelectCoR() {
+ m_view->changeSelectionState(IImageROIView::SelectCoR);
+}
+
+void ImageROIPresenter::processSelectROI() {
+ m_view->changeSelectionState(IImageROIView::SelectROIFirst);
+}
+
+void ImageROIPresenter::processSelectNormalization() {
+ m_view->changeSelectionState(IImageROIView::SelectNormAreaFirst);
+}
+
+void ImageROIPresenter::processFinishedCoR() {
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processFinishedROI() {
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processFinishedNormalization() {
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processResetCoR() {
+ m_view->resetCoR();
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processResetROI() {
+ m_view->resetROI();
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processResetNormalization() {
+ m_view->resetNormArea();
+ m_view->changeSelectionState(IImageROIView::SelectNone);
+}
+
+void ImageROIPresenter::processShutDown() { m_view->saveSettings(); }
+
+Mantid::API::WorkspaceGroup_sptr
+ImageROIPresenter::loadFITSStack(const std::vector<std::string> &imgs) {
+ const std::string wsName = "__stack_fits_viewer_tomography_gui";
+ auto &ads = Mantid::API::AnalysisDataService::Instance();
+ if (ads.doesExist(wsName)) {
+ ads.remove(wsName);
+ }
+ for (size_t i = 0; i < imgs.size(); ++i) {
+ loadFITSImage(imgs[i], wsName);
+ }
+
+ Mantid::API::WorkspaceGroup_sptr wsg;
+ try {
+ wsg = ads.retrieveWS<Mantid::API::WorkspaceGroup>(wsName);
+ } catch (std::exception &e) {
+ throw std::runtime_error(
+ "Could not produce a workspace group for the stack images. Cannot "
+ "display it. Error details: " +
+ std::string(e.what()));
+ }
+
+ if (wsg &&
+ Mantid::API::AnalysisDataService::Instance().doesExist(wsg->name()) &&
+ imgs.size() == wsg->size()) {
+ return wsg;
+ } else {
+ return Mantid::API::WorkspaceGroup_sptr();
+ }
+}
+
+void ImageROIPresenter::loadFITSImage(const std::string &path,
+ const std::string &wsName) {
+ // get fits file into workspace and retrieve it from the ADS
+ auto alg = Mantid::API::AlgorithmManager::Instance().create("LoadFITS");
+ try {
+ alg->initialize();
+ alg->setPropertyValue("Filename", path);
+ alg->setProperty("OutputWorkspace", wsName);
+ // this is way faster when loading into a MatrixWorkspace
+ alg->setProperty("LoadAsRectImg", true);
+ } catch (std::exception &e) {
+ throw std::runtime_error("Failed to initialize the mantid algorithm to "
+ "load images. Error description: " +
+ std::string(e.what()));
+ }
+
+ try {
+ alg->execute();
+ } catch (std::exception &e) {
+ throw std::runtime_error(
+ "Failed to load image. Could not load this file as a "
+ "FITS image: " +
+ std::string(e.what()));
+ }
+
+ if (!alg->isExecuted()) {
+ throw std::runtime_error(
+ "Failed to load image correctly. Note that even though "
+ "the image file has been loaded it seems to contain errors.");
+ }
+
+ try {
+ Mantid::API::WorkspaceGroup_sptr wsg;
+ Mantid::API::MatrixWorkspace_sptr ws;
+ const auto &ads = Mantid::API::AnalysisDataService::Instance();
+ wsg = ads.retrieveWS<Mantid::API::WorkspaceGroup>(wsName);
+ ws = ads.retrieveWS<Mantid::API::MatrixWorkspace>(wsg->getNames()[0]);
+ } catch (std::exception &e) {
+ throw std::runtime_error(
+ "Could not load image contents for file '" + path +
+ "'. An unrecoverable error "
+ "happened when trying to load the image contents. Cannot "
+ "display it. Error details: " +
+ std::string(e.what()));
+ }
+}
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
diff --git a/MantidQt/CustomInterfaces/src/Tomography/ImageROIViewQtWidget.cpp b/MantidQt/CustomInterfaces/src/Tomography/ImageROIViewQtWidget.cpp
new file mode 100644
index 0000000000000000000000000000000000000000..51d23189b5cc869314dadd5affa48158f7b373b0
--- /dev/null
+++ b/MantidQt/CustomInterfaces/src/Tomography/ImageROIViewQtWidget.cpp
@@ -0,0 +1,830 @@
+#include "MantidAPI/MatrixWorkspace.h"
+#include "MantidAPI/WorkspaceGroup.h"
+#include "MantidQtAPI/AlgorithmInputHistory.h"
+#include "MantidQtAPI/AlgorithmRunner.h"
+
+#include "MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h"
+
+using namespace Mantid::API;
+using namespace MantidQt::CustomInterfaces;
+
+#include <QCloseEvent>
+#include <QFileDialog>
+#include <QMessageBox>
+#include <QPainter>
+#include <QSettings>
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+// this would be more like a CustomWidget if it's eventually moved there
+const std::string ImageROIViewQtWidget::m_settingsGroup =
+ "CustomInterfaces/ImageROIView";
+
+ImageROIViewQtWidget::ImageROIViewQtWidget(QWidget *parent)
+ : QWidget(parent), IImageROIView(), m_imgWidth(0), m_imgHeight(0),
+ m_selectionState(SelectNone), m_presenter(NULL) {
+ initLayout();
+
+ // using an event filter. might be worth refactoring into a specific
+ // QLabel + selection of ROI+NormArea+CoR class
+ // not using Qwt Pickers to avoid Qwt version issues..
+ m_ui.label_img->installEventFilter(this);
+}
+
+void ImageROIViewQtWidget::setParams(ImageStackPreParams ¶ms) {
+ m_params = params;
+ setParamWidgets(m_params);
+}
+
+ImageStackPreParams ImageROIViewQtWidget::userSelection() const {
+ return m_params;
+}
+
+void ImageROIViewQtWidget::changeSelectionState(
+ const IImageROIView::SelectionState &state) {
+ m_selectionState = state;
+}
+
+void ImageROIViewQtWidget::showStack(const std::string & /*path*/) {
+ // TODO:
+ // a) load as proper stack of images workspace - this can only be done when
+ // we have a firt working version of the "lean MD workspace". This method
+ // would then load into one workspace of such type.
+ // b) load as workspace group - this is done in the overloaded method below
+
+ // enableParamWidgets(true);
+}
+
+void ImageROIViewQtWidget::showStack(Mantid::API::WorkspaceGroup_sptr &wsg) {
+ if (0 == wsg->size())
+ return;
+
+ m_stack = wsg;
+
+ m_ui.horizontalScrollBar_img_stack->setEnabled(true);
+ m_ui.horizontalScrollBar_img_stack->setMinimum(0);
+ m_ui.horizontalScrollBar_img_stack->setMaximum(
+ static_cast<int>(m_stack->size() - 1));
+
+ size_t width = 0, height = 0;
+ try {
+ MatrixWorkspace_sptr ws =
+ boost::dynamic_pointer_cast<MatrixWorkspace>(wsg->getItem(0));
+ if (!ws)
+ return;
+ width = ws->blocksize();
+ height = ws->getNumberHistograms();
+ } catch (std::exception &e) {
+ QMessageBox::warning(this, "Cannot load image information",
+ "There was a problem while "
+ " trying to find the size of the image: " +
+ QString::fromStdString(e.what()));
+ }
+
+ showProjection(m_stack, 0);
+ initParamWidgets(width, height);
+ refreshROIetAl();
+ enableParamWidgets(true);
+}
+
+void ImageROIViewQtWidget::showProjection(
+ const Mantid::API::WorkspaceGroup_sptr &wsg, size_t idx) {
+
+ showProjectionImage(wsg, idx);
+ refreshROIetAl();
+
+ // give name, set up scroll/slider
+ std::string name;
+ try {
+ MatrixWorkspace_sptr ws =
+ boost::dynamic_pointer_cast<MatrixWorkspace>(wsg->getItem(idx));
+ if (!ws)
+ return;
+ name = ws->run().getLogData("run_title")->value();
+ } catch (std::exception &e) {
+ QMessageBox::warning(this, "Cannot load image information",
+ "There was a problem while "
+ " trying to find the name of the image: " +
+ QString::fromStdString(e.what()));
+ }
+ m_ui.label_img_name->setText(QString::fromStdString(name));
+
+ const size_t numPics = wsg->size();
+ m_ui.lineEdit_img_seq->setText(
+ QString::fromStdString("1/" + boost::lexical_cast<std::string>(numPics)));
+ m_ui.horizontalScrollBar_img_stack->setValue(static_cast<int>(idx));
+}
+
+void ImageROIViewQtWidget::userWarning(const std::string &err,
+ const std::string &description) {
+ QMessageBox::warning(this, QString::fromStdString(err),
+ QString::fromStdString(description), QMessageBox::Ok,
+ QMessageBox::Ok);
+}
+
+void ImageROIViewQtWidget::userError(const std::string &err,
+ const std::string &description) {
+ QMessageBox::critical(this, QString::fromStdString(err),
+ QString::fromStdString(description), QMessageBox::Ok,
+ QMessageBox::Ok);
+}
+
+std::string ImageROIViewQtWidget::askImgOrStackPath() {
+ // get path
+ QString fitsStr = QString("Supported formats: FITS, TIFF and PNG "
+ "(*.fits *.fit *.tiff *.tif *.png);;"
+ "FITS, Flexible Image Transport System images "
+ "(*.fits *.fit);;"
+ "TIFF, Tagged Image File Format "
+ "(*.tif *.tiff);;"
+ "PNG, Portable Network Graphics "
+ "(*.png);;"
+ "Other extensions/all files (*.*)");
+ QString prevPath =
+ MantidQt::API::AlgorithmInputHistory::Instance().getPreviousDirectory();
+ QString path(QFileDialog::getExistingDirectory(
+ this, tr("Open stack of images"), prevPath, QFileDialog::ShowDirsOnly));
+ if (!path.isEmpty()) {
+ MantidQt::API::AlgorithmInputHistory::Instance().setPreviousDirectory(path);
+ }
+
+ return path.toStdString();
+}
+
+void ImageROIViewQtWidget::saveSettings() const {
+ QSettings qs;
+ qs.beginGroup(QString::fromStdString(m_settingsGroup));
+
+ qs.setValue("interface-win-geometry", saveGeometry());
+ qs.endGroup();
+}
+
+void ImageROIViewQtWidget::resetCoR() {
+ int midx =
+ (m_ui.spinBox_cor_x->minimum() + m_ui.spinBox_cor_x->maximum()) / 2;
+ m_ui.spinBox_cor_x->setValue(midx);
+ int midy =
+ (m_ui.spinBox_cor_y->minimum() + m_ui.spinBox_cor_y->maximum()) / 2;
+ m_ui.spinBox_cor_y->setValue(midy);
+}
+
+void ImageROIViewQtWidget::resetROI() {
+ m_ui.spinBox_roi_top_x->setValue(0);
+ m_ui.spinBox_roi_top_y->setValue(0);
+ m_ui.spinBox_roi_bottom_x->setValue(m_ui.spinBox_roi_bottom_x->maximum());
+ m_ui.spinBox_roi_bottom_y->setValue(m_ui.spinBox_roi_bottom_y->maximum());
+}
+
+void ImageROIViewQtWidget::resetNormArea() {
+ m_ui.spinBox_norm_top_x->setValue(0);
+ m_ui.spinBox_norm_top_y->setValue(0);
+ m_ui.spinBox_norm_bottom_x->setValue(0);
+ m_ui.spinBox_norm_bottom_y->setValue(0);
+}
+
+void ImageROIViewQtWidget::initLayout() {
+ // setup container ui
+ m_ui.setupUi(this);
+
+ QList<int> sizes;
+ sizes.push_back(1000);
+ sizes.push_back(100);
+ m_ui.splitter_main_horiz->setSizes(sizes);
+
+ sizes.clear();
+ sizes.push_back(10);
+ sizes.push_back(1000);
+ m_ui.splitter_img_vertical->setSizes(sizes);
+ m_ui.horizontalScrollBar_img_stack->setEnabled(false);
+ m_ui.lineEdit_img_seq->setText("---");
+
+ enableParamWidgets(false);
+
+ setupConnections();
+
+ initParamWidgets(1, 1);
+ grabCoRFromWidgets();
+ grabROIFromWidgets();
+ grabNormAreaFromWidgets();
+
+ // presenter that knows how to handle a IImageROIView should take care
+ // of all the logic. Note the view needs to now the concrete presenter here
+ m_presenter.reset(new ImageROIPresenter(this));
+
+ // it will know what compute resources and tools we have available:
+ // This view doesn't even know the names of compute resources, etc.
+ m_presenter->notify(ImageROIPresenter::Init);
+}
+
+void ImageROIViewQtWidget::setupConnections() {
+
+ // 'browse' buttons
+ connect(m_ui.pushButton_browse_img, SIGNAL(released()), this,
+ SLOT(browseImgClicked()));
+
+ connect(m_ui.pushButton_cor, SIGNAL(released()), this, SLOT(corClicked()));
+ connect(m_ui.pushButton_cor_reset, SIGNAL(released()), this,
+ SLOT(corResetClicked()));
+
+ connect(m_ui.pushButton_roi, SIGNAL(released()), this, SLOT(roiClicked()));
+ connect(m_ui.pushButton_roi_reset, SIGNAL(released()), this,
+ SLOT(roiResetClicked()));
+
+ connect(m_ui.pushButton_norm_area, SIGNAL(released()), this,
+ SLOT(normAreaClicked()));
+ connect(m_ui.pushButton_norm_area_reset, SIGNAL(released()), this,
+ SLOT(normAreaResetClicked()));
+
+ // image sequence scroll/slide:
+ connect(m_ui.horizontalScrollBar_img_stack, SIGNAL(valueChanged(int)), this,
+ SLOT(updateFromImagesSlider(int)));
+
+ // parameter (points) widgets
+ connect(m_ui.spinBox_cor_x, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedCoR(int)));
+ connect(m_ui.spinBox_cor_y, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedCoR(int)));
+
+ connect(m_ui.spinBox_roi_top_x, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedROI(int)));
+ connect(m_ui.spinBox_roi_top_y, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedROI(int)));
+ connect(m_ui.spinBox_roi_bottom_x, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedROI(int)));
+ connect(m_ui.spinBox_roi_bottom_y, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedROI(int)));
+
+ connect(m_ui.spinBox_norm_top_x, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedNormArea(int)));
+ connect(m_ui.spinBox_norm_top_y, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedNormArea(int)));
+ connect(m_ui.spinBox_norm_bottom_x, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedNormArea(int)));
+ connect(m_ui.spinBox_norm_bottom_y, SIGNAL(valueChanged(int)), this,
+ SLOT(valueUpdatedNormArea(int)));
+}
+
+void ImageROIViewQtWidget::valueUpdatedCoR(int) {
+ grabCoRFromWidgets();
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::valueUpdatedROI(int) {
+ grabROIFromWidgets();
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::valueUpdatedNormArea(int) {
+ grabNormAreaFromWidgets();
+ refreshROIetAl();
+}
+
+/**
+ * Parameter values from spin box widgets => coordinate parameters
+ * data member
+ */
+void ImageROIViewQtWidget::grabCoRFromWidgets() {
+ m_params.cor = Mantid::Kernel::V2D(m_ui.spinBox_cor_x->value(),
+ m_ui.spinBox_cor_y->value());
+}
+
+void ImageROIViewQtWidget::grabROIFromWidgets() {
+ m_params.roi =
+ std::make_pair(Mantid::Kernel::V2D(m_ui.spinBox_roi_top_x->value(),
+ m_ui.spinBox_roi_top_y->value()),
+ Mantid::Kernel::V2D(m_ui.spinBox_roi_bottom_x->value(),
+ m_ui.spinBox_roi_bottom_y->value()));
+}
+
+void ImageROIViewQtWidget::grabNormAreaFromWidgets() {
+ m_params.normalizationRegion =
+ std::make_pair(Mantid::Kernel::V2D(m_ui.spinBox_norm_top_x->value(),
+ m_ui.spinBox_norm_top_y->value()),
+ Mantid::Kernel::V2D(m_ui.spinBox_norm_bottom_x->value(),
+ m_ui.spinBox_norm_bottom_y->value()));
+}
+
+/**
+ * Updates the image view with the current image index and selection
+ * of parameters (ROI, normalization area, CoR). This needs to be used
+ * for every event that modifies the current image and/or selection of
+ * parameters.
