/*=========================================================================
-
+
Program: gdcm
Module: $RCSfile: exXCoherentFileSet.cxx,v $
Language: C++
- Date: $Date: 2007/09/28 14:08:08 $
- Version: $Revision: 1.11 $
+ Date: $Date: 2009/05/28 15:44:34 $
+ Version: $Revision: 1.16 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
http://www.creatis.insa-lyon.fr/Public/Gdcm/License.html for details.
-
+
This software is distributed WITHOUT ANY WARRANTY; without even
the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
PURPOSE. See the above copyright notices for more information.
#include <iostream>
#include "gdcmDirList.h"
#include "gdcmUtil.h"
-
#include "gdcmArgMgr.h"
-
-void removeSpecChar(std::string &s);
-
-void removeSpecChar(std::string &s) {
- unsigned int s_size = s.size();
- for(unsigned int i=0; i<s_size; i++)
- {
- if (
- /*while(i<s_size
- && */!( s[i] == '.' || s[i] == '%' || s[i] == '_'
- || (s[i] >= '+' && s[i] <= '-')
- || (s[i] >= 'a' && s[i] <= 'z')
- || (s[i] >= '0' && s[i] <= '9')
- || (s[i] >= 'A' && s[i] <= 'Z')))
- {
- s.replace(i, 1, "_"); // ImagePositionPatient related stuff will be more human readable
- }
- }
-
- // deal with Dicom strings trailing '\0'
- if(s[s_size-1] == '_')
- s.erase(s_size-1, 1);
-
-}
-
int main(int argc, char *argv[])
-{
-
+{
START_USAGE(usage)
"\n exXCoherentFileSet :\n ",
"Shows the various 'XCoherent' Filesets within a directory ",
- "Optionaly copis the images in a Directories tree ",
+ "Optionaly copies the images in a Directories tree ",
"usage: exXCoherentFileSet {dirin=inputDirectoryName} ",
" dirout=outputDirectoryName ",
" { tag=group-elem | pos | ori } [sort] [write] ",
" noshadowseq: user doesn't want to load Private Sequences ",
" noshadow : user doesn't want to load Private groups (odd number) ",
" noseq : user doesn't want to load Sequences ",
- " verbose : user wants to run the program in 'verbose mode' ",
+ " verbose : user wants to run the program in 'verbose mode' ",
" debug : developper wants to run the program in 'debug mode' ",
FINISH_USAGE
// ----- Initialize Arguments Manager ------
-
+
GDCM_NAME_SPACE::ArgMgr *am = new GDCM_NAME_SPACE::ArgMgr(argc, argv);
if (am->ArgMgrDefined("usage") || argc == 1)
if (am->ArgMgrDefined("debug"))
GDCM_NAME_SPACE::Debug::DebugOn();
-
+
int loadMode = GDCM_NAME_SPACE::LD_ALL;
if ( am->ArgMgrDefined("noshadowseq") )
loadMode |= GDCM_NAME_SPACE::LD_NOSHADOWSEQ;
- else
+ else
{
if ( am->ArgMgrDefined("noshadow") )
loadMode |= GDCM_NAME_SPACE::LD_NOSHADOW;
std::cout <<std::endl
<< "'dirin=' must be present;"
<< std::endl;
- am->ArgMgrUsage(usage); // Display 'usage'
+ am->ArgMgrUsage(usage); // Display 'usage'
delete am;
return 0;
}
- const char *dirNameout;
+ const char *dirNameout;
