Applying formatting options.

radixams/main.cc

@@ -50,10 +50,10 @@ int main(int argc, char **argv)
     if(std::fabs(z) > 1e-16)
     {
         sigma = 1.911515e-16 * (z * z * z * z)
-              - 9.857582e-13 * (z * z * z)
-              + 5.3399174e-9 * (z * z)
-              - 1.180686e-4  * z
-              + 1.22507;
+                - 9.857582e-13 * (z * z * z)
+                + 5.3399174e-9 * (z * z)
+                - 1.180686e-4  * z
+                + 1.22507;
     }
 
     // absorption/attenuation of gamma ray as it passes through air

radixbug/tests/tstBug.cc

@@ -10,7 +10,8 @@ TEST(radixbug, Timer)
     radix_timer_2(timer2);
     radix_timer_3(timer3);
     double value = 0;
-    auto func = [](double value)->double{
+    auto func = [](double value)->double
+    {
         return value * value;
     };
     //
@@ -29,17 +30,17 @@ TEST(radixbug, Timer)
     }
     radix_timer_stop(timer1);
     radix_timer_block(std::cout << "First Timer duration: " << timer1.duration()
-              << " nanoseconds with "
-              << timer1.intervals()
-              << " invervals" << std::endl);
+                      << " nanoseconds with "
+                      << timer1.intervals()
+                      << " invervals" << std::endl);
     radix_timer_block_2(std::cout << "Second Timer duration: " << timer2.duration()
-              << " nanoseconds with "
-              << timer2.intervals()
-              << " invervals" << std::endl);
+                        << " nanoseconds with "
+                        << timer2.intervals()
+                        << " invervals" << std::endl);
     radix_timer_block_3(std::cout << "Third Timer duration: " << timer3.duration()
-              << " nanoseconds with "
-              << timer3.intervals()
-              << " invervals" << std::endl);
+                        << " nanoseconds with "
+                        << timer3.intervals()
+                        << " invervals" << std::endl);
 
     EXPECT_EQ(timer1.intervals(), 1);
     EXPECT_EQ(timer2.intervals(), 100);

radixcommand/commandline.cc

@@ -11,10 +11,11 @@ CommandLine::CommandLine(int argc, char ** argv)
 {
     if(argc < 1) return;
     mExecutable = argv[0];
-    for (int i = 1; i < argc; i++) {
+    for (int i = 1; i < argc; i++)
+    {
         std::string temp = std::string(argv[i]);
         std::tuple<std::string, std::string, bool> data
-                = std::make_tuple("", "", false);
+            = std::make_tuple("", "", false);
         //
         // Check for '-' as first character
         //
@@ -27,13 +28,15 @@ CommandLine::CommandLine(int argc, char ** argv)
                 //
                 size_t index = temp.find('=');
                 if (index == std::string::npos)
-                {//we didn't find equal sign
+                {
+                    //we didn't find equal sign
                     //
                     // This is just a flag with empty value
                     //
                     std::get<0>(data) = std::string("");
                     mData.insert(std::make_pair(temp.substr(1), data));
-                } else
+                }
+                else
                 {
                     //
                     // We found equal sign, so we must divide into flag and value
@@ -70,10 +73,12 @@ void CommandLine::addOption(const std::string &name
         // create a new tuple with no value
         mData.insert(std::make_pair(name,
                                     std::make_tuple(std::string("")
-                                                    , description
-                                                    , required)));
-    } else
-    { // update existing entry
+                                            , description
+                                            , required)));
+    }
+    else
+    {
+        // update existing entry
         std::get<1>(it->second) = description;
         std::get<2>(it->second) = required;
     }
@@ -104,12 +109,14 @@ void CommandLine::printParsedLine(std::ostream &out) const
             if(required)
             {
                 out << "[" << it.first << "] " << value;
-            } else
+            }
+            else
             {
                 out << "<" << it.first << "> " << value;
             }
             out << " -- " << std::get<1>(it.second) << std::endl;
-        } else
+        }
+        else
         {
             out << "*" << it.first << " " << value << std::endl;
         }
@@ -121,7 +128,8 @@ void CommandLine::printParsedLine(std::ostream &out) const
         {
             out << "\t" << mArgs[i] << std::endl;
         }
-    } else
+    }
+    else
     {
         out << "No arguments." << std::endl;
     }
@@ -147,7 +155,8 @@ void CommandLine::help(std::ostream &out) const
             if(required)
             {
                 out << " [-" << it.first << "=var]";
-            } else
+            }
+            else
             {
                 out << " <-" << it.first << "<=var>>";
             }
@@ -171,7 +180,8 @@ void CommandLine::help(std::ostream &out) const
             if(required)
             {
                 out << "[" << it.first << "] ";
-            } else
+            }
+            else
             {
                 out << "<" << it.first << "> ";
             }
@@ -183,9 +193,10 @@ void CommandLine::help(std::ostream &out) const
         out << "\t" << mDeclArgs[i].first;
         if(!mDeclArgs[i].second.empty())
         {
-           out << " -- "
-              << mDeclArgs[i].second << std::endl;
-        } else
+            out << " -- "
+                << mDeclArgs[i].second << std::endl;
+        }
+        else
         {
             out << std::endl;
         }
@@ -254,16 +265,19 @@ bool CommandLine::validate(std::vector<std::string> &errors) const
         if((mDeclArgs.size() - mArgs.size())==1)
         {
             ss << " '" << mDeclArgs[mArgs.size()].first << "'";
-        } else {
+        }
+        else
+        {
             ss << "s:" << std::endl;
             for(size_t i = mArgs.size(); i < mDeclArgs.size(); ++i)
             {
                 ss << "\t'" << mDeclArgs[i].first;
                 if(!mDeclArgs[i].second.empty())
                 {
-                   ss << "' -- "
-                      << mDeclArgs[i].second << std::endl;
-                } else
+                    ss << "' -- "
+                       << mDeclArgs[i].second << std::endl;
+                }
+                else
                 {
                     ss << "'" << std::endl;
                 }
@@ -296,7 +310,8 @@ std::string CommandLine::get(const std::string& name) const
         std::stringstream ss;
         ss << "No such option: " << name;
         throw std::logic_error(ss.str());
-    } else
+    }
+    else
     {
         std::string value = std::get<0>(it->second);
         if(value.empty())

