def test_doesitwork(self):
''' Does it actually concat files '''
content = 'ContentLine1\nContentLine2\n'
filelist = self.writesomefiles(content, 3)
seqio.concat_files(filelist, 'output')
with open('output') as fh:
eq_(content * 3, fh.read())
def test_doesitwork( self ):
''' Does it actually concat files '''
content = 'ContentLine1\nContentLine2\n'
filelist = self.writesomefiles( content, 3 )
seqio.concat_files( filelist, 'output' )
with open( 'output' ) as fh:
eq_( content * 3, fh.read() )
def test_inputsameoutput( self ):
'''
Should check that filenames are not the same
If they are, it could result in an infinite loop that
will consume all available free space
'''
filelist = self.writesomefiles( 'Text\n'*1000, 1 )
seqio.concat_files( filelist, filelist[0] )
def test_emptyoutputfile_deleteafter( self ):
''' If output file was empty and raised error, it should clean up after itself '''
filelist = self.writesomefiles( '' )
try:
seqio.concat_files( filelist, 'output' )
assert False
except seqio.EmptyFileError:
assert not os.path.exists( 'output' ), 'output file still exists'
def test_inputsameoutput(self):
'''
Should check that filenames are not the same
If they are, it could result in an infinite loop that
will consume all available free space
'''
filelist = self.writesomefiles('Text\n' * 1000, 1)
seqio.concat_files(filelist, filelist[0])
def test_emptyoutputfile_deleteafter(self):
''' If output file was empty and raised error, it should clean up after itself '''
filelist = self.writesomefiles('')
try:
seqio.concat_files(filelist, 'output')
assert False
except seqio.EmptyFileError:
assert not os.path.exists('output'), 'output file still exists'
def test_emptyoutputfile( self ):
''' filelist containes all empty files '''
filelist = self.writesomefiles( '' )
seqio.concat_files( filelist, 'output' )
def test_invalidoutputfile( self ):
''' outputfile is not a string '''
filelist = self.writesomefiles( 'test' )
seqio.concat_files( filelist, ['output'] )
def test_doesnotexistsome( self ):
''' file in filelist does not exist but others do '''
filelist = self.writesomefiles('test') + ['idontexist']
seqio.concat_files( filelist, 'output' )
def test_invalidfilelist( self ):
''' fillist is not a list '''
seqio.concat_files( self.sff_input, 'outfile.cat' )
def test_emptyfilelist( self ):
''' filelist is [] '''
seqio.concat_files( [], 'outfile.cat' )
def test_emptyoutputfile(self):
''' filelist containes all empty files '''
filelist = self.writesomefiles('')
seqio.concat_files(filelist, 'output')
def test_invalidoutputfile(self):
''' outputfile is not a string '''
filelist = self.writesomefiles('test')
seqio.concat_files(filelist, ['output'])
def test_doesnotexistsome(self):
''' file in filelist does not exist but others do '''
filelist = self.writesomefiles('test') + ['idontexist']
seqio.concat_files(filelist, 'output')
def test_invalidfilelist(self):
''' fillist is not a list '''
seqio.concat_files(self.sff_input, 'outfile.cat')
def test_emptyfilelist(self):
''' filelist is [] '''
seqio.concat_files([], 'outfile.cat')
