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most of our test submission rule files use bz2 regexes, so lets make those files
author
Diane Trout
<diane@ghic.org>
Thu, 23 Oct 2014 23:14:44 +0000
(16:14 -0700)
committer
Diane Trout
<diane@ghic.org>
Thu, 23 Oct 2014 23:14:44 +0000
(16:14 -0700)
htsworkflow/submission/test/submission_test_common.py
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diff --git
a/htsworkflow/submission/test/submission_test_common.py
b/htsworkflow/submission/test/submission_test_common.py
index 3f435761b8d0ba7a8b0aae3a33da87219cdee32d..e1e5eb0a80866faadcbb022e8b9ab1222776bc83 100644
(file)
--- a/
htsworkflow/submission/test/submission_test_common.py
+++ b/
htsworkflow/submission/test/submission_test_common.py
@@
-11,21
+11,21
@@
S2_NAME = '2000-sample'
SCOMBINED_NAME = 'directory'
S1_FILES = [
SCOMBINED_NAME = 'directory'
S1_FILES = [
- os.path.join(S1_NAME, 'file1_l8_r1.fastq'),
- os.path.join(S1_NAME, 'file1_l8_r2.fastq'),
+ os.path.join(S1_NAME, 'file1_l8_r1.fastq
.bz2
'),
+ os.path.join(S1_NAME, 'file1_l8_r2.fastq
.bz2
'),
]
S2_FILES = [
os.path.join(S2_NAME, 'file1.bam'),
]
S2_FILES = [
os.path.join(S2_NAME, 'file1.bam'),
- os.path.join(S2_NAME, 'file1_l5.fastq'),
+ os.path.join(S2_NAME, 'file1_l5.fastq
.bz2
'),
]
SCOMBINED_FILES = [
os.path.join(SCOMBINED_NAME, 's1_file1.bam'),
]
SCOMBINED_FILES = [
os.path.join(SCOMBINED_NAME, 's1_file1.bam'),
- os.path.join(SCOMBINED_NAME, 's1_l5.fastq'),
+ os.path.join(SCOMBINED_NAME, 's1_l5.fastq
.bz2
'),
os.path.join(SCOMBINED_NAME, 's2_file1.bam'),
os.path.join(SCOMBINED_NAME, 's2_file1.bam'),
- os.path.join(SCOMBINED_NAME, 's2_l4.read1.fastq'),
- os.path.join(SCOMBINED_NAME, 's2_l4.read2.fastq'),
+ os.path.join(SCOMBINED_NAME, 's2_l4.read1.fastq
.bz2
'),
+ os.path.join(SCOMBINED_NAME, 's2_l4.read2.fastq
.bz2
'),
]
TURTLE_PREFIX = htsworkflow.util.rdfhelp.get_turtle_header()
]
TURTLE_PREFIX = htsworkflow.util.rdfhelp.get_turtle_header()