+ */
+void ImageROIViewQtWidget::refreshROIetAl() {
+
+ const QPixmap *pp = m_ui.label_img->pixmap();
+ if (!pp)
+ return;
+
+ QPixmap toDisplay(*m_basePixmap.get());
+ QPainter painter(&toDisplay);
+
+ // TODO: display settings / nicer symbol?
+
+ QPen penCoR(Qt::red);
+ painter.setPen(penCoR);
+ painter.drawLine(static_cast<int>(m_params.cor.X() - 5),
+ static_cast<int>(m_params.cor.Y()),
+ static_cast<int>(m_params.cor.X() + 5),
+ static_cast<int>(m_params.cor.Y()));
+ painter.drawLine(static_cast<int>(m_params.cor.X()),
+ static_cast<int>(m_params.cor.Y() - 5),
+ static_cast<int>(m_params.cor.X()),
+ static_cast<int>(m_params.cor.Y() + 5));
+
+ QPen penROI(Qt::green);
+ painter.setPen(penROI);
+ painter.drawRect(
+ static_cast<int>(m_params.roi.first.X()),
+ static_cast<int>(m_params.roi.first.Y()),
+ static_cast<int>(m_params.roi.second.X() - m_params.roi.first.X()),
+ static_cast<int>(m_params.roi.second.Y() - m_params.roi.first.Y()));
+
+ QPen penNA(Qt::yellow);
+ painter.setPen(penNA);
+ painter.drawRect(static_cast<int>(m_params.normalizationRegion.first.X()),
+ static_cast<int>(m_params.normalizationRegion.first.Y()),
+ static_cast<int>(m_params.normalizationRegion.second.X() -
+ m_params.normalizationRegion.first.X()),
+ static_cast<int>(m_params.normalizationRegion.second.Y() -
+ m_params.normalizationRegion.first.Y()));
+
+ m_ui.label_img->setPixmap(toDisplay);
+}
+
+void ImageROIViewQtWidget::refreshCoR() {
+ const QPixmap *pp = m_ui.label_img->pixmap();
+ if (!pp)
+ return;
+
+ grabCoRFromWidgets();
+
+ QPixmap toDisplay(*m_basePixmap.get());
+ QPainter painter(&toDisplay);
+ QPen pen(Qt::red);
+ painter.setPen(pen);
+ painter.drawLine(static_cast<int>(m_params.cor.X() - 5),
+ static_cast<int>(m_params.cor.Y()),
+ static_cast<int>(m_params.cor.X() + 5),
+ static_cast<int>(m_params.cor.Y()));
+ painter.drawLine(static_cast<int>(m_params.cor.X()),
+ static_cast<int>(m_params.cor.Y() - 5),
+ static_cast<int>(m_params.cor.X()),
+ static_cast<int>(m_params.cor.Y() + 5));
+ m_ui.label_img->setPixmap(toDisplay);
+}
+
+void ImageROIViewQtWidget::refreshROI() {
+ const QPixmap *pp = m_ui.label_img->pixmap();
+ if (!pp)
+ return;
+
+ grabROIFromWidgets();
+ // TODO: display proper symbol
+
+ // QPixmap const *pm = m_ui.label_img->pixmap();
+ QPixmap toDisplay(*m_basePixmap.get());
+ QPainter painter(&toDisplay);
+ QPen pen(Qt::green);
+ painter.setPen(pen);
+ painter.drawRect(
+ static_cast<int>(m_params.roi.first.X()),
+ static_cast<int>(m_params.roi.first.Y()),
+ static_cast<int>(m_params.roi.second.X() - m_params.roi.first.X()),
+ static_cast<int>(m_params.roi.second.Y() - m_params.roi.first.Y()));
+ m_ui.label_img->setPixmap(toDisplay);
+}
+
+void ImageROIViewQtWidget::refreshNormArea() {
+ // TODO: display proper symbol
+ const QPixmap *pp = m_ui.label_img->pixmap();
+ if (!pp)
+ return;
+
+ grabNormAreaFromWidgets();
+
+ // QPixmap const *pm = m_ui.label_img->pixmap();
+ QPixmap toDisplay(*m_basePixmap.get());
+ QPainter painter(&toDisplay);
+ QPen pen(Qt::yellow);
+ painter.setPen(pen);
+ painter.drawRect(static_cast<int>(m_params.normalizationRegion.first.X()),
+ static_cast<int>(m_params.normalizationRegion.first.Y()),
+ static_cast<int>(m_params.normalizationRegion.second.X() -
+ m_params.normalizationRegion.first.X()),
+ static_cast<int>(m_params.normalizationRegion.second.Y() -
+ m_params.normalizationRegion.first.Y()));
+ m_ui.label_img->setPixmap(toDisplay);
+}
+
+void ImageROIViewQtWidget::enableParamWidgets(bool enable) {
+ m_ui.groupBox_cor->setEnabled(enable);
+ m_ui.groupBox_roi->setEnabled(enable);
+ m_ui.groupBox_norm->setEnabled(enable);
+}
+
+void ImageROIViewQtWidget::initParamWidgets(size_t maxWidth, size_t maxHeight) {
+ m_imgWidth = static_cast<int>(maxWidth);
+ m_imgHeight = static_cast<int>(maxHeight);
+
+ m_ui.spinBox_cor_x->setMinimum(0);
+ m_ui.spinBox_cor_x->setMaximum(m_imgWidth - 1);
+ m_ui.spinBox_cor_y->setMinimum(0);
+ m_ui.spinBox_cor_y->setMaximum(m_imgHeight - 1);
+ resetCoR();
+
+ m_ui.spinBox_roi_top_x->setMinimum(0);
+ m_ui.spinBox_roi_top_x->setMaximum(m_imgWidth - 1);
+ m_ui.spinBox_roi_top_y->setMinimum(0);
+ m_ui.spinBox_roi_top_y->setMaximum(m_imgHeight - 1);
+
+ m_ui.spinBox_roi_bottom_x->setMinimum(0);
+ m_ui.spinBox_roi_bottom_x->setMaximum(m_imgWidth - 1);
+ m_ui.spinBox_roi_bottom_y->setMinimum(0);
+ m_ui.spinBox_roi_bottom_y->setMaximum(m_imgHeight - 1);
+
+ resetROI();
+
+ m_ui.spinBox_norm_top_x->setMinimum(0);
+ m_ui.spinBox_norm_top_x->setMaximum(m_imgWidth - 1);
+ m_ui.spinBox_norm_top_y->setMinimum(0);
+ m_ui.spinBox_norm_top_y->setMaximum(m_imgHeight - 1);
+
+ m_ui.spinBox_norm_bottom_x->setMinimum(0);
+ m_ui.spinBox_norm_bottom_x->setMaximum(m_imgWidth - 1);
+ m_ui.spinBox_norm_bottom_y->setMinimum(0);
+ m_ui.spinBox_norm_bottom_y->setMaximum(m_imgHeight - 1);
+
+ resetNormArea();
+}
+
+void ImageROIViewQtWidget::setParamWidgets(ImageStackPreParams ¶ms) {
+ m_ui.spinBox_cor_x->setValue(static_cast<int>(params.cor.X()));
+ m_ui.spinBox_cor_y->setValue(static_cast<int>(params.cor.Y()));
+
+ m_ui.spinBox_roi_top_x->setValue(static_cast<int>(params.roi.first.X()));
+ m_ui.spinBox_roi_top_y->setValue(static_cast<int>(params.roi.first.Y()));
+
+ m_ui.spinBox_roi_bottom_x->setValue(static_cast<int>(params.roi.second.X()));
+ m_ui.spinBox_roi_bottom_y->setValue(static_cast<int>(params.roi.second.Y()));
+
+ m_ui.spinBox_norm_top_x->setValue(
+ static_cast<int>(params.normalizationRegion.first.X()));
+ m_ui.spinBox_norm_top_y->setValue(
+ static_cast<int>(params.normalizationRegion.first.Y()));
+
+ m_ui.spinBox_norm_bottom_x->setValue(
+ static_cast<int>(params.normalizationRegion.second.X()));
+ m_ui.spinBox_norm_bottom_y->setValue(
+ static_cast<int>(params.normalizationRegion.second.Y()));
+}
+
+void ImageROIViewQtWidget::corClicked() {
+ m_presenter->notify(IImageROIPresenter::SelectCoR);
+}
+
+void ImageROIViewQtWidget::corResetClicked() {
+ m_presenter->notify(IImageROIPresenter::ResetCoR);
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::roiClicked() {
+ m_presenter->notify(IImageROIPresenter::SelectROI);
+}
+
+void ImageROIViewQtWidget::roiResetClicked() {
+ m_presenter->notify(IImageROIPresenter::ResetROI);
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::normAreaClicked() {
+ m_presenter->notify(IImageROIPresenter::SelectNormalization);
+}
+
+void ImageROIViewQtWidget::normAreaResetClicked() {
+ m_presenter->notify(IImageROIPresenter::ResetNormalization);
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::browseImgClicked() {
+ m_presenter->notify(IImageROIPresenter::BrowseImgOrStack);
+}
+
+void ImageROIViewQtWidget::updateFromImagesSlider(int /* current */) {
+ m_presenter->notify(IImageROIPresenter::UpdateImgIndex);
+}
+
+size_t ImageROIViewQtWidget::currentImgIndex() const {
+ return m_ui.horizontalScrollBar_img_stack->value();
+}
+
+void ImageROIViewQtWidget::updateImgWithIndex(size_t idx) {
+ int max = m_ui.horizontalScrollBar_img_stack->maximum();
+ int current = m_ui.horizontalScrollBar_img_stack->value();
+
+ showProjection(m_stack, idx);
+ m_ui.lineEdit_img_seq->setText(
+ QString::fromStdString(boost::lexical_cast<std::string>(current + 1) +
+ "/" + boost::lexical_cast<std::string>(max + 1)));
+}
+
+void ImageROIViewQtWidget::showProjectionImage(
+ const Mantid::API::WorkspaceGroup_sptr &wsg, size_t idx) {
+
+ MatrixWorkspace_sptr ws;
+ try {
+ ws = boost::dynamic_pointer_cast<MatrixWorkspace>(wsg->getItem(idx));
+ if (!ws)
+ return;
+ } catch (std::exception &e) {
+ QMessageBox::warning(
+ this, "Cannot load image",
+ "There was a problem while trying to find the image data: " +
+ QString::fromStdString(e.what()));
+ }
+
+ const size_t MAXDIM = 2048 * 16;
+ size_t width;
+ try {
+ width = boost::lexical_cast<size_t>(ws->run().getLogData("Axis1")->value());
+ // TODO: add a settings option for this (like max mem allocation for
+ // images)?
+ if (width >= MAXDIM)
+ width = MAXDIM;
+ } catch (std::exception &e) {
+ QMessageBox::critical(this, "Cannot load image",
+ "There was a problem while trying to "
+ "find the width of the image: " +
+ QString::fromStdString(e.what()));
+ return;
+ }
+
+ size_t height;
+ try {
+ height =
+ boost::lexical_cast<size_t>(ws->run().getLogData("Axis2")->value());
+ if (height >= MAXDIM)
+ height = MAXDIM;
+ } catch (std::exception &e) {
+ QMessageBox::critical(this, "Cannot load image",
+ "There was a problem while trying to "
+ "find the height of the image: " +
+ QString::fromStdString(e.what()));
+ return;
+ }
+
+ // images are loaded as 1 histogram == 1 pixel (1 bin per histogram):
+ if (height != ws->getNumberHistograms() || width != ws->blocksize()) {
+ QMessageBox::critical(
+ this, "Image dimensions do not match in the input image workspace",
+ "Could not load the expected "
+ "number of rows and columns.");
+ return;
+ }
+ // find min and max to scale pixel values
+ double min = std::numeric_limits<double>::max(),
+ max = std::numeric_limits<double>::min();
+ for (size_t i = 0; i < ws->getNumberHistograms(); ++i) {
+ for (size_t j = 0; j < ws->blocksize(); ++j) {
+ const double &v = ws->readY(i)[j];
+ if (v < min)
+ min = v;
+ if (v > max)
+ max = v;
+ }
+ }
+ if (min >= max) {
+ QMessageBox::warning(
+ this, "Empty image!",
+ "The image could be loaded but it contains "
+ "effectively no information, all pixels have the same value.");
+ // black picture
+ QPixmap pix(static_cast<int>(width), static_cast<int>(height));
+ pix.fill(QColor(0, 0, 0));
+ m_ui.label_img->setPixmap(pix);
+ m_ui.label_img->show();
+ m_basePixmap.reset(new QPixmap(pix));
+ return;
+ }
+
+ // load / transfer image into a QImage
+ QImage rawImg(QSize(static_cast<int>(width), static_cast<int>(height)),
+ QImage::Format_RGB32);
+ const double max_min = max - min;
+ const double scaleFactor = 255.0 / max_min;
+ for (size_t yi = 0; yi < width; ++yi) {
+ for (size_t xi = 0; xi < width; ++xi) {
+ const double &v = ws->readY(yi)[xi];
+ // color the range min-max in gray scale. To apply different color
+ // maps you'd need to use rawImg.setColorTable() or similar.
+ const int scaled = static_cast<int>(scaleFactor * (v - min));
+ QRgb vRgb = qRgb(scaled, scaled, scaled);
+ rawImg.setPixel(static_cast<int>(xi), static_cast<int>(yi), vRgb);
+ }
+ }
+
+ // paint and show image
+ // direct from image
+ QPixmap pix = QPixmap::fromImage(rawImg);
+ m_ui.label_img->setPixmap(pix);
+ m_ui.label_img->show();
+ m_basePixmap.reset(new QPixmap(pix));
+ // Alternative, drawing with a painter:
+ // QPixmap pix(static_cast<int>(width), static_cast<int>(height));
+ // QPainter painter;
+ // painter.begin(&pix);
+ // painter.drawImage(0, 0, rawImg);
+ // painter.end();
+ // m_ui.label_img->setPixmap(pix);
+ // m_ui.label_img->show();
+ // m_basePixmap.reset(new QPixmap(pix));
+}
+
+/**
+ * Qt events filter for the mouse click and click&drag events that are
+ * used to select points and rectangles. Part of the logic of the
+ * selection is handled here. The test on the presenter can only test
+ * the begin and end of the selection. For full testability (including
+ * the mouse interaction), this method should be implemented fully in
+ * terms of notifications to the presenter. This would require a bunch
+ * of new notifications in IImageROIPresenter, and making at least all
+ * the mouseUpdateCoR, mouseUpdateROICorners12, mouseXXX methods
+ * public in this view interface. This can be considered at a later
+ * stage.
