[med-svn] [Git][med-team/bitseq][master] add test for parseAlignment command

[harish chavre (@Harish1)]

harish chavre pushed to branch master at Debian Med / bitseq


Commits:
a6976034 by Harish chavre at 2025-04-22T07:36:19+00:00
add test for parseAlignment command

- - - - -


2 changed files:

- debian/tests/control
- debian/tests/run-unit-test


Changes:

=====================================
debian/tests/control
=====================================
@@ -1,3 +1,3 @@
 Tests: run-unit-test
-Depends: @, bowtie
+Depends: @, bowtie, bitseq
 Restrictions: allow-stderr


=====================================
debian/tests/run-unit-test
=====================================
@@ -16,3 +16,16 @@ bowtie-build -f Ref.fasta index
 bowtie -q -v 3 --all -m 100 --sam index Reads.fastq  -S out.sam
 
 [ -s out.sam ] && echo "Test passed!" || { echo "Output missing or empty"; exit 1; }
+
+parseAlignment out.sam \
+  -o result.prob \
+  --trSeqFile Ref.fasta \
+  --trInfoFile Ref.tr \
+  --uniform --verbose
+  
+if [ -s result.prob ] && [ -s Ref.tr ]; then
+  echo "parseAlignment test passed"
+else
+  echo "parseAlignment test failed"
+  exit 1
+fi



View it on GitLab: https://salsa.debian.org/med-team/bitseq/-/commit/a6976034eb47ba66df9dbea0870a4b9337f46aac

-- 
View it on GitLab: https://salsa.debian.org/med-team/bitseq/-/commit/a6976034eb47ba66df9dbea0870a4b9337f46aac
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