From: Diane Trout <diane@ghic.org>
Date: Thu, 23 Oct 2014 23:14:44 +0000 (-0700)
Subject: most of our test submission rule files use bz2 regexes, so lets make those files
X-Git-Url: http://woldlab.caltech.edu/gitweb/?p=htsworkflow.git;a=commitdiff_plain;h=a70eb4b6e40bf3764173447a7f12dc5475fa9ca9

most of our test submission rule files use bz2 regexes, so lets make those files
---

diff --git a/htsworkflow/submission/test/submission_test_common.py b/htsworkflow/submission/test/submission_test_common.py
index 3f43576..e1e5eb0 100644
--- 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 = [
-    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'),
-    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'),
-    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_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()