+ *
+ * @param obj object concerned by the event
+ * @param event event received (mouse click, release, move, etc.)
+ **/
+bool ImageROIViewQtWidget::eventFilter(QObject *obj, QEvent *event) {
+ // quick ignore
+ if (IImageROIView::SelectNone == m_selectionState)
+ return false;
+
+ if (m_ui.label_img == obj) {
+
+ QPoint p = m_ui.label_img->mapFromGlobal(QCursor::pos());
+ int x = p.x();
+ int y = p.y();
+ // ignore potential clicks outside of the image
+ if (x >= m_imgWidth || y >= m_imgHeight || x < 0 || y < 0)
+ return false;
+
+ auto type = event->type();
+ if (type == QEvent::MouseButtonPress) {
+
+ if (IImageROIView::SelectCoR == m_selectionState) {
+ mouseUpdateCoR(x, y);
+ } else if (IImageROIView::SelectROIFirst == m_selectionState) {
+ mouseUpdateROICorners12(x, y);
+ } else if (IImageROIView::SelectNormAreaFirst == m_selectionState) {
+ mouseUpdateNormAreaCorners12(x, y);
+ }
+ } else if (type == QEvent::MouseMove) {
+
+ if (IImageROIView::SelectROISecond == m_selectionState) {
+ mouseUpdateROICorner2(x, y);
+ } else if (IImageROIView::SelectNormAreaSecond == m_selectionState) {
+ mouseUpdateNormAreaCorner2(x, y);
+ }
+ } else if (type == QEvent::MouseButtonRelease) {
+
+ if (IImageROIView::SelectROISecond == m_selectionState) {
+ mouseFinishROI(x, y);
+ } else if (IImageROIView::SelectNormAreaSecond == m_selectionState) {
+ mouseFinishNormArea(x, y);
+ }
+ }
+ }
+ // pass on the event up to the parent class
+ return false;
+}
+
+/**
+ * Parameter values from mouse position (at a relevant event like
+ * first click, or last release) => spin box widgets, AND coordinate
+ * parameters data member. This grabs the Center of Rotation (CoR)
+ *
+ * @param x position on x axis (local to the image)
+ * @param y position on y axis (local to the image)
+ */
+void ImageROIViewQtWidget::grabCoRFromMousePoint(int x, int y) {
+ m_params.cor = Mantid::Kernel::V2D(x, y);
+ m_ui.spinBox_cor_x->setValue(x);
+ m_ui.spinBox_cor_y->setValue(y);
+}
+
+void ImageROIViewQtWidget::grabROICorner1FromMousePoint(int x, int y) {
+ m_params.roi.first = Mantid::Kernel::V2D(x, y);
+ m_ui.spinBox_roi_top_x->setValue(x);
+ m_ui.spinBox_roi_top_y->setValue(y);
+}
+
+void ImageROIViewQtWidget::grabROICorner2FromMousePoint(int x, int y) {
+ m_params.roi.second = Mantid::Kernel::V2D(x, y);
+ m_ui.spinBox_roi_bottom_x->setValue(x);
+ m_ui.spinBox_roi_bottom_y->setValue(y);
+}
+
+void ImageROIViewQtWidget::grabNormAreaCorner1FromMousePoint(int x, int y) {
+ m_params.normalizationRegion.first = Mantid::Kernel::V2D(x, y);
+ m_ui.spinBox_norm_top_x->setValue(x);
+ m_ui.spinBox_norm_top_y->setValue(y);
+}
+
+void ImageROIViewQtWidget::grabNormAreaCorner2FromMousePoint(int x, int y) {
+ m_params.normalizationRegion.second = Mantid::Kernel::V2D(x, y);
+ m_ui.spinBox_norm_bottom_x->setValue(x);
+ m_ui.spinBox_norm_bottom_y->setValue(y);
+}
+
+/**
+ * This is an update and implicity a finish, as there's only one
+ * update for the CoR (single point-click). The coordinates count as
+ * usual in Qt widgets. Top-left is (0,0).
+ *
+ * @param x position on x axis (local to the image)
+ * @param y position on y axis (local to the image)
+ */
+void ImageROIViewQtWidget::mouseUpdateCoR(int x, int y) {
+ grabCoRFromMousePoint(x, y);
+ refreshROIetAl();
+
+ m_presenter->notify(IImageROIPresenter::FinishedCoR);
+}
+
+/**
+ * Start of ROI selection (or first click after pushing "select
+ * ROI". The rectangle starts as a point from the mouse click.
+ *
+ * @param x position on x axis (local to the image)
+ * @param y position on y axis (local to the image)
+ */
+void ImageROIViewQtWidget::mouseUpdateROICorners12(int x, int y) {
+ grabROICorner1FromMousePoint(x, y);
+ grabROICorner2FromMousePoint(x, y);
+ refreshROIetAl();
+ m_selectionState = IImageROIView::SelectROISecond;
+}
+
+/**
+ * Change the rectangle while pressing the mouse button. The first
+ * corner stays at the first click, now only the second corner changes
+ * to the new mouse position. On release of the mouse button we'll get
+ * to mouseFinishROICorner2() and end the selection of the ROI.
+ *
+ * @param x position on x axis (local to the image)
+ * @param y position on y axis (local to the image)
+ */
+void ImageROIViewQtWidget::mouseUpdateROICorner2(int x, int y) {
+ grabROICorner2FromMousePoint(x, y);
+ refreshROIetAl();
+}
+
+/**
+ * End of ROI selection (or mouse button release after clicking once
+ * and move, all after pushing "select ROI". The second corner of the
+ * rectangle is set at the current position.
+ *
+ * @param x position on x axis (local to the image)
+ * @param y position on y axis (local to the image)
+ */
+void ImageROIViewQtWidget::mouseFinishROI(int x, int y) {
+ grabROICorner2FromMousePoint(x, y);
+ refreshROIetAl();
+ m_presenter->notify(IImageROIPresenter::FinishedROI);
+}
+
+void ImageROIViewQtWidget::mouseUpdateNormAreaCorners12(int x, int y) {
+ grabNormAreaCorner1FromMousePoint(x, y);
+ grabNormAreaCorner2FromMousePoint(x, y);
+ refreshROIetAl();
+ m_selectionState = IImageROIView::SelectNormAreaSecond;
+}
+
+void ImageROIViewQtWidget::mouseUpdateNormAreaCorner2(int x, int y) {
+ grabNormAreaCorner2FromMousePoint(x, y);
+ refreshROIetAl();
+}
+
+void ImageROIViewQtWidget::mouseFinishNormArea(int x, int y) {
+ grabNormAreaCorner2FromMousePoint(x, y);
+ refreshROIetAl();
+ m_presenter->notify(IImageROIPresenter::FinishedNormalization);
+}
+
+void ImageROIViewQtWidget::readSettings() {
+ QSettings qs;
+ qs.beginGroup(QString::fromStdString(m_settingsGroup));
+ restoreGeometry(qs.value("interface-win-geometry").toByteArray());
+ qs.endGroup();
+}
+
+void ImageROIViewQtWidget::closeEvent(QCloseEvent *event) {
+ m_presenter->notify(IImageROIPresenter::ShutDown);
+ event->accept();
+}
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
diff --git a/MantidQt/CustomInterfaces/src/Tomography/ImageStackPreParams.cpp b/MantidQt/CustomInterfaces/src/Tomography/ImageStackPreParams.cpp
new file mode 100644
index 0000000000000000000000000000000000000000..60d8a1e2bd0dbc8a26e01cb9dcae0898e0a27395
--- /dev/null
+++ b/MantidQt/CustomInterfaces/src/Tomography/ImageStackPreParams.cpp
@@ -0,0 +1,13 @@
+#include "MantidQtCustomInterfaces/Tomography/ImageStackPreParams.h"
+
+using namespace MantidQt::CustomInterfaces;
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+ImageStackPreParams::ImageStackPreParams()
+{
+
+}
+} // namespace CustomInterfaces
+} // namespace MantidQt
diff --git a/MantidQt/CustomInterfaces/src/Tomography/StackOfImagesDirs.cpp b/MantidQt/CustomInterfaces/src/Tomography/StackOfImagesDirs.cpp
new file mode 100644
index 0000000000000000000000000000000000000000..d8be84c4a5db207fb1285d9888532c6e30c86fe3
--- /dev/null
+++ b/MantidQt/CustomInterfaces/src/Tomography/StackOfImagesDirs.cpp
@@ -0,0 +1,129 @@
+#include "MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h"
+
+#include <boost/algorithm/string.hpp>
+
+#include <Poco/DirectoryIterator.h>
+#include <Poco/Path.h>
+
+namespace MantidQt {
+namespace CustomInterfaces {
+
+const std::string StackOfImagesDirs::g_descr =
+ "A directory (folder) that contains subdirectories with names "
+ "starting with:\n- 'Data' (for sample images),\n- 'Flat' (for white "
+ "bean images),\n- 'Dark' (for dark images)\nThe first one is "
+ "mandatory whereas the other two are optional.";
+
+const std::string StackOfImagesDirs::g_sampleNamePrefix = "data";
+const std::string StackOfImagesDirs::g_flatNamePrefix = "flat";
+const std::string StackOfImagesDirs::g_darkNamePrefix = "dark";
+const std::string StackOfImagesDirs::g_processedNamePrefix = "processed";
+const std::string StackOfImagesDirs::g_prefilteredNamePrefix = "pre_filtered";
+
+StackOfImagesDirs::StackOfImagesDirs(const std::string &path)
+ : m_valid(false), m_statusDescStr("Constructed, no checks done yet.") {
+ findStackDirs(path);
+}
+
+std::string StackOfImagesDirs::description() const { return g_descr; }
+
+std::string StackOfImagesDirs::status() const {
+ if (m_valid)
+ return "Stack of images is correct";
+ else
+ return "There are errors in the directories and/or files. " +
+ m_statusDescStr;
+}
+
+std::vector<std::string> StackOfImagesDirs::sampleFiles() const {
+ return findImgFiles(m_sampleDir);
+}
+std::vector<std::string> StackOfImagesDirs::flatFiles() const {
+ return findImgFiles(m_flatDir);
+}
+std::vector<std::string> StackOfImagesDirs::darkFiles() const {
+ return findImgFiles(m_darkDir);
+}
+
+void StackOfImagesDirs::findStackDirs(const std::string &path) {
+ if (path.empty())
+ return;
+
+ Poco::File dir(path);
+ if (!dir.isDirectory() || !dir.exists())
+ return;
+
+ Poco::DirectoryIterator end;
+ for (Poco::DirectoryIterator it(dir); it != end; ++it) {
+ if (!it->isDirectory()) {
+ continue;
+ }
+
+ const std::string name = it.name();
+
+ // case insensitive comparison against expected pattersn: data_*, flat_*,
+ // dark_*, etc.
+ if (boost::iequals(name.substr(0, g_sampleNamePrefix.length()),
+ g_sampleNamePrefix)) {
+ m_sampleDir = it.path().toString();
+ } else if (boost::iequals(name.substr(0, g_flatNamePrefix.length()),
+ g_flatNamePrefix)) {
+ m_flatDir = name;
+ } else if (boost::iequals(name.substr(0, g_darkNamePrefix.length()),
+ g_darkNamePrefix)) {
+ m_darkDir = name;
+ }
+ }
+
+ if (m_sampleDir.empty()) {
+ m_statusDescStr = "The the sample images directory (" + g_sampleNamePrefix +
+ "...) has not been found.";
+ return;
+ }
+
+ // can be valid only if we get here. There must be at least one entry that is
+ // a file
+ Poco::Path samplesPath(m_sampleDir);
+ for (Poco::DirectoryIterator it(samplesPath); it != end; ++it) {
+ if (it->isFile()) {
+ m_valid = true;
+ break;
+ }
+ }
+
+ if (m_valid) {
+ m_statusDescStr = "all checks passed";
+ } else {
+ m_statusDescStr = "No files were found in the sample images directory (" +
+ g_sampleNamePrefix + "...).";
+ }
+}
+
+std::vector<std::string>
+StackOfImagesDirs::findImgFiles(const std::string &path) const {
+ std::vector<std::string> fnames;
+ Poco::File dir(path);
+ if (!dir.isDirectory() || !dir.exists())
+ return fnames;
+
+ // as an alternative could also use Poco::Glob to find the files
+ Poco::DirectoryIterator it(dir);
+ Poco::DirectoryIterator end;
+ while (it != end) {
+ // TODO: filter names by extension?
+ // const std::string name = it.name();
+ if (it->isFile()) {
+ fnames.push_back(it.path().toString());
+ }
+
+ ++it;
+ }
+
+ // this assumes the usual sorting of images of a stack (directory): a prefix,
+ // and a sequence number (with a fixed number of digits).
