[med-svn] [subread] 10/14: Enable more tests

[Alex Mestiashvili]

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malex-guest pushed a commit to branch master
in repository subread.

commit 0aadd3a9495b5821d501bbcbc8f768085b350e7c
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Sat Apr 23 10:04:43 2016 +0200

    Enable more tests
---
 debian/tests/subread-tests | 20 ++++++++++++--------
 1 file changed, 12 insertions(+), 8 deletions(-)

diff --git a/debian/tests/subread-tests b/debian/tests/subread-tests
index 982bd45..e8e9455 100755
--- a/debian/tests/subread-tests
+++ b/debian/tests/subread-tests
@@ -23,15 +23,18 @@ else
 fi
 
 cd $WORKDIR/featureCounts
-featureCounts -a data/test-minimum.GTF -o test-minimum.FC data/test-minimum.sam
+#featureCounts -a data/test-minimum.GTF -o test-minimum.FC data/test-minimum.sam
+#bash data/compare.sh data/corner-INDEL.sam data/corner-INDEL.ora data/test-minimum.GTF "-p" "indel reads"
+bash featureCounts-test.sh
 
 cd $WORKDIR/subjunc
-mkdir tmp
-subread-buildindex -o tmp/small1 ../chr901.fa
-subjunc --SAMoutput -i tmp/small1 -o junctions.sam -r data/junction-reads-A.fq \
--R data/junction-reads-B.fq
-subjunc -i tmp/small1 -o junctionsNfusions.bam \
--r data/junction-reads-A.fq -R data/junction-reads-B.fq --allJunctions
+#mkdir tmp
+bash subjunc-test.sh
+#subread-buildindex -o tmp/small1 ../chr901.fa
+#subjunc --SAMoutput -i tmp/small1 -o junctions.sam -r data/junction-reads-A.fq \
+#-R data/junction-reads-B.fq
+#subjunc -i tmp/small1 -o junctionsNfusions.bam \
+#-r data/junction-reads-A.fq -R data/junction-reads-B.fq --allJunctions
 
 cd $WORKDIR/subread-align
 mkdir tmp
@@ -51,7 +54,8 @@ subread-align --SAMoutput -t0 -i tmp/small1 --gzFASTQinput -r data/test-err-mut-
     --rg-id MyTestGroup --rg SM:sample1 --rg TP:1 --rg XX:YY
 
 cd $WORKDIR/exactSNP
-exactSNP -g ../chr901.fa -o test-out.VCF -i data/test-in.BAM -b
+#exactSNP -g ../chr901.fa -o test-out.VCF -i data/test-in.BAM -b
+bash exactSNP-test.sh
 
 
 if [ $# -eq 0 ]

-- 
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