radixcommand/commandline.i.hh

@@ -17,7 +17,8 @@ return_type CommandLine::get(const std::string& name) const
         std::stringstream ss;
         ss << "No such option: " << name;
         throw std::logic_error(ss.str());
-    } else
+    }
+    else
     {
         std::string value = std::get<0>(it->second);
         if(value.empty())

radixcommand/tests/tstCommandLine.cc

@@ -22,7 +22,8 @@ TEST(radixcommand, mixed)
                           (char*)"-M=machine.txt",
                           (char*)"-load=3.4",
                           (char*)"-flag",
-                          (char*)"inputB"};
+                          (char*)"inputB"
+                         };
     CommandLine line(fake_argc, fake_argv);
     line.addOption("o"
                    , "Output filepath, whitespace must be escaped."
@@ -50,7 +51,8 @@ TEST(radixcommand, declared)
 {
     int fake_argc = 2;
     char * fake_argv[] = {(char*)("/Users/jap/build/release/dummy"),
-                          (char*)"-o=path/to a/file"};
+                          (char*)"-o=path/to a/file"
+                         };
     CommandLine line(fake_argc, fake_argv);
     line.declareArgument("input", "Path to input file.");
     line.addOption("o"
@@ -84,7 +86,8 @@ TEST(radixcommand, args)
                           (char*)"inputA",
                           (char*)"machine.txt",
                           (char*)"3.4",
-                          (char*)"input 6"};
+                          (char*)"input 6"
+                         };
 
     CommandLine line(fake_argc, fake_argv);
     std::string a0 = line.arg<std::string>(0);

radixgeometry/aabb.cc

@@ -14,24 +14,29 @@
 namespace radix
 {
 AABB::AABB(void)
-    : x0(-1), x1(1), y0(-1), y1(1), z0(-1), z1(1) {
+    : x0(-1), x1(1), y0(-1), y1(1), z0(-1), z1(1)
+{
 }
 
 AABB::AABB(const Real _x0, const Real _x1,
            const Real _y0, const Real _y1,
            const Real _z0, const Real _z1)
-    : x0(_x0), x1(_x1), y0(_y0), y1(_y1), z0(_z0), z1(_z1) {
+    : x0(_x0), x1(_x1), y0(_y0), y1(_y1), z0(_z0), z1(_z1)
+{
 }
 
 AABB::AABB(const Point3D p0, const Point3D p1)
-    : x0(p0.x), x1(p1.x), y0(p0.y), y1(p1.y), z0(p0.z), z1(p1.z) {
+    : x0(p0.x), x1(p1.x), y0(p0.y), y1(p1.y), z0(p0.z), z1(p1.z)
+{
 }
 
 AABB::AABB(const AABB& aabb)
-    : x0(aabb.x0), x1(aabb.x1), y0(aabb.y0), y1(aabb.y1), z0(aabb.z0), z1(aabb.z1) {
+    : x0(aabb.x0), x1(aabb.x1), y0(aabb.y0), y1(aabb.y1), z0(aabb.z0), z1(aabb.z1)
+{
 }
 
-AABB& AABB::operator=(const AABB& rhs) {
+AABB& AABB::operator=(const AABB& rhs)
+{
     if (this == &rhs)
         return (*this);
 
@@ -45,76 +50,102 @@ AABB& AABB::operator=(const AABB& rhs) {
     return (*this);
 }//operation=
 
-AABB::~AABB(void) {
+AABB::~AABB(void)
+{
 }
 
-bool AABB::hit(const Ray& ray, Real& t) const {
+bool AABB::hit(const Ray& ray, Real& t) const
+{
 
