-
Russell Taylor authored
Re-jig the ConfigService so that the logging doesn't start up until after the Mantid.user.properties file has been dealt with. Re #1161.
Russell Taylor authoredRe-jig the ConfigService so that the logging doesn't start up until after the Mantid.user.properties file has been dealt with. Re #1161.
Code owners
Assign users and groups as approvers for specific file changes. Learn more.
CreateCalFileByNames.cpp 9.89 KiB
//----------------------------------------------------------------------
// Includes
//----------------------------------------------------------------------
#include <boost/algorithm/string/split.hpp>
#include <boost/algorithm/string/detail/classification.hpp>
#include "MantidKernel/FileProperty.h"
#include "MantidKernel/ConfigService.h"
#include "MantidAPI/InstrumentDataService.h"
#include "MantidAPI/IInstrument.h"
#include <queue>
#include <fstream>
#include <iomanip>
#include "MantidAlgorithms/CreateCalFileByNames.h"
namespace Mantid
{
namespace Algorithms
{
// Register the class into the algorithm factory
DECLARE_ALGORITHM(CreateCalFileByNames)
using namespace Kernel;
using API::Progress;
CreateCalFileByNames::CreateCalFileByNames():API::Algorithm(),group_no(0)
{
}
/** Initialisation method. Declares properties to be used in algorithm.
*
*/
void CreateCalFileByNames::init()
{
declareProperty("InstrumentName", "",
"The name of the instrument, needs to be present in the Instrument Data\n"
"Service" );
declareProperty(new FileProperty("GroupingFileName","",FileProperty::Save,
std::vector<std::string>(1,"cal")),
"The name of the output CalFile");
declareProperty("GroupNames","",
"A string of the instrument component names to use as separate groups.\n"
"Use / or , to separate multiple groups");
}
/** Executes the algorithm
*
* @throw Exception::FileError If the grouping file cannot be opened or read successfully
* @throw runtime_error If unable to run one of the sub-algorithms successfully
*/
void CreateCalFileByNames::exec()
{
std::ostringstream mess;
// Check that the instrument is in store
std::string instname=getProperty("InstrumentName");
// Get only the first 3 letters
std::string instshort=instname;
std::transform(instshort.begin(),instshort.end(),instshort.begin(),toupper);
instshort=instshort+"_Definition.xml";
// If instrument not in store, insult the user
if (!API::InstrumentDataService::Instance().doesExist(instshort))
{
g_log.error("Instrument "+instshort+" is not present in data store.");
throw std::runtime_error("Instrument "+instshort+" is not present in data store.");
}
// Get the instrument.
API::IInstrument_sptr inst=API::InstrumentDataService::Instance().retrieve(instshort);
// Get the names of groups
std::string groupsname=getProperty("GroupNames");
groups=groupsname;
// Split the names of the group and insert in a vector, throw if group empty
std::vector<std::string> vgroups;
boost::split( vgroups, groupsname, boost::algorithm::detail::is_any_ofF<char>(",/*"));
if (vgroups.empty())
{
g_log.error("Could not determine group names. Group names should be separated by / or ,");
throw std::runtime_error("Could not determine group names. Group names should be separated by / or ,");
}
// Assign incremental number to each group
std::map<std::string,int> group_map;
int index=0;
for (std::vector<std::string>::const_iterator it=vgroups.begin();it!=vgroups.end();it++)
group_map[(*it)]=++index;
// Not needed anymore
vgroups.clear();
// Find Detectors that belong to groups
typedef boost::shared_ptr<Geometry::ICompAssembly> sptr_ICompAss;
typedef boost::shared_ptr<Geometry::IComponent> sptr_IComp;
typedef boost::shared_ptr<Geometry::IDetector> sptr_IDet;
std::queue< std::pair<sptr_ICompAss,int> > assemblies;
sptr_ICompAss current=boost::dynamic_pointer_cast<Geometry::ICompAssembly>(inst);
sptr_IDet currentDet;
sptr_IComp currentIComp;
sptr_ICompAss currentchild;
int top_group, child_group;
if (current.get())
{
top_group=group_map[current->getName()]; // Return 0 if not in map
assemblies.push(std::make_pair<sptr_ICompAss,int>(current,top_group));
}
std::string filename=getProperty("GroupingFilename");
// Check if a template cal file is given
bool overwrite=groupingFileDoesExist(filename);
int number=0;
Progress prog(this,0.0,0.8,assemblies.size());
