Mercurial > repos > vimalkumarvelayudhan > riboplot
diff tests/test_riboplot.py @ 14:628f82e72d72
Version as released on PyPI 0.1.0
| author | Vimalkumar Velayudhan <vimal@biotechcoder.com> |
|---|---|
| date | Wed, 26 Aug 2015 16:37:10 +0100 |
| parents | 61c47a1d6a7a |
| children |
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--- a/tests/test_riboplot.py Fri Aug 21 12:37:54 2015 +0100 +++ b/tests/test_riboplot.py Wed Aug 26 16:37:10 2015 +0100 @@ -10,11 +10,11 @@ CONFIG = riboplot.CONFIG = riboplot.config.TestingConfig() logging.disable(logging.CRITICAL) -RIBO_FILE = os.path.join(CONFIG.DATA_DIR, '5hRPFsorted.bam') -RNA_FILE = os.path.join(CONFIG.DATA_DIR, '5hmRNAsorted.bam') +RIBO_FILE = os.path.join(CONFIG.TEST_DATA_DIR, '5hRPFsorted.bam') +RNA_FILE = os.path.join(CONFIG.TEST_DATA_DIR, '5hmRNAsorted.bam') TRANSCRIPT_NAME = 'gi|148357119|ref|NM_001098396.1|' -TRANSCRIPTOME_FASTA = os.path.join(CONFIG.DATA_DIR, 'zebrafish.fna') -TRANSCRIPTOME_FASTA_MINUS1 = os.path.join(CONFIG.DATA_DIR, 'zebrafish_minus1.fna') +TRANSCRIPTOME_FASTA = os.path.join(CONFIG.TEST_DATA_DIR, 'zebrafish.fna') +UNRELATED_BAM = os.path.join(CONFIG.TEST_DATA_DIR, 'unrelated.bam') class CheckArgumentsTestCase(unittest.TestCase): @@ -97,7 +97,7 @@ def test_missing_transcript_in_bam(self): """If a transcript is missing in BAM, an error is raised.""" # testing with an unrelated BAM file - args = self.parser.parse_args(['-b', '/home/vimal/tmp/empty_tp/RiboSeq.bam', '-f', TRANSCRIPTOME_FASTA, + args = self.parser.parse_args(['-b', UNRELATED_BAM, '-f', TRANSCRIPTOME_FASTA, '-t', TRANSCRIPT_NAME]) self.assertRaises(ribocore.ArgumentError, ribocore.check_required_arguments, args.ribo_file, args.transcriptome_fasta, args.transcript_name)