+ std::sort(fnames.begin(), fnames.end());
+ return fnames;
+}
+
+} // namespace CustomInterfaces
+} // namespace MantidQt
diff --git a/MantidQt/CustomInterfaces/src/Tomography/TomographyIfacePresenter.cpp b/MantidQt/CustomInterfaces/src/Tomography/TomographyIfacePresenter.cpp
index 59ae96f3caed1ffa8f76c7fbb143fcdb94a95c34..ef2cad5f09bddc06fd38dd9c798e60f91e150e41 100644
--- a/MantidQt/CustomInterfaces/src/Tomography/TomographyIfacePresenter.cpp
+++ b/MantidQt/CustomInterfaces/src/Tomography/TomographyIfacePresenter.cpp
@@ -310,7 +310,6 @@ void TomographyIfacePresenter::processLogMsg() {
std::vector<std::string> msgs = m_view->logMsgs();
for (size_t i = 0; i < msgs.size(); i++) {
m_model->logMsg(msgs[i]);
- break;
}
}
diff --git a/MantidQt/CustomInterfaces/src/Tomography/TomographyIfaceViewQtGUI.cpp b/MantidQt/CustomInterfaces/src/Tomography/TomographyIfaceViewQtGUI.cpp
index c280ce58fce36a8d851ee1ad68804b38bf4fdd47..48fef5a235172ab657810b05bc0b1f4314753bc7 100644
--- a/MantidQt/CustomInterfaces/src/Tomography/TomographyIfaceViewQtGUI.cpp
+++ b/MantidQt/CustomInterfaces/src/Tomography/TomographyIfaceViewQtGUI.cpp
@@ -3,6 +3,7 @@
#include "MantidQtAPI/AlgorithmInputHistory.h"
#include "MantidQtAPI/AlgorithmRunner.h"
#include "MantidQtAPI/HelpWindow.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageROIViewQtWidget.h"
#include "MantidQtCustomInterfaces/Tomography/TomographyIfaceViewQtGUI.h"
#include "MantidQtCustomInterfaces/Tomography/TomographyIfacePresenter.h"
#include "MantidQtCustomInterfaces/Tomography/ToolConfigAstraToolbox.h"
@@ -65,12 +66,27 @@ void TomographyIfaceViewQtGUI::initLayout() {
// setup container ui
m_ui.setupUi(this);
// add tab contents and set up their ui's
- QWidget *tab1w = new QWidget(m_ui.tabMain);
- m_uiTabRun.setupUi(tab1w);
- m_ui.tabMain->addTab(tab1w, QString("Run"));
- QWidget *tab2w = new QWidget(m_ui.tabMain);
- m_uiTabSetup.setupUi(tab2w);
- m_ui.tabMain->addTab(tab2w, QString("Setup"));
+ QWidget *tabRunW = new QWidget(m_ui.tabMain);
+ m_uiTabRun.setupUi(tabRunW);
+ m_ui.tabMain->addTab(tabRunW, QString("Run"));
+ QWidget *tabSetupW = new QWidget(m_ui.tabMain);
+ m_uiTabSetup.setupUi(tabSetupW);
+ m_ui.tabMain->addTab(tabSetupW, QString("Setup"));
+
+ ImageROIViewQtWidget *tabROIW = new ImageROIViewQtWidget(m_ui.tabMain);
+ m_ui.tabMain->addTab(tabROIW, QString("ROI etc."));
+
+ QWidget *tabFiltersW = new QWidget();
+ m_ui.tabMain->addTab(tabFiltersW, QString("Filters"));
+
+ QWidget *tabVizW = new QWidget();
+ m_ui.tabMain->addTab(tabVizW, QString("Visualize"));
+
+ QWidget *tabConvertW = new QWidget();
+ m_ui.tabMain->addTab(tabConvertW, QString("Convert"));
+
+ QWidget *tabEBandsW = new QWidget();
+ m_ui.tabMain->addTab(tabEBandsW, QString("Energy bands"));
readSettings();
diff --git a/MantidQt/CustomInterfaces/src/Tomography/ToolConfig.cpp b/MantidQt/CustomInterfaces/src/Tomography/ToolConfig.cpp
index 08391894c2eca282554ed2106c4db5f3a7f05a86..feb959472f6907482fb64850c5e862ecd2cb79cb 100644
--- a/MantidQt/CustomInterfaces/src/Tomography/ToolConfig.cpp
+++ b/MantidQt/CustomInterfaces/src/Tomography/ToolConfig.cpp
@@ -2,12 +2,15 @@
#include "MantidQtCustomInterfaces/Tomography/ToolConfigCustom.h"
#include "MantidQtCustomInterfaces/Tomography/ToolConfigTomoPy.h"
-
#include <boost/lexical_cast.hpp>
namespace MantidQt {
namespace CustomInterfaces {
+ToolConfigTomoPy::ToolConfigTomoPy()
+ : TomoRecToolConfig(""), m_pathOut(""), m_pathDark(""), m_pathOpen(""),
+ m_pathSample(""), m_centerRot(.0), m_angleMin(.0), m_angleMax(180.0) {}
+
ToolConfigTomoPy::ToolConfigTomoPy(const std::string &runnable,
const std::string &pathOut,
const std::string &pathDark,
@@ -28,6 +31,10 @@ std::string ToolConfigTomoPy::makeCmdLineOptions() const {
boost::lexical_cast<std::string>(m_centerRot);
}
+ToolConfigAstraToolbox::ToolConfigAstraToolbox()
+ : TomoRecToolConfig(""), m_centerRot(.0), m_angleMin(.0), m_angleMax(180.0),
+ m_pathOut(""), m_pathDark(""), m_pathOpen(""), m_pathSample("") {}
+
ToolConfigAstraToolbox::ToolConfigAstraToolbox(
const std::string &runnable, double centerRot, double angleMin,
double angleMax, const std::string &pathOut, const std::string &pathDark,
diff --git a/MantidQt/CustomInterfaces/test/ALCDataLoadingPresenterTest.h b/MantidQt/CustomInterfaces/test/ALCDataLoadingPresenterTest.h
index 86e42f3506fdad1ff4d89b1275cabaa82ce0b8a3..ff393f001040ee9c575bd02765bea5c3457bebce 100644
--- a/MantidQt/CustomInterfaces/test/ALCDataLoadingPresenterTest.h
+++ b/MantidQt/CustomInterfaces/test/ALCDataLoadingPresenterTest.h
@@ -51,8 +51,8 @@ public:
MOCK_METHOD1(setAvailablePeriods, void(const std::vector<std::string>&));
MOCK_METHOD2(setTimeLimits, void(double,double));
MOCK_METHOD2(setTimeRange, void(double,double));
- MOCK_METHOD0(setWaitingCursor, void());
- MOCK_METHOD0(restoreCursor, void());
+ MOCK_METHOD0(disableAll, void());
+ MOCK_METHOD0(enableAll, void());
MOCK_METHOD0(help, void());
void requestLoading() { emit loadRequested(); }
@@ -116,7 +116,7 @@ public:
void test_defaultLoad()
{
InSequence s;
- EXPECT_CALL(*m_view, setWaitingCursor());
+ EXPECT_CALL(*m_view, disableAll());
EXPECT_CALL(*m_view, setDataCurve(AllOf(Property(&QwtData::size,3),
QwtDataX(0, 1350, 1E-8),
@@ -130,7 +130,7 @@ public:
VectorValue(1,1.284E-3,1E-6),
VectorValue(2,1.280E-3,1E-6))));
- EXPECT_CALL(*m_view, restoreCursor());
+ EXPECT_CALL(*m_view, enableAll());
m_view->requestLoading();
}
@@ -232,7 +232,7 @@ public:
ON_CALL(*m_view, deadTimeType()).WillByDefault(Return("FromRunData"));
EXPECT_CALL(*m_view, deadTimeType()).Times(2);
EXPECT_CALL(*m_view, deadTimeFile()).Times(0);
- EXPECT_CALL(*m_view, restoreCursor()).Times(1);
+ EXPECT_CALL(*m_view, enableAll()).Times(1);
EXPECT_CALL(*m_view, setDataCurve(AllOf(Property(&QwtData::size,3),
QwtDataY(0, 0.150616, 1E-3),
QwtDataY(1, 0.143444, 1E-3),
@@ -251,7 +251,7 @@ public:
ON_CALL(*m_view, deadTimeType()).WillByDefault(Return("FromSpecifiedFile"));
EXPECT_CALL(*m_view, deadTimeType()).Times(2);
EXPECT_CALL(*m_view, deadTimeFile()).Times(1);
- EXPECT_CALL(*m_view, restoreCursor()).Times(1);
+ EXPECT_CALL(*m_view, enableAll()).Times(1);
m_view->requestLoading();
}
@@ -264,7 +264,7 @@ public:
ON_CALL(*m_view, getBackwardGrouping()).WillByDefault(Return("1-32"));
EXPECT_CALL(*m_view, getForwardGrouping()).Times(1);
EXPECT_CALL(*m_view, getBackwardGrouping()).Times(1);
- EXPECT_CALL(*m_view, restoreCursor()).Times(1);
+ EXPECT_CALL(*m_view, enableAll()).Times(1);
EXPECT_CALL(*m_view, setDataCurve(AllOf(Property(&QwtData::size, 3),
QwtDataX(0, 1350, 1E-8),
QwtDataX(1, 1360, 1E-8),
diff --git a/MantidQt/CustomInterfaces/test/ImageROIPresenterTest.h b/MantidQt/CustomInterfaces/test/ImageROIPresenterTest.h
new file mode 100644
index 0000000000000000000000000000000000000000..56cb937e2c3046ab444d0fe1540a5c5601d4600d
--- /dev/null
+++ b/MantidQt/CustomInterfaces/test/ImageROIPresenterTest.h
@@ -0,0 +1,320 @@
+#ifndef MANTID_CUSTOMINTERFACES_IMAGEROIPRESENTERTEST_H
+#define MANTID_CUSTOMINTERFACES_IMAGEROIPRESENTERTEST_H
+
+#include "MantidAPI/FrameworkManager.h"
+#include "MantidAPI/MatrixWorkspace.h"
+#include "MantidQtCustomInterfaces/Tomography/ImageROIPresenter.h"
+
+#include <cxxtest/TestSuite.h>
+
+#include <Poco/File.h>
+
+#include "ImageROIViewMock.h"
+
+using namespace MantidQt::CustomInterfaces;
+using testing::TypedEq;
+using testing::Return;
+
+class ImageROIPresenterTest : public CxxTest::TestSuite {
+
+public:
+ // This pair of boilerplate methods prevent the suite being created statically
+ // This means the constructor isn't called when running other tests
+ static ImageROIPresenterTest *createSuite() {
+ return new ImageROIPresenterTest();
+ }
+
+ static void destroySuite(ImageROIPresenterTest *suite) { delete suite; }
+
+ ImageROIPresenterTest() {
+ Mantid::API::FrameworkManager::Instance(); // make sure the framework is
+ // initialized
+ }
+
+ void setUp() {
+ m_view.reset(new testing::NiceMock<MockImageROIView>());
+ m_presenter.reset(
+ new MantidQt::CustomInterfaces::ImageROIPresenter(m_view.get()));
+ }
+
+ void tearDown() {
+ TS_ASSERT(testing::Mock::VerifyAndClearExpectations(m_view.get()));
+ }
+
+ void test_initOK() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, setParams(testing::_)).Times(1);
+
+ // No errors/warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(ImageROIPresenter::Init);
+ }
+
+ void test_initWithWrongParams() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, setParams(testing::_)).Times(1);
+
+ // One error, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(ImageROIPresenter::Init);
+ }
+
+ void xxtest_browseImg_EmptyPath() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, askImgOrStackPath()).Times(1).WillOnce(Return(""));
+
+ // No error, no warnings, just ignored
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ // should not get there:
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::BrowseImgOrStack);
+ }
+
+ void xxtest_newImg_EmptyPath() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, askImgOrStackPath()).Times(0);
+
+ // No error, one warning pop-up because a stack is not found
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(1);
+
+ // should not get there because there's no stack/img - it's just ignored:
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::NewImgOrStack);
+ }
+
+ void test_browseImg_WrongPath() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, askImgOrStackPath())
+ .Times(1)
+ .WillOnce(Return("dont_look_for_me_i_dont_exist"));
+
+ // A warning
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(1);
+
+ // should not get there because there's no stack/img
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ // this exception is currently handled, and a warning given
+ //TSM_ASSERT_THROWS("There should be an exception if there is an unexpected "
+ // "error with the images path",
+ // pres.notify(IImageROIPresenter::BrowseImgOrStack),
+ // Poco::FileNotFoundException);
+ pres.notify(IImageROIPresenter::BrowseImgOrStack);
+ }
+
+ void test_updateImgIndex() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ int idx = 0;
+ EXPECT_CALL(mockView, currentImgIndex()).Times(1).WillOnce(Return(idx));
+
+ EXPECT_CALL(mockView, updateImgWithIndex(idx)).Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::UpdateImgIndex);
+ }
+
+ void test_selectCoR() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectCoR))
+ .Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::SelectCoR);
+ }
+
+ void test_resetCoR() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, resetCoR()).Times(1);
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectNone))
+ .Times(1);
+
+ // just a few calls that should not happen
+ EXPECT_CALL(mockView, resetROI()).Times(0);
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::ResetCoR);
+ }
+
+ void test_selectROI() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectROIFirst))
+ .Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::SelectROI);
+ }
+
+ void test_finishROI() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectNone))
+ .Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::FinishedROI);
+ }
+
+ void test_resetROI() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, resetROI()).Times(1);
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectNone))
+ .Times(1);
+
+ // just a few calls that should not happen
+ EXPECT_CALL(mockView, resetCoR()).Times(0);
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::ResetROI);
+ }
+
+ void test_selectNormalization() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, changeSelectionState(
+ IImageROIView::SelectNormAreaFirst)).Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::SelectNormalization);
+ }
+
+ void test_finishNormalization() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectNone))
+ .Times(1);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::FinishedNormalization);
+ }
+
+ void test_resetNormalization() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, resetNormArea()).Times(1);
+ EXPECT_CALL(mockView, changeSelectionState(IImageROIView::SelectNone))
+ .Times(1);
+
+ // just a few calls that should not happen
+ EXPECT_CALL(mockView, resetCoR()).Times(0);
+ EXPECT_CALL(mockView, resetROI()).Times(0);
+ EXPECT_CALL(mockView, showStack(testing::An<const std::string &>()))
+ .Times(0);
+ EXPECT_CALL(mockView,
+ showStack(testing::An<Mantid::API::WorkspaceGroup_sptr &>()))
+ .Times(0);
+ EXPECT_CALL(mockView, updateImgWithIndex(testing::_)).Times(0);
+
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(IImageROIPresenter::ResetNormalization);
+ }
+
+ void test_shutDown() {
+ testing::NiceMock<MockImageROIView> mockView;
+ MantidQt::CustomInterfaces::ImageROIPresenter pres(&mockView);
+
+ EXPECT_CALL(mockView, saveSettings()).Times(1);
+ // No errors, no warnings
+ EXPECT_CALL(mockView, userError(testing::_, testing::_)).Times(0);
+ EXPECT_CALL(mockView, userWarning(testing::_, testing::_)).Times(0);
+
+ pres.notify(ImageROIPresenter::ShutDown);
+ }
+
+private:
+ // boost::shared_ptr
+ boost::scoped_ptr<testing::NiceMock<MockImageROIView>> m_view;
+ boost::scoped_ptr<MantidQt::CustomInterfaces::ImageROIPresenter> m_presenter;
+
+ // To have one FITS, etc.