dirNameout = am->ArgMgrGetString("dirout",".");
- bool pos = ( 0 != am->ArgMgrDefined("pos") );
- bool ori = ( 0 != am->ArgMgrDefined("ori") );
+ bool pos = ( 0 != am->ArgMgrDefined("pos") );
+ bool ori = ( 0 != am->ArgMgrDefined("ori") );
bool sort = ( 0 != am->ArgMgrDefined("sort") );
bool write = ( 0 != am->ArgMgrDefined("write") );
bool verbose = ( 0 != am->ArgMgrDefined("verbose") );
{
std::cout << " POS, ORI and TAG are mutually exclusive" << std::endl;
delete am;
- return 0;
+ return 0;
}
if( (!tag && !pos && !ori))
{
std::cout << " One of POS, ORI and TAG is mandatory!" << std::endl;
delete am;
- return 0;
- }
+ return 0;
+ }
int nb;
uint16_t *groupelem;
if (tag)
delete am;
return 0;
}
- }
-
+ }
+
/* if unused Param we give up */
if ( am->ArgMgrPrintUnusedLabels() )
{
am->ArgMgrUsage(usage);
delete am;
return 0;
- }
-
+ }
+
delete am; // ------ we don't need Arguments Manager any longer ------
GDCM_NAME_SPACE::SerieHelper *s;
s = GDCM_NAME_SPACE::SerieHelper::New();
s->SetLoadMode(GDCM_NAME_SPACE::LD_ALL); // Load everything for each File
- //GDCM_NAME_SPACE::TagKey t(0x0020,0x0013);
+ //GDCM_NAME_SPACE::TagKey t(0x0020,0x0013);
//s->AddRestriction(t, "340", GDCM_NAME_SPACE::GDCM_LESS); // Keep only files where
// restriction is true
-
+
s->SetDirectory(dirName, true); // true : recursive exploration
// The Dicom file set is splitted into several 'Single SerieUID Files Sets'
// (a 'Single SerieUID Files Set' per SerieUID)
// In some cases, it's not enough, since, in some cases
// we can find scout view with the same SerieUID
-
+
/*
std::cout << " ---------------------------------------- "
<< "'Single UID' Filesets found in :["
*/
std::string systemCommand;
- std::string filenameout;
- if (write) {
+ std::string filenameout;
+ if (write) {
if (verbose)
std::cout << "Check for output directory :[" << dirNameout << "]."
<<std::endl;
else
{
if (verbose)
- std::cout << "Output Directory [" << dirNameout
+ std::cout << "Output Directory [" << dirNameout
<< "] already exists; Used as is."
<< std::endl;
- }
+ }
}
-
// --> End of checking supposed-to-be-directory names
-
+
int nbFiles;
std::string fileName;
-
+
// For all the Single SerieUID Files Sets of the GDCM_NAME_SPACE::Serie
GDCM_NAME_SPACE::FileList *l = s->GetFirstSingleSerieUIDFileSet();
-
GDCM_NAME_SPACE::XCoherentFileSetmap xcm;
-
+
std::string serieUID;
std::string currentSerieWriteDir = "";
- std::string xCoherentWriteDir = "";
- std::string xCoherentName = "";
+ std::string xCoherentWriteDir = "";
+ std::string xCoherentName = "";
std::string serieDirectory;
std::string lastFilename;
-
- int controlCount = 0;
+ std::string rep("_");
+ int controlCount = 0;
+
while (l) // for each 'Single SerieUID FileSet'
{
nbFiles = l->size() ;
// Why not ? Just an example, for testing!