while(!assemblies.empty()) //Travel the tree from the instrument point
{
current=assemblies.front().first;
top_group=assemblies.front().second;
assemblies.pop();
int nchilds=current->nelements();
if (nchilds!=0)
{
for (int i=0;i<nchilds;++i)
{
currentIComp=(*(current.get()))[i]; // Get child
currentDet=boost::dynamic_pointer_cast<Geometry::IDetector>(currentIComp);
if (currentDet.get())// Is detector
{
if (overwrite) // Map will contains udet as the key
instrcalib[currentDet->getID()]=std::make_pair<int,int>(number++,top_group);
else // Map will contains the entry number as the key
instrcalib[number++]=std::make_pair<int,int>(currentDet->getID(),top_group);
}
else // Is an assembly, push in the queue
{
currentchild=boost::dynamic_pointer_cast<Geometry::ICompAssembly>(currentIComp);
if (currentchild.get()) {
child_group=group_map[currentchild->getName()];
if (child_group==0)
child_group=top_group;
assemblies.push(std::make_pair<sptr_ICompAss,int>(currentchild,child_group));
}
}
}
}
prog.report();
}
// Write the results in a file
saveGroupingFile(filename,overwrite);
progress(0.2);
return;
}
bool CreateCalFileByNames::groupingFileDoesExist(const std::string& filename) const
{
std::ifstream file(filename.c_str());
// Check if the file already exists
if (!file)
return false;
file.close();
std::ostringstream mess;
mess << "Calibration file "<< filename << " already exist. Only grouping will be modified";
g_log.information(mess.str());
return true;
}
/// Creates and saves the output file
void CreateCalFileByNames::saveGroupingFile(const std::string& filename,bool overwrite) const
{
std::ostringstream message;
std::fstream outfile;
std::fstream infile;
if (!overwrite) // Open the file directly
{
outfile.open(filename.c_str(), std::ios::out);
if (!outfile.is_open())
{
message << "Can't open Calibration File: " << filename;
g_log.error(message.str());
throw std::runtime_error(message.str());
message.str("");
}
}
else
{
infile.open(filename.c_str(),std::ios::in);
std::string newfilename=filename+"2";
outfile.open(newfilename.c_str(), std::ios::out);
if (!infile.is_open())
{
message << "Can't open input Calibration File: " << filename;
g_log.error(message.str());
throw std::runtime_error(message.str());
}
if (!outfile.is_open())
{
message << "Can't open new Calibration File: " << newfilename;
g_log.error(message.str());
throw std::runtime_error(message.str());
}
}
// Write the headers
writeHeaders(outfile,filename,overwrite);
if (overwrite) {
int number, udet, select, group;
double offset;
instrcalmap::const_iterator it;
std::string str;
while(getline(infile,str))
{
if (str.empty() || str[0]=='#') // Skip the headers
continue;
std::istringstream istr(str);
istr >> number >> udet >> offset >> select >> group;
it=instrcalib.find(udet);
if (it==instrcalib.end()) // Not found, don't assign a group
group=0;
group=((*it).second).second; // If found then assign new group
writeCalEntry(outfile,number,udet,offset,select,group);
}
}
else //
{
instrcalmap::const_iterator it=instrcalib.begin();
for (;it!=instrcalib.end();it++)
writeCalEntry(outfile,(*it).first,((*it).second).first,0.0,1,((*it).second).second);
}
// Closing
outfile.close();
if (overwrite)
infile.close();
return;
}
/// Writes a single calibration line to the output file
void CreateCalFileByNames::writeCalEntry(std::ostream& os, int number, int udet, double offset, int select, int group)
{
os << std::fixed << std::setw(9) << number <<
std::fixed << std::setw(15) << udet <<
std::fixed << std::setprecision(7) << std::setw(15)<< offset <<
std::fixed << std::setw(8) << select <<
std::fixed << std::setw(8) << group << "\n";
return;
}
/// Writes out the header to the output file
void CreateCalFileByNames::writeHeaders(std::ostream& os,const std::string& filename,bool overwrite) const
{
os << "# Diffraction focusing calibration file created by Mantid" << "\n";
os << "# Detectors have been grouped using assembly names:" << groups <<"\n";
if (overwrite)
{
os << "# Template file " << filename << " has been used" << "\n";
os << "# Only grouping has been changed, offset from template file have been copied" << "\n";
}
else
os << "# No template file, all offsets set to 0.0 and select to 1" << "\n";
os << "# Number UDET offset select group" << "\n";
return;
}
} // namespace Algorithm
} // namespace Mantid