+ Mantid::API::MatrixWorkspace_sptr m_ws;
+};
+
+#endif // MANTID_CUSTOMINTERFACES_IMAGEROIPRESENTERTEST_H
diff --git a/MantidQt/CustomInterfaces/test/ImageROIViewMock.h b/MantidQt/CustomInterfaces/test/ImageROIViewMock.h
new file mode 100644
index 0000000000000000000000000000000000000000..6ba7ebca13e036ac6569eb64b51857e61ae79e44
--- /dev/null
+++ b/MantidQt/CustomInterfaces/test/ImageROIViewMock.h
@@ -0,0 +1,66 @@
+#ifndef MANTID_CUSTOMINTERFACES_IMAGEROIVIEWMOCK_H
+#define MANTID_CUSTOMINTERFACES_IMAGEROIVIEWMOCK_H
+
+#include "MantidQtCustomInterfaces/Tomography/ITomographyIfaceView.h"
+
+#include <gmock/gmock.h>
+
+class MockImageROIView : public MantidQt::CustomInterfaces::IImageROIView {
+public:
+ // void initParams(ImageStackPreParams ¶ms)
+ MOCK_METHOD1(setParams,
+ void(MantidQt::CustomInterfaces::ImageStackPreParams &));
+
+ // ImageStackPreParams userSelection() const;
+ MOCK_CONST_METHOD0(userSelection,
+ MantidQt::CustomInterfaces::ImageStackPreParams());
+
+ // SelectionState selectionState() const;
+ MOCK_CONST_METHOD0(selectionState, SelectionState());
+
+ // void changeSelectionState(const SelectionState state);
+ MOCK_METHOD1(changeSelectionState, void(const IImageROIView::SelectionState&));
+
+ // void showStack(const std::string &path);
+ MOCK_METHOD1(showStack, void(const std::string &));
+
+ // void showStack(const Mantid::API::WorkspaceGroup_sptr &ws);
+ MOCK_METHOD1(showStack, void(Mantid::API::WorkspaceGroup_sptr &));
+
+ // const Mantid::API::WorkspaceGroup_sptr stack() const;
+ MOCK_CONST_METHOD0(stack, const Mantid::API::WorkspaceGroup_sptr());
+
+ // void showProjection(const Mantid::API::WorkspaceGroup_sptr &wsg, size_t idx);
+ MOCK_METHOD2(showProjection, void(const Mantid::API::WorkspaceGroup_sptr &wsg, size_t idx));
+
+ // void userWarning(const std::string &warn, const std::string &description)
+ MOCK_METHOD2(userWarning,
+ void(const std::string &warn, const std::string &description));
+
+ // void userError(const std::string &err, const std::string &description)
+ MOCK_METHOD2(userError,
+ void(const std::string &err, const std::string &description));
+
+ // size_t currentImgIndex() const;
+ MOCK_CONST_METHOD0(currentImgIndex, size_t());
+
+ // void updateImgWithIndex(size_t idx)
+ MOCK_METHOD1(updateImgWithIndex, void(size_t));
+
+ // std::string askImgOrStackPath();
+ MOCK_METHOD0(askImgOrStackPath, std::string());
+
+ // void saveSettings() const {}
+ MOCK_CONST_METHOD0(saveSettings, void());
+
+ // void resetCoR()
+ MOCK_METHOD0(resetCoR, void());
+
+ // void resetROI()
+ MOCK_METHOD0(resetROI, void());
+
+ // void resetNormArea()
+ MOCK_METHOD0(resetNormArea, void());
+};
+
+#endif // MANTID_CUSTOMINTERFACES_IMAGEROIVIEWMOCK_H
diff --git a/MantidQt/CustomInterfaces/test/StackOfImagesDirsTest.h b/MantidQt/CustomInterfaces/test/StackOfImagesDirsTest.h
new file mode 100644
index 0000000000000000000000000000000000000000..641dd70eb5d6e709690c04aa1560be5b0d8a9eb6
--- /dev/null
+++ b/MantidQt/CustomInterfaces/test/StackOfImagesDirsTest.h
@@ -0,0 +1,111 @@
+#ifndef MANTID_CUSTOMINTERFACES_STACKOFIMAGESDIRSTEST_H
+#define MANTID_CUSTOMINTERFACES_STACKOFIMAGESDIRSTEST_H
+
+#include "MantidAPI/FrameworkManager.h"
+#include "MantidQtCustomInterfaces/Tomography/StackOfImagesDirs.h"
+
+#include <boost/scoped_ptr.hpp>
+
+#include <cxxtest/TestSuite.h>
+
+using namespace MantidQt::CustomInterfaces;
+
+class StackOfImagesDirsTest : public CxxTest::TestSuite {
+
+public:
+ // This pair of boilerplate methods prevent the suite being created statically
+ // This means the constructor isn't called when running other tests
+ static StackOfImagesDirsTest *createSuite() {
+ return new StackOfImagesDirsTest();
+ }
+
+ static void destroySuite(StackOfImagesDirsTest *suite) { delete suite; }
+
+ StackOfImagesDirsTest() {
+ Mantid::API::FrameworkManager::Instance(); // make sure the framework is
+ // initialized
+ }
+
+ void setUp() {
+ // just to test more dynamic allocation
+ m_soid.reset(new StackOfImagesDirs(""));
+ }
+
+ void tearDown() {}
+
+ void test_construct() {
+ StackOfImagesDirs obj("");
+
+ TSM_ASSERT("A stack just constructed with an empty path string should not "
+ "be valid",
+ !obj.isValid());
+ }
+
+ void test_description() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("A description string should be produced",
+ "" != obj.description());
+ }
+
+ void test_status() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("A status string should be produced", "" != obj.status());
+ }
+
+ void test_sampleImagesDir() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("The sample images directory of an empty stack should be empty",
+ "" == obj.sampleImagesDir());
+ }
+
+ void test_flatImagesDir() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("The flat images directory of an empty stack should be empty",
+ "" == obj.flatImagesDir());
+ }
+
+ void test_darkImagesDir() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("The dark images directory of an empty stack should be empty",
+ "" == obj.flatImagesDir());
+ }
+
+ void test_sampleFiles() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("There should not be any sample files in an empty stack",
+ 0 == obj.sampleImagesDir().size());
+ }
+
+ void test_flatFiles() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("There should not be any flat image files in an empty stack",
+ 0 == obj.flatImagesDir().size());
+ }
+
+ void test_darkFiles() {
+ StackOfImagesDirs obj("");
+
+ TS_ASSERT_THROWS_NOTHING(obj.description());
+ TSM_ASSERT("There should not be any dark image files in an empty stack",
+ 0 == obj.darkImagesDir().size());
+ }
+
+private:
+ boost::scoped_ptr<StackOfImagesDirs> m_soid;
+};
+
+#endif /* MANTID_CUSTOMINTERFACES_STACKOFIMAGESDIRSTEST_H */
diff --git a/MantidQt/Factory/test/WidgetFactoryTest.h b/MantidQt/Factory/test/WidgetFactoryTest.h
index c1c0ba1a3b2cf56e972b3fb63b33bee18c07d904..c71fdc3eb2f0b2adcb22296c1022943e81b60e05 100644
--- a/MantidQt/Factory/test/WidgetFactoryTest.h
+++ b/MantidQt/Factory/test/WidgetFactoryTest.h
@@ -4,8 +4,6 @@
#include <cxxtest/TestSuite.h>
#include "MantidKernel/Timer.h"
#include "MantidKernel/System.h"
-#include <iostream>
-#include <iomanip>
#include "MantidFactory/WidgetFactory.h"
diff --git a/MantidQt/MantidWidgets/src/MantidHelpWindow.cpp b/MantidQt/MantidWidgets/src/MantidHelpWindow.cpp
index 110d04a7ce3b306156982e09c7d770337e3c11f1..c599d37c08ed9c471329b6815bba7326ea8d541c 100644
--- a/MantidQt/MantidWidgets/src/MantidHelpWindow.cpp
+++ b/MantidQt/MantidWidgets/src/MantidHelpWindow.cpp
@@ -6,7 +6,6 @@
#include "MantidKernel/RegistrationHelper.h"
#include <boost/make_shared.hpp>
#include <boost/lexical_cast.hpp>
-#include <iostream>
#include <Poco/File.h>
#include <Poco/Path.h>
#include <QDesktopServices>
diff --git a/MantidQt/MantidWidgets/src/ScriptEditor.cpp b/MantidQt/MantidWidgets/src/ScriptEditor.cpp
index 5e4c2bdfdc1e08b8674f9fe6e1656ad1400032d5..c43f2cfbb1a1d9c4097ab94b1005affc319fd729 100644
--- a/MantidQt/MantidWidgets/src/ScriptEditor.cpp
+++ b/MantidQt/MantidWidgets/src/ScriptEditor.cpp
@@ -33,7 +33,6 @@
// std
#include <cmath>
-#include <iostream>
#include <stdexcept>
//***************************************************************************
diff --git a/MantidQt/MantidWidgets/src/StringDialogEditor.cpp b/MantidQt/MantidWidgets/src/StringDialogEditor.cpp
index e84f62ba44425c25dad7ad366840415801fea769..ade129f78b7cec64e1695fcdae8387ba1a1ba1c2 100644
--- a/MantidQt/MantidWidgets/src/StringDialogEditor.cpp
+++ b/MantidQt/MantidWidgets/src/StringDialogEditor.cpp
@@ -8,7 +8,6 @@
#include <QDialog>
#include <QSettings>
-#include <iostream>
/**
* Do nothing to connect a manager.
diff --git a/MantidQt/RefDetectorViewer/src/RefDetectorViewDemo.cpp b/MantidQt/RefDetectorViewer/src/RefDetectorViewDemo.cpp
index e2ea0e8b756fe4cea00cad7c259f1c9b67ca2e74..1b1e345cf845a06d583b199a8a3cdaa859bdde2b 100644
--- a/MantidQt/RefDetectorViewer/src/RefDetectorViewDemo.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefDetectorViewDemo.cpp
@@ -1,5 +1,4 @@
-#include <iostream>
#include <qapplication.h>
#include <QMainWindow>
diff --git a/MantidQt/RefDetectorViewer/src/RefIVConnections.cpp b/MantidQt/RefDetectorViewer/src/RefIVConnections.cpp
index 42109cf39cb741c66532ba2f48175657f912c1f1..fede037dfe08d334af22b6e2ac84e3a69c6ce4ab 100644
--- a/MantidQt/RefDetectorViewer/src/RefIVConnections.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefIVConnections.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QLineEdit>
#include <qwt_plot_canvas.h>
diff --git a/MantidQt/RefDetectorViewer/src/RefImageView.cpp b/MantidQt/RefDetectorViewer/src/RefImageView.cpp
index d5385cb4dfabf1705b33836cfad1a80b317c0b04..6c35c6eca90f9310165abb98770d2187e8b33ac9 100644
--- a/MantidQt/RefDetectorViewer/src/RefImageView.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefImageView.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidQtRefDetectorViewer/RefImageView.h"
#include "MantidQtSpectrumViewer/ColorMaps.h"
diff --git a/MantidQt/RefDetectorViewer/src/RefMatrixWSImageView.cpp b/MantidQt/RefDetectorViewer/src/RefMatrixWSImageView.cpp
index 91e32036086d49609005d0d6a88c4c2bc5b425cb..f63397e1da6a002c61af56b0009f4e82f0e7347d 100644
--- a/MantidQt/RefDetectorViewer/src/RefMatrixWSImageView.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefMatrixWSImageView.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidQtRefDetectorViewer/RefMatrixWSImageView.h"
#include "MantidQtSpectrumViewer/ArrayDataSource.h"
#include "MantidQtRefDetectorViewer/RefIVConnections.h"
diff --git a/MantidQt/RefDetectorViewer/src/RefRangeHandler.cpp b/MantidQt/RefDetectorViewer/src/RefRangeHandler.cpp
index 437a3cc7efab6c8ff53384b2bb074d8bc1ecceb7..a2f7d1d8b70fe1c2a2c23a6b0b45742bd0783a0b 100644
--- a/MantidQt/RefDetectorViewer/src/RefRangeHandler.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefRangeHandler.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QLineEdit>
#include "MantidQtRefDetectorViewer/RefRangeHandler.h"
diff --git a/MantidQt/RefDetectorViewer/src/RefSliderHandler.cpp b/MantidQt/RefDetectorViewer/src/RefSliderHandler.cpp
index 2fc6a2faef46f94b33b14e63c443c04e88a27983..e11b1cbf4651ad74ecfed24339d28e2f569de825 100644
--- a/MantidQt/RefDetectorViewer/src/RefSliderHandler.cpp
+++ b/MantidQt/RefDetectorViewer/src/RefSliderHandler.cpp
@@ -1,5 +1,4 @@
-#include <iostream>
#include <QScrollBar>
#include "MantidQtRefDetectorViewer/RefSliderHandler.h"
diff --git a/MantidQt/SliceViewer/inc/MantidQtSliceViewer/ColorBarWidget.h b/MantidQt/SliceViewer/inc/MantidQtSliceViewer/ColorBarWidget.h
index a6b08722eeee9f4a95503a74710bb2ba8d442f32..c2f95a52d1608a637176d0ed8cd988b66ccf34d2 100644
--- a/MantidQt/SliceViewer/inc/MantidQtSliceViewer/ColorBarWidget.h
+++ b/MantidQt/SliceViewer/inc/MantidQtSliceViewer/ColorBarWidget.h
@@ -6,7 +6,6 @@
#include <qwt_color_map.h>
#include <qwt_scale_widget.h>
#include "MantidQtAPI/MantidColorMap.h"
-#include <iostream>
#include <QKeyEvent>
#include <QtGui>
#include "DllOption.h"
diff --git a/MantidQt/SliceViewer/src/ColorBarWidget.cpp b/MantidQt/SliceViewer/src/ColorBarWidget.cpp
index 0f3c72044c8c09bbe04904e703fb789d0e477169..0d07267f6758ba5d21e982224e0d161bbf40ce69 100644
--- a/MantidQt/SliceViewer/src/ColorBarWidget.cpp
+++ b/MantidQt/SliceViewer/src/ColorBarWidget.cpp
@@ -4,7 +4,6 @@
#include "qwt_scale_div.h"
#include "MantidQtAPI/PowerScaleEngine.h"
#include <iosfwd>
-#include <iostream>
#include <qwt_scale_map.h>
#include <qwt_scale_widget.h>
#include <QKeyEvent>
diff --git a/MantidQt/SliceViewer/src/CustomTools.cpp b/MantidQt/SliceViewer/src/CustomTools.cpp
index 34439d2e5dce221ff7dc0492d684240de0cfd454..f0a8f6ca9a73528e657fb7715094bfe700e17d03 100644
--- a/MantidQt/SliceViewer/src/CustomTools.cpp
+++ b/MantidQt/SliceViewer/src/CustomTools.cpp
@@ -1,7 +1,5 @@
#include "MantidQtSliceViewer/CustomTools.h"
-#include <iomanip>
#include <iosfwd>
-#include <iostream>
namespace MantidQt
{
diff --git a/MantidQt/SliceViewer/src/DimensionSliceWidget.cpp b/MantidQt/SliceViewer/src/DimensionSliceWidget.cpp
index 7d2892969e789160b0fa17b9d92cfc4b37f306ee..9572cd4842eb5ff001fe9849a8321fed75d67e13 100644
--- a/MantidQt/SliceViewer/src/DimensionSliceWidget.cpp
+++ b/MantidQt/SliceViewer/src/DimensionSliceWidget.cpp
@@ -1,8 +1,6 @@
#include "MantidQtSliceViewer/DimensionSliceWidget.h"
#include "MantidKernel/UnitLabel.h"
#include <iosfwd>
-#include <iostream>
-#include <iomanip>
#include <qlayout.h>
namespace MantidQt
diff --git a/MantidQt/SliceViewer/src/LineOverlay.cpp b/MantidQt/SliceViewer/src/LineOverlay.cpp
index b68d0a89adb8c7a8fb8409041db2bb6178765fa8..4a172e3a2b9abaf003ac506deb8d8d4bb82aef08 100644
--- a/MantidQt/SliceViewer/src/LineOverlay.cpp
+++ b/MantidQt/SliceViewer/src/LineOverlay.cpp
@@ -1,7 +1,6 @@
#include "MantidQtSliceViewer/LineOverlay.h"
#include <qwt_plot.h>
#include <qwt_plot_canvas.h>
-#include <iostream>
#include <qpainter.h>
#include <QRect>
#include <QShowEvent>
diff --git a/MantidQt/SliceViewer/src/PeaksTableColumnsDialog.cpp b/MantidQt/SliceViewer/src/PeaksTableColumnsDialog.cpp
index 1de3e15906ed4a4ec91005183d2ad4ac03338d36..bde8b1a41bd512e6db1f627a7af807d8becad7f5 100644
--- a/MantidQt/SliceViewer/src/PeaksTableColumnsDialog.cpp
+++ b/MantidQt/SliceViewer/src/PeaksTableColumnsDialog.cpp
@@ -3,7 +3,6 @@
#include "ui_PeaksTableColumnsDialog.h"
// REMOVE
-#include <iostream>
namespace MantidQt
{
diff --git a/MantidQt/SliceViewer/src/SliceViewer.cpp b/MantidQt/SliceViewer/src/SliceViewer.cpp
index 003b774d559d147bd58d8499864d82b2bd81c4b3..f251baaf4445e9f32142a3d54ea3d16ef6fe62a6 100644
--- a/MantidQt/SliceViewer/src/SliceViewer.cpp
+++ b/MantidQt/SliceViewer/src/SliceViewer.cpp
@@ -1,6 +1,4 @@
-#include <iomanip>
#include <iosfwd>
-#include <iostream>
#include <limits>
#include <sstream>
#include <vector>
diff --git a/MantidQt/SliceViewer/src/main_ColorBarWidgetDemo.cpp b/MantidQt/SliceViewer/src/main_ColorBarWidgetDemo.cpp