     Real tx_min, ty_min, tz_min;
     Real tx_max, ty_max, tz_max;
     Real t_near, t_far;
-    if( ray.d.x == 1 || ray.d.x == -1){
+    if( ray.d.x == 1 || ray.d.x == -1)
+    {
         if( ray.o.y < y0 || ray.o.y > y1 ) return false;
         if( ray.o.z < z0 || ray.o.z > z1 ) return false;
-        if( ray.d.x > 0 ){
+        if( ray.d.x > 0 )
+        {
             tx_min = (x0-ray.o.x) * ray.d.x;
             tx_max = (x1-ray.o.x) * ray.d.x;
-        }else{
+        }
+        else
+        {
             tx_min = (x1-ray.o.x) * ray.d.x;
             tx_max = (x0-ray.o.x) * ray.d.x;
         }
         if( tx_max < kEpsilon ) return false;
-        if( tx_min <= kEpsilon ){
+        if( tx_min <= kEpsilon )
+        {
             t = tx_max;
-        }else{
+        }
+        else
+        {
             t = tx_min;
         }
         return true;
     }
-    if(  ray.d.y == 1 || ray.d.y == -1){
+    if(  ray.d.y == 1 || ray.d.y == -1)
+    {
         if( ray.o.x < x0 || ray.o.x > x1 ) return false;
         if( ray.o.z < z0 || ray.o.z > z1 ) return false;
-        if( ray.d.y > 0 ){
+        if( ray.d.y > 0 )
+        {
             ty_min = (y0-ray.o.y) * ray.d.y;
             ty_max = (y1-ray.o.y) * ray.d.y;
-        }else{
+        }
+        else
+        {
             ty_min = (y1-ray.o.y) * ray.d.y;
             ty_max = (y0-ray.o.y) * ray.d.y;
         }
         if( ty_max < kEpsilon ) return false;
-        if( ty_min <= kEpsilon ){
+        if( ty_min <= kEpsilon )
+        {
             t = ty_max;
-        }else{
+        }
+        else
+        {
             t = ty_min;
         }
         return true;
     }
-    if(  ray.d.z == 1 || ray.d.z == -1 ){
+    if(  ray.d.z == 1 || ray.d.z == -1 )
+    {
         if( ray.o.y < y0 || ray.o.y > y1 ) return false;
         if( ray.o.x < x0 || ray.o.x > x1 ) return false;
-        if( ray.d.z > 0 ){
+        if( ray.d.z > 0 )
+        {
             tz_min = (z0-ray.o.z) * ray.d.z;
             tz_max = (z1-ray.o.z) * ray.d.z;
-        }else{
+        }
+        else
+        {
             tz_min = (z1-ray.o.z) * ray.d.z;
             tz_max = (z0-ray.o.z) * ray.d.z;
         }
         if( tz_max < kEpsilon ) return false;
-        if( tz_min <= kEpsilon ){
+        if( tz_min <= kEpsilon )
+        {
             t = tz_max;
-        }else{
+        }
+        else
+        {
             t = tz_min;
         }
 
         return true;
     }
     Real a = 1.0 / ray.d.x;
-    if (a >= 0) {
+    if (a >= 0)
+    {
         Real a1 = x0 - ray.o.x;
         Real a2 = x1 - ray.o.x;
         tx_min = (a1) * a;
         tx_max = (a2) * a;
-    } else {
+    }
+    else
+    {
         Real a1 = x0 - ray.o.x;
         Real a2 = x1 - ray.o.x;
         tx_min = (a2) * a;
@@ -122,12 +153,15 @@ bool AABB::hit(const Ray& ray, Real& t) const {
     }
 
     Real b = 1.0 / ray.d.y;
-    if (b >= 0) {
+    if (b >= 0)
+    {
         Real b1 = y0 - ray.o.y;
         Real b2 = y1 - ray.o.y;
         ty_min = (b1) * b;
         ty_max = (b2) * b;
-    } else {
+    }
+    else
+    {
         Real b1 = y0 - ray.o.y;
         Real b2 = y1 - ray.o.y;
         ty_min = (b2) * b;
@@ -135,12 +169,15 @@ bool AABB::hit(const Ray& ray, Real& t) const {
     }
 
     Real c = 1.0 / ray.d.z;
-    if (c >= 0) {
+    if (c >= 0)
+    {
         Real c1 = z0 - ray.o.z;
         Real c2 = z1 - ray.o.z;
         tz_min = (c1) * c;
         tz_max = (c2) * c;
-    } else {
+    }
+    else
+    {
         Real c1 = z0 - ray.o.z;
         Real c2 = z1 - ray.o.z;
         tz_min = (c2) * c;
@@ -150,35 +187,47 @@ bool AABB::hit(const Ray& ray, Real& t) const {
 
     //int face_in, face_out;
     // find the largest entering t value
-    if (tx_min > ty_min) {
+    if (tx_min > ty_min)