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/*LICENSE_START*/
/*
* Copyright 1995-2002 Washington University School of Medicine
*
* http://brainmap.wustl.edu
*
* This file is part of CARET.
*
* CARET 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 2 of the License, or
* (at your option) any later version.
*
* CARET 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 CARET; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*
*/
/*LICENSE_END*/
#include <iostream>
#include "CommandStudyMetaDataFileDuplicates.h"
#include "FileFilters.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
#include "StudyMetaDataFile.h"
/**
* constructor.
*/
CommandStudyMetaDataFileDuplicates::CommandStudyMetaDataFileDuplicates()
: CommandBase("-study-metadata-duplicates",
"STUDY METADATA DUPLICATES")
{
}
/**
* destructor.
*/
CommandStudyMetaDataFileDuplicates::~CommandStudyMetaDataFileDuplicates()
{
}
/**
* get the script builder parameters.
*/
void
CommandStudyMetaDataFileDuplicates::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
paramsOut.clear();
paramsOut.addVariableListOfParameters("Study Metadata File Name(s)");
}
/**
* get full help information.
*/
QString
CommandStudyMetaDataFileDuplicates::getHelpInformation() const
{
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<study-metadata-file-names>\n"
+ indent9 + "\n"
+ indent9 + "Find duplicate studies (studies with the same PubMedID) in\n"
+ indent9 + "the provided Study Metadata Files.\n"
+ indent9 + "\n");
return helpInfo;
}
/**
* execute the command.
*/
void
CommandStudyMetaDataFileDuplicates::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
//
// Get the inputs
//
std::vector<QString> fileNames;
while (parameters->getParametersAvailable()) {
fileNames.push_back(parameters->getNextParameterAsString("Study Metadata File Name"));
}
//
// Find the duplicates
//
std::multimap<QString,QString> duplicatesStudies;
StudyMetaDataFile::findDuplicateStudies(fileNames, duplicatesStudies);
//
// Process results
//
if (duplicatesStudies.empty()) {
std::cout << "No duplicate studies found." << std::endl;
}
else {
std::cout << "Duplicate PubMed IDs and File Names" << std::endl;
for (std::multimap<QString,QString>::iterator iter = duplicatesStudies.begin();
iter != duplicatesStudies.end();
iter++) {
std::cout << iter->first.toAscii().constData()
<< " "
<< iter->second.toAscii().constData()
<< std::endl;
}
}
}
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