index a0fb09e4c9b4bb58d0ddee2733d3effd3be311fe..e15a843addf5892282fac9202ba3da551bc98cf3 100644
--- a/MantidQt/SliceViewer/src/main_ColorBarWidgetDemo.cpp
+++ b/MantidQt/SliceViewer/src/main_ColorBarWidgetDemo.cpp
@@ -1,6 +1,5 @@
#include "MantidQtSliceViewer/ColorBarWidget.h"
#include "qmainwindow.h"
-#include <iostream>
#include <QApplication>
#include <QDir>
#include <QMessageBox>
diff --git a/MantidQt/SliceViewer/src/main_LineViewerDemo.cpp b/MantidQt/SliceViewer/src/main_LineViewerDemo.cpp
index ab70ae54f0271fe4bf4c37cfa2405b75a5aeff61..cd15090523f4ee85b23614b04c3b795b40e11b72 100644
--- a/MantidQt/SliceViewer/src/main_LineViewerDemo.cpp
+++ b/MantidQt/SliceViewer/src/main_LineViewerDemo.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QApplication>
#include <QSplashScreen>
#include <QMessageBox>
diff --git a/MantidQt/SliceViewer/src/main_SliceViewerDemo.cpp b/MantidQt/SliceViewer/src/main_SliceViewerDemo.cpp
index cb76eb2a00ba7dcc091b2380be3c8fa129947142..37ce5d6153da9efdc8fd18557ff2fa19f4d6b181 100644
--- a/MantidQt/SliceViewer/src/main_SliceViewerDemo.cpp
+++ b/MantidQt/SliceViewer/src/main_SliceViewerDemo.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QApplication>
#include <QSplashScreen>
#include <QMessageBox>
diff --git a/MantidQt/SliceViewer/src/main_SliceViewerWindowDemo.cpp b/MantidQt/SliceViewer/src/main_SliceViewerWindowDemo.cpp
index 0167bc47a4bc670947ec60b07d1b7fb3cb9de8d5..41db0d8e18dc94191842f2690d089868d87bb850 100644
--- a/MantidQt/SliceViewer/src/main_SliceViewerWindowDemo.cpp
+++ b/MantidQt/SliceViewer/src/main_SliceViewerWindowDemo.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QApplication>
#include <QSplashScreen>
#include <QMessageBox>
diff --git a/MantidQt/SpectrumViewer/src/ArrayDataSource.cpp b/MantidQt/SpectrumViewer/src/ArrayDataSource.cpp
index f07a4d1fff274132afedc075123d55301a0956df..30953f04ffdcde5c30572b985a691b892834a208 100644
--- a/MantidQt/SpectrumViewer/src/ArrayDataSource.cpp
+++ b/MantidQt/SpectrumViewer/src/ArrayDataSource.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <math.h>
diff --git a/MantidQt/SpectrumViewer/src/ColorMaps.cpp b/MantidQt/SpectrumViewer/src/ColorMaps.cpp
index 9b09dc5da6ff87ffbf88eb1e6993e5262301410e..b140b53c22bafb0599af6efc2fb638afae0b8783 100644
--- a/MantidQt/SpectrumViewer/src/ColorMaps.cpp
+++ b/MantidQt/SpectrumViewer/src/ColorMaps.cpp
@@ -1,5 +1,4 @@
-#include <iostream>
#include <sstream>
#include <math.h>
diff --git a/MantidQt/SpectrumViewer/src/DataArray.cpp b/MantidQt/SpectrumViewer/src/DataArray.cpp
index b18fa1015585a98773ed6764dc13755cb4fb2902..e3c58c8b73203f83d7f76378c28678db3bd9b482 100644
--- a/MantidQt/SpectrumViewer/src/DataArray.cpp
+++ b/MantidQt/SpectrumViewer/src/DataArray.cpp
@@ -2,7 +2,6 @@
* File DataArray.cpp
*/
-#include <iostream>
#include <math.h>
#include "MantidQtSpectrumViewer/DataArray.h"
diff --git a/MantidQt/SpectrumViewer/src/EModeHandler.cpp b/MantidQt/SpectrumViewer/src/EModeHandler.cpp
index 6176600a7cfde795a86f65d6ce8425e016a9eb7f..3ec420a5f46b67074a5dc8bb45ff47fbdc32b121 100644
--- a/MantidQt/SpectrumViewer/src/EModeHandler.cpp
+++ b/MantidQt/SpectrumViewer/src/EModeHandler.cpp
@@ -1,10 +1,10 @@
#include <iostream>
-#include <QLineEdit>
#include "MantidQtSpectrumViewer/EModeHandler.h"
#include "MantidQtSpectrumViewer/QtUtils.h"
#include "MantidKernel/Logger.h"
+#include <QLineEdit>
namespace
{
diff --git a/MantidQt/SpectrumViewer/src/GraphDisplay.cpp b/MantidQt/SpectrumViewer/src/GraphDisplay.cpp
index 2cf6a0fdb433a816e7fef527d354594f7128de58..fb458c40088478e07a1b3a7bc941514268b022d4 100644
--- a/MantidQt/SpectrumViewer/src/GraphDisplay.cpp
+++ b/MantidQt/SpectrumViewer/src/GraphDisplay.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QtGui>
#include <QVector>
#include <QString>
diff --git a/MantidQt/SpectrumViewer/src/MatrixWSDataSource.cpp b/MantidQt/SpectrumViewer/src/MatrixWSDataSource.cpp
index 583079fd990ea83b10b122b2e1ae4ac438dd1a90..4992d41c67bab03a64312e6eb7eb3383f293ab59 100644
--- a/MantidQt/SpectrumViewer/src/MatrixWSDataSource.cpp
+++ b/MantidQt/SpectrumViewer/src/MatrixWSDataSource.cpp
@@ -3,7 +3,6 @@
*/
#include <boost/lexical_cast.hpp>
-#include <iostream>
#include <sstream>
#include <math.h>
diff --git a/MantidQt/SpectrumViewer/src/MatrixWSSpectrumView.cpp b/MantidQt/SpectrumViewer/src/MatrixWSSpectrumView.cpp
index a7622cd74bf117470e53961d4d91e7b9bea8e99c..07f3aa6ea64f2560069afb4caaa5ef794c3086ef 100644
--- a/MantidQt/SpectrumViewer/src/MatrixWSSpectrumView.cpp
+++ b/MantidQt/SpectrumViewer/src/MatrixWSSpectrumView.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidQtSpectrumViewer/MatrixWSSpectrumView.h"
#include "MantidAPI/MatrixWorkspace.h"
diff --git a/MantidQt/SpectrumViewer/src/RangeHandler.cpp b/MantidQt/SpectrumViewer/src/RangeHandler.cpp
index 416b7f2a44461e84f48fb5d5c8ee0d156090ab5d..5f48eb5654681b3bafb2f370b28ab07f6b979d4a 100644
--- a/MantidQt/SpectrumViewer/src/RangeHandler.cpp
+++ b/MantidQt/SpectrumViewer/src/RangeHandler.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QLineEdit>
#include "MantidQtSpectrumViewer/RangeHandler.h"
diff --git a/MantidQt/SpectrumViewer/src/SVConnections.cpp b/MantidQt/SpectrumViewer/src/SVConnections.cpp
index ca5442b9f602b98fb662cc00490f4fd71ce93d79..1d01bd1363492d1c408689f1fb80582408feb90f 100644
--- a/MantidQt/SpectrumViewer/src/SVConnections.cpp
+++ b/MantidQt/SpectrumViewer/src/SVConnections.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <qwt_plot_canvas.h>
#include <QDesktopServices>
diff --git a/MantidQt/SpectrumViewer/src/SliderHandler.cpp b/MantidQt/SpectrumViewer/src/SliderHandler.cpp
index d5fec750d75f7ff095511da02ab005be42f79d6c..715029998eacdf4deb8abc781b9b2b9414a24471 100644
--- a/MantidQt/SpectrumViewer/src/SliderHandler.cpp
+++ b/MantidQt/SpectrumViewer/src/SliderHandler.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QScrollBar>
#include "MantidQtSpectrumViewer/SliderHandler.h"
diff --git a/MantidQt/SpectrumViewer/src/SpectrumDataSource.cpp b/MantidQt/SpectrumViewer/src/SpectrumDataSource.cpp
index 510b583f2d4b6993a18de0e986ce017ae024d9d8..680ceb0a500e665e692aa6cb7f7903391db09e9c 100644
--- a/MantidQt/SpectrumViewer/src/SpectrumDataSource.cpp
+++ b/MantidQt/SpectrumViewer/src/SpectrumDataSource.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <math.h>
diff --git a/MantidQt/SpectrumViewer/src/SpectrumDisplay.cpp b/MantidQt/SpectrumViewer/src/SpectrumDisplay.cpp
index f66bb0b012b50251e8f6ef3d33016b7ce23fa132..408c6d7f79c21773f60b97ea9bcc0078001c5f8b 100644
--- a/MantidQt/SpectrumViewer/src/SpectrumDisplay.cpp
+++ b/MantidQt/SpectrumViewer/src/SpectrumDisplay.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <sstream>
#include <cfloat>
diff --git a/MantidQt/SpectrumViewer/src/SpectrumPlotItem.cpp b/MantidQt/SpectrumViewer/src/SpectrumPlotItem.cpp
index 1ae3028c5dee447cd2f9ab02dea924b17d3c52ce..84b355b43ed59c8981e4a351feaabd81c9a42d5b 100644
--- a/MantidQt/SpectrumViewer/src/SpectrumPlotItem.cpp
+++ b/MantidQt/SpectrumViewer/src/SpectrumPlotItem.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <QThread>
#include "MantidQtSpectrumViewer/SpectrumPlotItem.h"
diff --git a/MantidQt/SpectrumViewer/src/SpectrumView.cpp b/MantidQt/SpectrumViewer/src/SpectrumView.cpp
index 9b01297abec173f4261802af8a946c3693ef28b5..272a637544fa05f57351c722db3fca4a8be882fe 100644
--- a/MantidQt/SpectrumViewer/src/SpectrumView.cpp
+++ b/MantidQt/SpectrumViewer/src/SpectrumView.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include "MantidQtSpectrumViewer/SpectrumView.h"
#include "MantidAPI/MatrixWorkspace.h"
diff --git a/QtPropertyBrowser/src/DoubleEditorFactory.cpp b/QtPropertyBrowser/src/DoubleEditorFactory.cpp
index 666130ec533e86688c3390288d89edcd15564f9b..6e93ddb27ccc28408af51011f62f5405f61b7e68 100644
--- a/QtPropertyBrowser/src/DoubleEditorFactory.cpp
+++ b/QtPropertyBrowser/src/DoubleEditorFactory.cpp
@@ -4,7 +4,6 @@
#include <QDoubleValidator>
-#include <iostream>
#include <cfloat>
#include <sstream>
#include <cmath>
diff --git a/QtPropertyBrowser/src/qttreepropertybrowser.cpp b/QtPropertyBrowser/src/qttreepropertybrowser.cpp
index 53f493d7bee8d791a84e17494c4fdab5350c34ff..63b6b13a9ace25a0f4f8a7199204b4fa24376f9e 100644
--- a/QtPropertyBrowser/src/qttreepropertybrowser.cpp
+++ b/QtPropertyBrowser/src/qttreepropertybrowser.cpp
@@ -100,7 +100,6 @@
#include <QtGui/qcheckbox.h>
#include <QtGui/qlineedit.h>
-#include <iostream>
#if QT_VERSION >= 0x040400
QT_BEGIN_NAMESPACE
diff --git a/Testing/Data/DocTest/HB3A_exp0406_scan0298.dat.md5 b/Testing/Data/DocTest/HB3A_exp0406_scan0298.dat.md5
new file mode 100644
index 0000000000000000000000000000000000000000..1d23995b3815a9e8457c03d0277dbe8457626dbe
--- /dev/null
+++ b/Testing/Data/DocTest/HB3A_exp0406_scan0298.dat.md5
@@ -0,0 +1 @@
+82a989552a9d6b41fb0d477b3e26b57a
diff --git a/Testing/Data/DocTest/HB3A_exp406_scan0298_0022.xml.md5 b/Testing/Data/DocTest/HB3A_exp406_scan0298_0022.xml.md5
new file mode 100644
index 0000000000000000000000000000000000000000..b02a2cacffa806501e5c08426083152fa419e1f8
--- /dev/null
+++ b/Testing/Data/DocTest/HB3A_exp406_scan0298_0022.xml.md5
@@ -0,0 +1 @@
+9891ad8c3a37213308ccb8ba9500989f
diff --git a/Vates/VatesAPI/inc/MantidVatesAPI/BoxInfo.h b/Vates/VatesAPI/inc/MantidVatesAPI/BoxInfo.h
index b2f5520e9d5c55ec514ab270c3caf020b51200c1..dec4eabbd7d3cd7c9aec07346fcfcada4775bcf6 100644
--- a/Vates/VatesAPI/inc/MantidVatesAPI/BoxInfo.h
+++ b/Vates/VatesAPI/inc/MantidVatesAPI/BoxInfo.h
@@ -2,7 +2,6 @@
#define MANTID_VATESAPI_BOXINFO_H
#include "MantidKernel/System.h"
-#include <iostream>
#include <boost/optional.hpp>
namespace Mantid
diff --git a/Vates/VatesAPI/src/vtkNullStructuredGrid.cpp b/Vates/VatesAPI/src/vtkNullStructuredGrid.cpp
index a246ffbe36d9d1b3524688f9db95f96e5a657ca9..7947450b22da6c73d4ee8252a95eea5457b8fc21 100644
--- a/Vates/VatesAPI/src/vtkNullStructuredGrid.cpp
+++ b/Vates/VatesAPI/src/vtkNullStructuredGrid.cpp
@@ -7,7 +7,7 @@
#include <vtkFloatArray.h>
#include <vtkSmartPointer.h>
#include <vtkStructuredGrid.h>
-#include <iostream>
+
namespace Mantid {
namespace VATES {
diff --git a/Vates/VatesAPI/test/vtkNullStructuredGridTest.h b/Vates/VatesAPI/test/vtkNullStructuredGridTest.h
index b8ecc47ac82ccdb3aed0b4811e5c066c033085af..64a31dfec1469d20dff5306a94db7d4f0529d546 100644
--- a/Vates/VatesAPI/test/vtkNullStructuredGridTest.h
+++ b/Vates/VatesAPI/test/vtkNullStructuredGridTest.h
@@ -9,7 +9,6 @@
#include <vtkStructuredGrid.h>
#include <vtkPoints.h>
-#include <iostream>
using namespace Mantid::VATES;
diff --git a/Vates/VatesSimpleGui/QtWidgets/src/GeometryParser.cpp b/Vates/VatesSimpleGui/QtWidgets/src/GeometryParser.cpp
index e8aa4715613c8895ac59bf79898ef0fd591db0f6..28f88d9e6f24210e44346d13a18b719cf9c25a0c 100644
--- a/Vates/VatesSimpleGui/QtWidgets/src/GeometryParser.cpp
+++ b/Vates/VatesSimpleGui/QtWidgets/src/GeometryParser.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <sstream>
#include "MantidVatesSimpleGuiQtWidgets/GeometryParser.h"
diff --git a/Vates/VatesSimpleGui/ViewWidgets/src/ColorSelectionWidget.cpp b/Vates/VatesSimpleGui/ViewWidgets/src/ColorSelectionWidget.cpp
index 2a56dae548867a9dd3969297b3b24ad199812192..d215e3aaa5365be30bc86a45144a951818488879 100644
--- a/Vates/VatesSimpleGui/ViewWidgets/src/ColorSelectionWidget.cpp
+++ b/Vates/VatesSimpleGui/ViewWidgets/src/ColorSelectionWidget.cpp
@@ -1,5 +1,4 @@
#include <cfloat>
-#include <iostream>
#include "MantidVatesSimpleGuiViewWidgets/ColorSelectionWidget.h"
#include "MantidKernel/ConfigService.h"
diff --git a/Vates/VatesSimpleGui/ViewWidgets/src/MdViewerWidget.cpp b/Vates/VatesSimpleGui/ViewWidgets/src/MdViewerWidget.cpp
index d5cc40e9793a1ac9ce2792379dbbc078d7068e10..dbf6fd817431f0591b7576ca4777a10e31aa9b97 100644
--- a/Vates/VatesSimpleGui/ViewWidgets/src/MdViewerWidget.cpp
+++ b/Vates/VatesSimpleGui/ViewWidgets/src/MdViewerWidget.cpp
@@ -1,4 +1,3 @@
-#include <iostream>
#include <vector>
#include <set>
#include <string>
diff --git a/Vates/VatesSimpleGui/ViewWidgets/src/MultisliceView.cpp b/Vates/VatesSimpleGui/ViewWidgets/src/MultisliceView.cpp
index 65311bdb14ca17768bbf9381059f61cbcf0af138..00e3995b05cd779744b32d892e331ea96c1bbdc3 100644
--- a/Vates/VatesSimpleGui/ViewWidgets/src/MultisliceView.cpp
+++ b/Vates/VatesSimpleGui/ViewWidgets/src/MultisliceView.cpp
@@ -36,7 +36,6 @@
#include <QString>
-#include <iostream>
using namespace Mantid::Geometry;
using namespace MantidQt::SliceViewer;
diff --git a/Vates/VatesSimpleGui/ViewWidgets/src/ThreesliceView.cpp b/Vates/VatesSimpleGui/ViewWidgets/src/ThreesliceView.cpp
index b56216a22074ec3fec22343aef92b3741bf73436..962a116fc526c277ffadd1f32643bdb7623737f4 100644
--- a/Vates/VatesSimpleGui/ViewWidgets/src/ThreesliceView.cpp
+++ b/Vates/VatesSimpleGui/ViewWidgets/src/ThreesliceView.cpp
@@ -27,9 +27,6 @@
#include <QMessageBox>
-#include <iostream>
-#include <string>
-
namespace Mantid
{
namespace Vates
diff --git a/buildconfig/CMake/FindOpenCascade.cmake b/buildconfig/CMake/FindOpenCascade.cmake
index 4a32f023d327ce7a4958c2581a073373e1a79d40..a2675606a997fe5ee1ce4e4f43f7e6611f3dae4c 100644
--- a/buildconfig/CMake/FindOpenCascade.cmake
+++ b/buildconfig/CMake/FindOpenCascade.cmake
@@ -18,7 +18,8 @@ if ( WIN32 )
add_definitions ( -DWNT )
endif ( WIN32 )
-find_path ( OPENCASCADE_LIBRARY_DIR libTKernel.so PATHS
+find_path ( OPENCASCADE_LIBRARY_DIR NAMES libTKernel.so libTKernel.dylib PATHS
+ /usr/local/lib
/opt/OpenCASCADE/lib64
$ENV{CASROOT}/lib64
/opt/OpenCASCADE/lib
diff --git a/docs/source/algorithms/ConvertCWSDMDtoHKL-v1.rst b/docs/source/algorithms/ConvertCWSDMDtoHKL-v1.rst
new file mode 100644
index 0000000000000000000000000000000000000000..9c0672885f008b441c70c8aad1285801ff1aa9e5
--- /dev/null
+++ b/docs/source/algorithms/ConvertCWSDMDtoHKL-v1.rst
@@ -0,0 +1,108 @@
+.. algorithm::
+
+.. summary::
+
+.. alias::
+
+.. properties::
+
+Description
+-----------
+
+This algorithms is to convert an MDEventWorkspace in Q-sample coordinate
+to HKL coordindate for a reactor-based four-circle single crystal diffractometer.
