SamFileTest.cpp
/*
* Copyright (C) 2010 Regents of the University of Michigan
*
* This program 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 3 of the License, or
* (at your option) any later version.
*
* This program 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 this program. If not, see <http://www.gnu.org/licenses/>.
*/
#include "SamFileTest.h"
#include "SamFile.h"
void testSamFile()
{
SamFileHeader header;
// Test open for read via the constructor with return.
SamFile samInConstructorReadDefault("testFiles/testSam.sam",
SamFile::READ,
ErrorHandler::RETURN);
assert(samInConstructorReadDefault.WriteHeader(header) == false);
assert(samInConstructorReadDefault.ReadHeader(header) == true);
// Test open for write via the constructor.
SamFile samInConstructorWrite("results/newWrite.sam", SamFile::WRITE,
ErrorHandler::RETURN);
assert(samInConstructorWrite.ReadHeader(header) == false);
assert(samInConstructorWrite.WriteHeader(header) == true);
// Test open for read via the constructor
SamFile samInConstructorRead("testFiles/testSam.sam", SamFile::READ);
bool caughtException = false;
try
{
assert(samInConstructorRead.WriteHeader(header) == false);
}
catch (std::exception& e)
{
caughtException = true;
}
assert(caughtException);
assert(samInConstructorRead.ReadHeader(header) == true);
// Test open for write via child class.
SamFileWriter samWriteConstructor("results/newWrite1.sam");
caughtException = false;
try
{
assert(samWriteConstructor.ReadHeader(header) == false);
}
catch (std::exception& e)
{
caughtException = true;
}
assert(caughtException);
assert(samWriteConstructor.WriteHeader(header) == true);
// Test open for read via child class.
SamFileReader samReadConstructor("testFiles/testSam.sam");
caughtException = false;
try
{
assert(samReadConstructor.WriteHeader(header) == false);
}
catch (std::exception& e)
{
caughtException = true;
}
assert(caughtException);
assert(samReadConstructor.ReadHeader(header) == true);
}
ErrorHandler::RETURN
@ RETURN
just return failure on the error
Definition: ErrorHandler.h:31
SamFileHeader
This class allows a user to get/set the fields in a SAM/BAM Header.
Definition: SamFileHeader.h:35
SamFileReader
Child class of SamFile for reading files.
Definition: SamFile.h:461
SamFileWriter
Child class of SamFile for writing files.
Definition: SamFile.h:491
SamFile
Allows the user to easily read/write a SAM/BAM file.
Definition: SamFile.h:36
SamFile::READ
@ READ
open for reading.
Definition: SamFile.h:40
SamFile::WRITE
@ WRITE
open for writing.
Definition: SamFile.h:41