dimensions of rectangular images were confused in gtSetup when loading from xml file.

Repair creation of cryst structure from of .csv or .dat files

Signed-off-by: Wolfgang Ludwig <wolfgang.ludwig@esrf.fr>

1_preprocessing/gtSetup_Utils/gtLoadAcquisitionXML.m

@@ -16,8 +16,8 @@ function acq = gtLoadAcquisitionXML(xmlfname, interactive)
 
         acq.name          = tmpxml.scanName; % shouldn't change!
         acq.date          = tmpxml.date;
-        acq.xdet          = tmpxml.projectionSize.DIM_2; % pixels
-        acq.ydet          = tmpxml.projectionSize.DIM_1; % pixels
+        acq.xdet          = tmpxml.projectionSize.DIM_1; % pixels
+        acq.ydet          = tmpxml.projectionSize.DIM_2; % pixels
         acq.nproj         = tmpxml.tomo_N/2;
         acq.refon         = tmpxml.ref_On;
         acq.nref          = tmpxml.ref_N;
@@ -33,8 +33,8 @@ function acq = gtLoadAcquisitionXML(xmlfname, interactive)
             warning('Could not find scanRange info in xml file, assuming it is 360degree...');
             acq.type      = '360degree';
         end
-        acq.detroi_u_off  = tmpxml.projectionSize.ROW_BEG;
-        acq.detroi_v_off  = tmpxml.projectionSize.COL_BEG;
+        acq.detroi_u_off  = tmpxml.projectionSize.COL_BEG;
+        acq.detroi_v_off  = tmpxml.projectionSize.ROW_BEG;
     else %if .xml not found
         if interactive
             disp('No .xml file found!');

zUtil_Cryst/gtCrystSignedHKLs.m

@@ -29,8 +29,11 @@ function [allshkls, allhklinds, mult]  = gtCrystSignedHKLs(hkl, symm)
 if ~isa(hkl,'double')
     hkl = double(hkl);
 end
+
 % reflections in rows
-hkl = hkl';
+if ~isrow(hkl)
+    hkl = hkl';
+end
 
 if ~exist('symm','var') || isempty(symm)
     load parameters

zUtil_Cryst/gtLoadReflectionsFromFile.m

@@ -92,7 +92,7 @@ if isreflections
         end
     end
 
-    reflections.hkl = [reflections.h reflections.k reflections.l];
+    reflections.hkl = double([reflections.h reflections.k reflections.l]);
     reflections = rmfield(reflections, {'h','k','l'});
 
     xop = reflections;

zUtil_Cryst/gtSymmetricReflections.m

@@ -61,7 +61,7 @@ mult   = [];
 
 % 4 columns needed for hexagonal
 for ii = 1:size(hkltypes_used,1)
-    allhkls_i = gtCrystSignedHKLs(hkltypes_used(ii,:),cryst.spacegroup);
+    allhkls_i = gtCrystSignedHKLs(hkltypes_used(ii,:));
     nhkls     = size(allhkls_i,1);
     hklsp     = [hklsp; allhkls_i];
     hkl       = [hkl; repmat(hkltypes_used(ii,:),nhkls,1)];