+Meanwhile, the algorithm is able to export the MDEvents to file.
+
+Outline of algorithm
+####################
+
+1. Convert MDEvent's coordinate system
+
+2. Export MDEvent in Q-sample coordinate and HKL coordinate.
+
+
+Inputs
+######
+
+**InputWorkspace** is an MDEventWorkspace ???.
+
+**PeakWorkspace** is an optional input as in many cases especially after calculating UB matrix, ...
+
+**UBMatrix** is ???.
+
+
+Outputs
+#######
+
+The output is an MDEventWorkspace that... ..
+
+MDEvent
++++++++
+
+Each MDEvent in output MDEventWorkspace contain
+* *H*
+* *K*
+* *L*
+* Signal
+* Error
+* Detector ID
+* Run Number
+
+Compare with ConvertMD
+======================
+
+Comparing with ????
+
+Usage
+-----
+
+**Example - Convert detector counts of an HB3A's measurement to HKL.**
+
+.. testcode:: ExConvertHB3AToHKL
+
+ # Create input table workspaces for experiment information and virtual instrument parameters
+ CollectHB3AExperimentInfo(ExperimentNumber='406', ScanList='298', PtLists='-1,22',
+ DataDirectory='',
+ GenerateVirtualInstrument=False,
+ OutputWorkspace='ExpInfoTable', DetectorTableWorkspace='VirtualInstrumentTable')
+
+ # Convert to MDWorkspace
+ ConvertCWSDExpToMomentum(InputWorkspace='ExpInfoTable', CreateVirtualInstrument=False,
+ OutputWorkspace='QSampleMD',
+ Directory='')
+
+ ConvertCWSDMDtoHKL(InputWorkspace='QSampleMD',
+ UBMatrix='0.13329061, 0.07152342, -0.04215966, 0.01084569, -0.1620849, 0.0007607, -0.14018499, -0.07841385, -0.04002737',
+ OutputWorkspace='HKLMD')
+
+
+ # Examine
+ mdws = mtd['QSampleMD']
+ print 'Output MDEventWorkspace has %d events.'%(mdws.getNEvents())
+
+ hklws = mtd['HKLMD']
+ print 'H: range from %.5f to %.5f.' % (hklws.getXDimension().getMinimum(), hklws.getXDimension().getMaximum())
+ print 'K: range from %.5f to %.5f.' % (hklws.getYDimension().getMinimum(), hklws.getYDimension().getMaximum())
+ print 'L: range from %.5f to %.5f.' % (hklws.getZDimension().getMinimum(), hklws.getZDimension().getMaximum())
+
+.. testcleanup:: ExConvertHB3AToHKL
+
+ DeleteWorkspace(Workspace='QSampleMD')
+ DeleteWorkspace(Workspace='ExpInfoTable')
+ DeleteWorkspace(Workspace='VirtualInstrumentTable')
+ DeleteWorkspace(Workspace='HKLMD')
+ DeleteWorkspace(Workspace='HB3A_exp0406_scan0298')
+ DeleteWorkspace(Workspace='spicematrixws')
+
+Output:
+
+.. testoutput:: ExConvertHB3AToHKL
+
+ Output MDEventWorkspace has 1631 events.
+ H: range from -0.24012 to 0.29856.
+ K: range from -0.41417 to 0.42250.
+ L: range from 4.83863 to 7.23861.
+
+.. categories::
+
+.. sourcelink::
diff --git a/docs/source/algorithms/DetectorFloodWeighting-v1.rst b/docs/source/algorithms/DetectorFloodWeighting-v1.rst
index d6e206df0200079cb6bfe31681cb3d1beafbaf5e..b248c4b9d900d79aff5dd5ec4825d7438e445d8b 100644
--- a/docs/source/algorithms/DetectorFloodWeighting-v1.rst
+++ b/docs/source/algorithms/DetectorFloodWeighting-v1.rst
@@ -10,7 +10,8 @@ Description
-----------
This algorithm is used to calculate the detector flood weighting workspace use for pixel flood corrections. It was originally developed for the ANSTO Bilby instrument.
-This algorithm crops the data over the specified wavelength region, then normalizes each spectrum to the workspace spectrum maxima.
+This algorithm crops the data over the specified wavelength region, then normalizes each spectrum to the workspace spectrum maxima. The algorithm will then
+perform a solid angle correction on each spectra via :ref:`algm-SolidAngle`.
Usage
-----
@@ -25,7 +26,7 @@ Usage
dataY = [1,1,1,1,1,1,1,1,1,2,2,2,2,2,2,2,2,2] # or use dataY=[1]*9
ws = CreateWorkspace(dataX, dataY, NSpec=2, UnitX="Wavelength")
- out_ws = DetectorFloodWeighting(InputWorkspace=ws, Bands=[0,10])
+ out_ws = DetectorFloodWeighting(InputWorkspace=ws, Bands=[0,10], SolidAngleCorrection=False)
print 'Number Histograms',out_ws.getNumberHistograms()
print 'Min X:', out_ws.readX(0)[0], 'Max X:', out_ws.readX(0)[1]
@@ -40,6 +41,24 @@ Output:
Min X: 0.0 Max X: 10.0
Min Y: 0.5 Max Y: 1.0
+**Example - With Solid Angle Correction **
+
+.. testcode:: DetectorFloodWeightingExampleWithCorrection
+
+ ws = CreateSimulationWorkspace(Instrument='LOQ', BinParams=[1,1,10], UnitX="Wavelength")
+ out_ws = DetectorFloodWeighting(InputWorkspace=ws, Bands=[0,10], SolidAngleCorrection=True)
+
+ print 'Number Histograms',out_ws.getNumberHistograms()
+ print 'Number of Bins', out_ws.blocksize()
+ print 'X units', out_ws.getAxis(0).getUnit().unitID()
+
+Output:
+
+.. testoutput:: DetectorFloodWeightingExampleWithCorrection
+
+ Number Histograms 17776
+ Number of Bins 1
+ X units Wavelength
.. categories::
diff --git a/docs/source/algorithms/TOFTOFMergeRuns-v1.rst b/docs/source/algorithms/TOFTOFMergeRuns-v1.rst
new file mode 100644
index 0000000000000000000000000000000000000000..25aec61d5f1324450adf5eb51a07564d619897ff
--- /dev/null
+++ b/docs/source/algorithms/TOFTOFMergeRuns-v1.rst
@@ -0,0 +1,150 @@
+.. algorithm::
+
+.. summary::
+
+.. alias::
+
+.. properties::
+
+Description
+-----------
+
+Merges workspaces from a given list using :ref:`algm-MergeRuns` algorithm. Sample logs are merged in the following way.
+
++---------++-------------------------------+
+| Type of || Parameter |
+| merging || |
++=========++===============================+
+| Average || temperature |
++---------++-------------------------------+
+| Minimum || run_start |
++---------++-------------------------------+
+| Maximum || run_end |
++---------++-------------------------------+
+| Summed || duration, monitor_counts |
++---------++-------------------------------+
+| Listed || run_number |
++---------++-------------------------------+
+
+Other sample logs are copied from the first workspace.
+
+**Valid input workspaces**
+
+Algorithm accepts both, matrix workspaces and groups of matrix workspaces. Valid input workspaces
+
+- must have following sample logs: *channel_width*, *chopper_ratio*, *chopper_speed*, *Ei*, *wavelength*, *full_channels*, *EPP*, *monitor_counts*, *duration*, *run_number*, *run_start*, *run_end*
+- must have identical following sample logs: *channel_width*, *chopper_ratio*, *chopper_speed*, *Ei*, *wavelength*, *full_channels*, *EPP*. Tolerance for double comparison is 0.01.
+- must have common binning for all its spectra for each input workspace.
+
+If these conditions are not fulfilled, algorithm terminates with an error message.
+
+Sample log *temperature* is optional. If it is present in some of input workspaces, mean value will be calculated. Otherwise, no *temperature* sample log will be created in the output workspace.
+
+Algorithm will produce warning if
+- *temperature* and *run_title* sample logs are not present or different,
+- some of input workspaces have zero monitor counts.