{
serieUID = s->GetCurrentSerieUIDFileSetUID();
- removeSpecChar(serieUID);
-
+ GDCM_NAME_SPACE::Util::ReplaceSpecChar(serieUID, rep);
+
// --- for write
if (write)
{
currentSerieWriteDir = currentSerieWriteDir + dirNameout;
- unsigned int l = strlen(dirNameout)-1;
- if ( dirNameout[l] != '/' && dirNameout[l] != '\\')
+ unsigned int lg = strlen(dirNameout)-1;
+ if ( dirNameout[lg] != '/' && dirNameout[lg] != '\\')
currentSerieWriteDir = currentSerieWriteDir + GDCM_NAME_SPACE::GDCM_FILESEPARATOR;
-
+
currentSerieWriteDir = currentSerieWriteDir + serieUID;
if (verbose)
std::cout << "[" << currentSerieWriteDir<< "]" << std::endl;
// if ( ! GDCM_NAME_SPACE::DirList::IsDirectory(currentSerieWriteDir) )
- {
+ {
systemCommand = "mkdir " + currentSerieWriteDir;
system( systemCommand.c_str());
if (verbose)
std::cout << "1 " <<systemCommand << std::endl;
- }
+ }
}
// --- end for write
-
+
std::cout << "Split the 'Single SerieUID' FileSet :["
<< serieUID
<< "] " << nbFiles << " long" << std::endl;
std::cout << "-----------------------------------" << std::endl;
-
+
if (ori)
xcm = s->SplitOnOrientation(l);
else if (pos)
xcm = s->SplitOnPosition(l);
- else if (groupelem != 0)
+ else if (groupelem != 0) {
xcm = s->SplitOnTagValue(l, groupelem[0],groupelem[1] );
+ }
for (GDCM_NAME_SPACE::XCoherentFileSetmap::iterator i = xcm.begin();
i != xcm.end();
++i)
{
- xCoherentName = (*i).first;
+ xCoherentName = (*i).first;
if (verbose)
std::cout << "xCoherentName = " << xCoherentName << std::endl;
- removeSpecChar(xCoherentName);
+ GDCM_NAME_SPACE::Util::ReplaceSpecChar(serieUID, rep);
// --- for write
if (write)
- {
+ {
xCoherentWriteDir = currentSerieWriteDir + GDCM_NAME_SPACE::GDCM_FILESEPARATOR+ xCoherentName;
// if ( ! GDCM_NAME_SPACE::DirList::IsDirectory(xCoherentWriteDir) )
- {
+ {
systemCommand = "mkdir " + xCoherentWriteDir;
system( systemCommand.c_str());
if (verbose)
- std::cout << "2 " << systemCommand << std::endl;
+ std::cout << systemCommand << std::endl;
}
}
// --- end for write
-
+
if (ori)
std::cout << "Orientation : ";
else if (pos)
std::cout << "Tag (" << std::hex << groupelem[0]
<< "|" << groupelem[1] << ") value : ";
std::cout << "[" << (*i).first << "]" << std::endl;
-
+
if (verbose)
std::cout << "xCoherentName [" << xCoherentName << "]" << std::endl;
-
+
// Within a 'just to see' program,
// OrderFileList() causes trouble, since some files
// (eg:MIP views) don't have 'Position', now considered as mandatory
// Commented out for the moment.
-
+
if (sort) {
s->OrderFileList((*i).second); // sort the XCoherent Fileset
std::cout << "ZSpacing for the file set " << s->GetZSpacing()
<< std::endl;
- }
+ }
for (GDCM_NAME_SPACE::FileList::iterator it = ((*i).second)->begin();
it != ((*i).second)->end();
controlCount ++;
fileName = (*it)->GetFileName();
std::cout << " " << fileName << std::endl;
-
+
// --- for write
if (write)
{
lastFilename = GDCM_NAME_SPACE::Util::GetName( fileName );
- filenameout = xCoherentWriteDir + GDCM_NAME_SPACE::GDCM_FILESEPARATOR+ lastFilename;
+ filenameout = xCoherentWriteDir + GDCM_NAME_SPACE::GDCM_FILESEPARATOR+ lastFilename;
systemCommand = "cp " + fileName + " " + filenameout;
system( systemCommand.c_str());
if (verbose)
std::cout << "3 " << systemCommand << std::endl;
- }
- // --- end for write
- }
- std::cout << std::endl;
+ }
+ // --- end for write
+ }
+ std::cout << std::endl;
}
}
l = s->GetNextSingleSerieUIDFileSet();
if ( controlCount == 0 )
std::cout << "No suitable file was found!" << std::endl;
-
+
s->Delete();
return 0;
git://git.creatis.insa-lyon.fr / gdcm.git / blobdiff