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#ifdef HAVE_CONFIG_H
#include "config.h"
#endif
#include "libGenome/gnSourceFactory.h"
#include "libGenome/gnFASSource.h"
#include "libGenome/gnDNXSource.h"
#include <iostream>
int32 main( int32 argc, char* argv[])
{
argc; argv;
gnSourceFactory* sf = gnSourceFactory::GetSourceFactory();
// ########################################################
// ## Path
// ########################################################
cout << " ***** TEST Path methods ***** " << endl;
// add
string path = "c:/tmp";
cout << "AddPath( " << path << " )" << endl;
if( !sf->AddPath( path ) )
cout << " bad Unable to add path: " << path << endl;
else
cout << " good Path List Size: " << sf->GetPathListSize() << endl;
// insert
path = "c:\\temp";
cout << "InsPath( " << path << ", 0 )"<< endl;
if( !sf->InsPath( path, 0 ) )
cout << " bad Unable to Insert path at 0: " << path << endl;
else
cout << " good Path List Size: " << sf->GetPathListSize() << endl;
// has
path = "c:\\tmp";
cout << "HasPath( " << path << " )" << endl;
if( sf->HasPath( path ) )
cout << " good Does have " << path << endl;
else
cout << " bad Does NOT have " << path << endl;
path = "c:\\temp";
cout << "HasPath( " << path << " )" << endl;
if( sf->HasPath( path ) )
cout << " bad Does have " << path << endl;
else
cout << " good Does NOT have " << path << endl;
// get
cout << "GetPath(0) = " << endl;
if( !(sf->GetPath(0).empty()) )
cout << " good" << endl;
else
cout << " bad" << endl;
cout << "GetPath(300)" << endl;
if( sf->GetPath(300).empty() )
cout << " good" << endl;
else
cout << " bad" << endl;
// del
cout << "DelPath( 0 )" << endl;
if( !sf->DelPath( 0 ) )
cout << " bad Unable to delete 0" << endl;
else
cout << " good Path List Size: " << sf->GetPathListSize() << endl;
cout << "DelPath( 0 )" << endl;
if( !sf->DelPath( 0 ) )
cout << " bad Unable to delete 0" << endl;
else
cout << " good Path List Size: " << sf->GetPathListSize() << endl;
cout << "DelPath( 0 )" << endl;
if( !sf->DelPath( 0 ) )
cout << " good Unable to delete 0" << endl;
else
cout << " bad Path List Size: " << sf->GetPathListSize() << endl;
// ########################################################
// ## Source Class
// ########################################################
cout << " ***** TEST Source Class methods ***** " << endl;
string extStr = ".fas";
// Set
cout << "SetSourceClass( " << extStr << " , gnFASSource )" << endl;
gnFASSource fasSource;
if( !sf->SetSourceClass( extStr, fasSource ) )
cout << " bad Unable to add " << extStr << " , gnFASSource" << endl;
else
cout << " good SourceClass List Size: " << sf->GetSourceClassListSize() << endl;
// Has
cout << "HasSourceClass( " << extStr << " )" << endl;
if( sf->HasSourceClass( extStr ) )
cout << " good Does have " << extStr << endl;
else
cout << " bad Does NOT have " << extStr << endl;
extStr = ".seq";
cout << "HasSourceClass( " << extStr << " )" << endl;
if( sf->HasSourceClass( extStr ) )
cout << " bad Does have " << extStr << endl;
else
cout << " good Does NOT have " << extStr << endl;
// default
cout << "SetDefaultSourceClass( new gnFASSource() )" << endl;
if( !sf->SetDefaultSourceClass( fasSource ) )
cout << " bad Cannot set Default Source Class" << endl;
else
cout << " good DEFAULT source class set" << endl;
// Get
extStr = ".fas";
cout << "GetSourceClass( " << extStr << " )" << endl;
if( sf->GetSourceClass( extStr ) != 0 )
cout << " good Does have " << extStr << endl;
else
cout << " bad Does NOT have " << extStr << endl;
extStr = ".seq";