+
+Usage
+-----
+
+**Example - Merge list of workspaces**
+
+.. testcode:: ExTOFTOFMergeRuns2ws
+
+ ws1 = LoadMLZ(Filename='TOFTOFTestdata.nxs')
+ ws2 = LoadMLZ(Filename='TOFTOFTestdata.nxs')
+
+ # change sample logs for a second workspace, not needed for real workspaces
+ lognames = 'temperature,run_start,run_end,monitor_counts,run_number'
+ logvalues = '296.15,2013-07-28T11:32:19+0053,2013-07-28T12:32:19+0053,145145,TOFTOFTestdata2'
+ AddSampleLogMultiple(ws2, lognames, logvalues)
+
+ # Input = list of workspaces
+ ws3 = TOFTOFMergeRuns('ws1,ws2')
+
+ # Temperature
+ print "Temperature of experiment for 1st workspace (in K): ", ws1.getRun().getLogData('temperature').value
+ print "Temperature of experiment for 2nd workspace (in K): ", ws2.getRun().getLogData('temperature').value
+ print "Temperature of experiment for merged workspaces = average over workspaces (in K): ", ws3.getRun().getLogData('temperature').value
+
+ # Duration
+ print "Duration of experiment for 1st workspace (in s): ", ws1.getRun().getLogData('duration').value
+ print "Duration of experiment for 2nd workspace (in s): ", ws2.getRun().getLogData('duration').value
+ print "Duration of experiment for merged workspaces = sum of all durations (in s): ", ws3.getRun().getLogData('duration').value
+
+ # Run start
+ print "Start of experiment for 1st workspace: ", ws1.getRun().getLogData('run_start').value
+ print "Start of experiment for 2nd workspace: ", ws2.getRun().getLogData('run_start').value
+ print "Start of experiment for merged workspaces = miminum of all workspaces: ", ws3.getRun().getLogData('run_start').value
+
+ # Run end
+ print "End of experiment for 1st workspace: ", ws1.getRun().getLogData('run_end').value
+ print "End of experiment for 2nd workspace: ", ws2.getRun().getLogData('run_end').value
+ print "End of experiment for merged workspaces = maximum of all workspaces: ", ws3.getRun().getLogData('run_end').value
+
+ # Run number
+ print "Run number for 1st workspace: ", ws1.getRun().getLogData('run_number').value
+ print "Run number for 2nd workspace: ", ws2.getRun().getLogData('run_number').value
+ print "Run number for merged workspaces = list of all workspaces: ", ws3.getRun().getLogData('run_number').value
+
+ # Monitor counts
+ print "Monitor counts for 1st workspace: ", ws1.getRun().getLogData('monitor_counts').value
+ print "Monitor counts for 2nd workspace: ", ws2.getRun().getLogData('monitor_counts').value
+ print "Monitor counts for merged workspaces = sum over all workspaces: ", ws3.getRun().getLogData('monitor_counts').value
+
+
+Output:
+
+.. testoutput:: ExTOFTOFMergeRuns2ws
+
+ Temperature of experiment for 1st workspace (in K): 294.149414
+ Temperature of experiment for 2nd workspace (in K): 296.15
+ Temperature of experiment for merged workspaces = average over workspaces (in K): 295.149707
+ Duration of experiment for 1st workspace (in s): 3601
+ Duration of experiment for 2nd workspace (in s): 3601
+ Duration of experiment for merged workspaces = sum of all durations (in s): 7202
+ Start of experiment for 1st workspace: 2013-07-28T10:32:19+0053
+ Start of experiment for 2nd workspace: 2013-07-28T11:32:19+0053
+ Start of experiment for merged workspaces = miminum of all workspaces: 2013-07-28T10:32:19+0053
+ End of experiment for 1st workspace: 2013-07-28T11:32:20+0053
+ End of experiment for 2nd workspace: 2013-07-28T12:32:19+0053
+ End of experiment for merged workspaces = maximum of all workspaces: 2013-07-28T12:32:19+0053
+ Run number for 1st workspace: TOFTOFTestdata
+ Run number for 2nd workspace: TOFTOFTestdata2
+ Run number for merged workspaces = list of all workspaces: ['TOFTOFTestdata', 'TOFTOFTestdata2']
+ Monitor counts for 1st workspace: 136935
+ Monitor counts for 2nd workspace: 145145
+ Monitor counts for merged workspaces = sum over all workspaces: 282080
+
+**Example - Merge group of workspaces**
+
+.. testcode:: ExTOFTOFMergeRunsGroup
+
+ ws1 = LoadMLZ(Filename='TOFTOFTestdata.nxs')
+ ws2 = LoadMLZ(Filename='TOFTOFTestdata.nxs')
+
+ # change sample logs for a second workspace, not needed for real workspaces
+ lognames = 'temperature,run_start,run_end,monitor_counts,run_number'
+ logvalues = '296.15,2013-07-28T11:32:19+0053,2013-07-28T12:32:19+0053,145145,TOFTOFTestdata2'
+ AddSampleLogMultiple(ws2, lognames, logvalues)
+
+ group=GroupWorkspaces('ws1,ws2')
+ groupmerged=TOFTOFMergeRuns(group)
+ print "Monitor counts for 1st workspace: ", ws1.getRun().getLogData('monitor_counts').value
+ print "Monitor counts for 2nd workspace: ", ws2.getRun().getLogData('monitor_counts').value
+ print "Monitor counts for merged workspaces = sum over all workspaces: ", groupmerged.getRun().getLogData('monitor_counts').value
+
+Output:
+
+.. testoutput:: ExTOFTOFMergeRunsGroup
+
+ Monitor counts for 1st workspace: 136935
+ Monitor counts for 2nd workspace: 145145
+ Monitor counts for merged workspaces = sum over all workspaces: 282080
+
+.. categories::
+
+.. sourcelink::
+
+
+
diff --git a/docs/source/interfaces/Tomographic_Reconstruction.rst b/docs/source/interfaces/Tomographic_Reconstruction.rst
index d31f16f6ad90f25f598f33de0f037bcb527bc861..10218297b0180cf65a005cfe5af11202a362303f 100644
--- a/docs/source/interfaces/Tomographic_Reconstruction.rst
+++ b/docs/source/interfaces/Tomographic_Reconstruction.rst
@@ -140,6 +140,43 @@ To be able to run jobs on a remote compute resource (cluster, supercomputer, etc
You can monitor the status of the jobs currently running (and recently
run) on remote compute resources in the same tab.
+Setting common parameters for the reconstruction jobs
+-----------------------------------------------------
+
+Several parameters can be set in the "ROI etc." section or tab. These
+parameters will be used for all the reconstruction jobs, regardless of
+the tool and/or reconstruction method used.
+
+* Region of interest (ROI) for the analysis
+* Area for normalization (open beam, not blocked by sample)
+* Center of rotation, for tomographic reconstruction
+
+At any stage during the process of selecting the regions it is also
+possible to see how the selections fit different images by sliding
+through the images of the stack (using the slider or scroll bar).
+
+The center of rotation can be selected interactively by clicking on
+the select button and then clicking on an image pixel. To select the
+regions of interest or the area of normalization, just click on the
+respective "select" button and then click and drag with the mouse to
+select a rectangle. The precise coordinates of the center and regions
+can be set via the boxes of the right panel as well.
+
+Once you have selected or set one of the regions, or the center, they
+can be selected again by pushing the respective "Select" buttons
+and/or editing their coordinates manually.
+
+The default values, set in principle when a new stack of images is
+loaded, is as follows. The region of intererest is set to cover all
+the images. The regions of normalization is not set (empty), and the
+center of rotation is set to the center of the image. The option to
+find the center of rotation automatically is disabled at present.
+
+If when selection a region the mouse is moved outside of the images,
+it is possible to continue the selection of the region (second corner)
+by clicking again inside the image. Alternatively, any selection can
+be reset at any point by using the "reset" buttons.
+
Running jobs locally
--------------------
diff --git a/instrument/Bilby_Definition.xml b/instrument/Bilby_Definition.xml
new file mode 100644
index 0000000000000000000000000000000000000000..81029ac258ae427777382b1c5f79f82a6478b94b
--- /dev/null
+++ b/instrument/Bilby_Definition.xml
@@ -0,0 +1,506 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!-- For help on the notation used to specify an Instrument Definition File
+ see http://www.mantidproject.org/IDF -->
+<instrument xmlns="http://www.mantidproject.org/IDF/1.0"
+ xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+ xsi:schemaLocation="http://www.mantidproject.org/IDF/1.0 http://schema.mantidproject.org/IDF/1.0/IDFSchema.xsd"
+ name="Bilby" valid-from ="1901-01-01 00:00:00"
+ valid-to ="2100-01-01 00:00:00"
+ last-modified="2100-01-01 00:00:00">
+
+ <defaults>
+ <length unit="meter"/>
+ <angle unit="degree"/>
+ <reference-frame>
+ <!-- The z-axis is set parallel to and in the direction of the beam. the
+ y-axis points up and the coordinate system is right handed. -->
+ <along-beam axis="z"/>
+ <pointing-up axis="y"/>
+ <handedness val="right"/>
+ </reference-frame>
+ <default-view axis-view="z-"/>
+ </defaults>
+
+
+ <!-- source and sample-position components -->
+ <component name="Source" type="source">
+ <location x="0.0" y="0.0" />
+ <parameter name="z">
+ <logfile id="L1_chopper_value" eq="1*value"/>
+ </parameter>
+ </component>
+ <type name="source" is="Source" />
+
+ <component name="Sample-Holder" type="some-sample-holder">
+ <location z="0.0" x="0.0" y="0.0"/>
+ </component>
+ <type name="some-sample-holder" is="SamplePos" />
+
+ <type name="pixel" is="detector">
+ <cylinder id="cyl-approx">
+ <centre-of-bottom-base r="0.0" t="0.0" p="0.0" />
+ <axis x="0.0" y="1.0" z="0.0" />
+ <radius val="0.004" />
+ <height val="0.0025" /> <!-- height 0.64m/256 -->
+ </cylinder>
+ <algebra val="cyl-approx" />
+ </type>
+
+ <component name="CurtainLeft" type="bank01" idlist="bank01">
+ <location/>
+ </component>
+ <type name="bank01">
+ <component type="IdealBilbyPanel">
+ <location y="0.0">
+ <!-- Rotate the panel 10 degrees -->
+ <rot val="10" axis-x="0" axis-y="1" axis-z="0">
+ </rot>
+ </location>
+ <parameter name="z">
+ <logfile id="L2_curtainl_value" eq="1*value - ( sin(10 * _pi / 180.0) * 0.0084 * 40 / 2 )"/> <!-- front l panel position -->
+ </parameter>
+ <parameter name="x">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_curtainl_value" eq="0.1678 + value"/> <!-- from beam center -->
+ </parameter>
+ </component>
+ </type>
+
+<component name="CurtainTop" type="bank03" idlist="bank03">
+ <location/>
+</component>
+<type name="bank03">
+ <component type="IdealBilbyPanel">
+ <location x="0.0">
+ <rot val="90" axis-x="0" axis-y="0" axis-z="1">
+ <!-- Rotate the panel 10 degrees -->
+ <rot val="10" axis-x="0" axis-y="1" axis-z="0" />
+ </rot>
+ </location>
+ <parameter name="z">
+ <logfile id="L2_curtainu_value" eq="1*value - ( sin(10 * _pi / 180.0) * 0.0084 * 40 / 2 )"/> <!-- front t panel z position -->
+ </parameter>
+ <parameter name="y">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_curtainu_value" eq="0.1678 + value"/> <!-- from beam center -->
+ </parameter>
+ </component>
+</type>
+
+ <component name="CurtainRight" type="bank02" idlist="bank02">
+ <location/>
+ </component>
+ <type name="bank02">
+ <component type="IdealBilbyPanel">
+ <location y="0.0" >
+ <rot val="180" axis-x="0" axis-y="0" axis-z="1">
+ <!-- Rotate the panel 10 degrees -->
+ <rot val="10" axis-x="0" axis-y="1" axis-z="0" />
+ </rot>
+ </location>
+ <parameter name="z">
+ <logfile id="L2_curtainr_value" eq="1*value - ( sin(10 * _pi / 180.0) * 0.0084 * 40 / 2 )"/> <!-- front r panel z position -->
+ </parameter>
+ <parameter name="x">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_curtainr_value" eq="-0.1678 - value"/> <!-- from beam center -->
+ </parameter>
+ </component>
+ </type>
+
+ <component name="CurtainBottom" type="bank04" idlist="bank04">
+ <location/>
+ </component>
+ <type name="bank04">
+ <component type="IdealBilbyPanel">
+ <location x="0.0" >
+ <rot val="270" axis-x="0" axis-y="0" axis-z="1">
+ <!-- Rotate the panel 10 degrees -->
+ <rot val="10" axis-x="0" axis-y="1" axis-z="0" />
+ </rot>
+ </location>
+ <parameter name="z">
+ <logfile id="L2_curtaind_value" eq="1*value - ( sin(10 * _pi / 180.0) * 0.0084 * 40 / 2 )"/> <!-- front b panel z position -->
+ </parameter>
+ <parameter name="y">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_curtaind_value" eq="-0.1678 - value"/> <!-- from beam center -->
+ </parameter>
+ </component>
+ </type>
+
+ <component name="BackDetectorLeft" type="bank05" idlist="bank05">
+ <location/>
+ </component>
+ <type name="bank05">
+ <component type="EastBilbyPanel">
+ <location y="0.0" >
+ </location>
+ <parameter name="z">
+ <logfile id="L2_det_value"/> <!-- back panel z position -->
+ </parameter>
+ <parameter name="x">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_det_value" eq="0.1678 + value"/> <!-- x pos -->
+ </parameter>
+ </component>
+ </type>
+
+ <component name="BackDetectorRight" type="bank06" idlist="bank06">
+ <location/>
+ </component>
+ <type name="bank06">
+ <component type="WestBilbyPanel">
+ <location x="-0.168" y="0.0" >
+ <rot val="180" axis-x="0" axis-y="0" axis-z="1" />
+ </location>
+ <parameter name="z">
+ <logfile id="L2_det_value"/> <!-- back panel z position -->
+ </parameter>
+ <parameter name="x">
+ <!-- from beam center 0.1678 = ( (0.008*40) + (0.0004 * 39) ) / 2 -->
+ <logfile id="D_det_value" eq="-0.1678 - value"/> <!-- x pos -->
+ </parameter>
+ </component>
+ </type>
+
+ <!--- Bilby's 6 panels are 0.64m high, and 0.336m wide. Each panel has 40 tubes each made from 256 pixels. -->
+
+ <!-- Grouping by eight-packs would really be unnecessary. All tubes equally spaced. -->
+ <type name="IdealBilbyPanel">
+ <component type="eight_pack">
+<location x="-0.168000" name="eight_pack1" />
+<location x="-0.100800" name="eight_pack2" />
+<location x="-0.033600" name="eight_pack3" />
+<location x="0.033600" name="eight_pack4" />
+<location x="0.100800" name="eight_pack5" />
+ </component>
+ </type>
+
+ <!-- eight-packs not equally separated. -->
+ <type name="EastBilbyPanel">
+ <!-- Grouping by eight-packs would really be unnecessary. All tubes equally spaced. -->
+ <component type="eight_pack">
+<location x="-0.167000" name="eight_pack1" />
+<location x="-0.099200" name="eight_pack2" />
+<location x="-0.031600" name="eight_pack3" />
+<location x="0.036200" name="eight_pack4" />
+<location x="0.104000" name="eight_pack5" />
+ </component>
+ </type>
+
+ <!-- eight-packs not equally separated. -->
+ <type name="WestBilbyPanel">
+ <!-- Grouping by eight-packs would really be unnecessary. All tubes equally spaced. -->
+ <component type="eight_pack">
+<location x="-0.167000" name="eight_pack1" />
+<location x="-0.099200" name="eight_pack2" />
+<location x="-0.031600" name="eight_pack3" />
+<location x="0.035700" name="eight_pack4" />
+<location x="0.103900" name="eight_pack5" />
+ </component>
+ </type>
+
+<type name="eight_pack">
+<component type="tube">
+<!-- tubes in each eight_pack are 0.0004 m separated -->
+<location x="0.000000" name="tube1" />
+<location x="0.008400" name="tube2" />
+<location x="0.016800" name="tube3" />
+<location x="0.025200" name="tube4" />
+<location x="0.033600" name="tube5" />
+<location x="0.042000" name="tube6" />
+<location x="0.050400" name="tube7" />
+<location x="0.058800" name="tube8" />
+</component>
+</type>
+
+
+ <type name="tube" outline="yes">
+ <component type="pixel">
+<location y="-0.320000" name="pixel1"/>
+<location y="-0.317500" name="pixel2"/>
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+
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+ <id start="10240" end="20479" />
+ </idlist>
+
+ <idlist idname="bank03">
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+
+ <idlist idname="bank04">
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+
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+ </idlist>
+
+ <idlist idname="bank06">
+ <id start="51200" end="61439" />
+ </idlist>
+
+
+</instrument>
+
\ No newline at end of file
diff --git a/instrument/Facilities.xml b/instrument/Facilities.xml
index 320fe4089c44e25783ca9b5cb6ece153a632f096..e83d54feffb20fac7ab30c92b6d0ade40679e106 100644
--- a/instrument/Facilities.xml
+++ b/instrument/Facilities.xml
@@ -640,6 +640,13 @@
</instrument>
</facility>
+<!-- ANSTO -->
+<facility name="ANSTO" FileExtensions=".nxs,.tar">
+ <instrument name="Bilby">
+ <technique>Small Angle Scattering</technique>
+ </instrument>
+</facility>
+
<!-- Test Facility to allow example usage of Live listeners against "Fake" instrument sources -->
<facility name="TEST_LIVE" FileExtensions=".nxs,.raw">
<instrument name="ISIS_Histogram">
diff --git a/tools/DAEserv/DAEserv/isisds_command.cpp b/tools/DAEserv/DAEserv/isisds_command.cpp
index 131c03ade6e7f6eb2eb5305ea564ecab6bfb421c..b354735c73272a643e4cd6d5e4e83a4756458797 100644
--- a/tools/DAEserv/DAEserv/isisds_command.cpp
+++ b/tools/DAEserv/DAEserv/isisds_command.cpp
@@ -20,8 +20,6 @@
#include <stdio.h>
#include "isisds_command.h"
-#include <iostream>
-
using namespace std;
/*