cout << "GetSourceClass( " << extStr << " )" << endl;
if( sf->GetSourceClass( extStr ) != 0 )
cout << " good Does have " << extStr << endl;
else
cout << " bad Does NOT have " << extStr << endl;
// Match
string sourceStr = "c:/tests.fas" ;
cout << "MatchSourceClass( " << sourceStr << " )" << endl;
if( sf->MatchSourceClass( sourceStr ) != 0 )
cout << " good Does match" << endl;
else
cout << " bad Does NOT match" << endl;
sourceStr = "c:/tests.dnx";
cout << "MatchSourceClass( " << sourceStr << " )" << endl;
if( sf->MatchSourceClass( sourceStr ) != sf->GetDefaultSourceClass() )
cout << " bad Does match" << endl;
else
cout << " good Does NOT match" << endl;
// Del
extStr = ".fas";
cout << "DelSourceClass( " << extStr << " )" << endl;
if( !sf->DelSourceClass( extStr ) )
cout << " bad Cannot Delete " << extStr << endl;
else
cout << " good SourceClass List Size: " << sf->GetSourceClassListSize() << endl;
extStr = ".fas";
cout << "DelSourceClass( " << extStr << " )" << endl;
if( !sf->DelSourceClass( extStr ) )
cout << " good Cannot Delete " << extStr << endl;
else
cout << " bad SourceClass List Size: " << sf->GetSourceClassListSize() << endl;
// ########################################################
// ## Source
// ########################################################
extStr = ".fas";
// Set
cout << "SetSourceClass( " << extStr << " , gnFASSource )" << endl;
if( !sf->SetSourceClass( extStr, fasSource ) )
cout << " bad Unable to add " << extStr << " , gnFASSource" << endl;
else
cout << " good SourceClass List Size: " << sf->GetSourceClassListSize() << endl;
extStr = ".dnx";
// Set
gnDNXSource dnxSource;
cout << "SetSourceClass( " << extStr << " , gnDNXSource )" << endl;
if( !sf->SetSourceClass( extStr, dnxSource ) )
cout << " bad Unable to add " << extStr << " , gnDNXSource" << endl;
else
cout << " good SourceClass List Size: " << sf->GetSourceClassListSize() << endl;
cout << " ***** TEST Source Class methods ***** " << endl;
// add
path = "W:\\Developm\\_Data\\_Testing_data\\fas\\";
cout << "AddPath( " << path << " )" << endl;
if( !sf->AddPath( path ) )
cout << " bad Unable to add path: " << path << endl;
else
cout << " good Path List Size: " << sf->GetPathListSize() << endl;
// Add
sourceStr = "W:/Developm/_Data/_Testing_data/fas/test.fas";
cout << "AddSource( " << sourceStr << ", true )" << endl;
if( !sf->AddSource( sourceStr ) )
cout << " Source " << sourceStr << " NOT added" << endl;
else
cout << " Source List Size: " << sf->GetSourceListSize() << endl;
sourceStr = "test.abi";
cout << "AddSource( " << sourceStr << ", true )" << endl;
if( !sf->AddSource( sourceStr ) )
cout << " Source " << sourceStr << " NOT added" << endl;
else
cout << " Source List Size: " << sf->GetSourceListSize() << endl;
char bubba[50];
cout << "Opening W:/Developm/_Data/_Testing_data/fas/V13anooz.fas...\n";
gpSourceSeq *asplundh = new gpSourceSeq("W:/Developm/_Data/_Testing_data/fas/test.fas");
cout << "Reading some bases.\n";
string mystring = asplundh->ToString(130, 2480);
cout << mystring << "\n";
cout << "If that worked then congratulations! You're one step closer than you realized.\n";
cin >> bubba;
delete asplundh;
// test out DNX
cout << "Opening W:/Developm/_Data/_Testing_data/fas/deenex.dnx...\n";
asplundh = new gpSourceSeq("W:/Developm/_Data/_Testing_data/fas/deenex.dnx");
cout << "Reading some bases.\n";
mystring = asplundh->ToString();
cout << mystring << "\n";
cout << "If that worked then congratulations! You're one step closer than you realized.\n";
cin >> bubba;
}
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