[med-svn] [Git][med-team/hisat2][master] Add the suite tests

[Saira Hussain]

Saira Hussain pushed to branch master at Debian Med / hisat2


Commits:
2a865446 by Saira Hussain at 2019-08-02T14:28:09Z
Add the suite tests

- - - - -


1 changed file:

- debian/tests/run-unit-tests


Changes:

=====================================
debian/tests/run-unit-tests
=====================================
@@ -19,4 +19,13 @@ cd "${AUTOPKGTEST_TMP}"
 set -x
 
 # Run the reproducible suite
+hisat2-build reference/22_20-21M.fa --snp reference/22_20-21M.snp 22_20-21M_snp
 
+# Aligning example reads
+hisat2 -f -x index/22_20-21M_snp -U reads/reads_1.fa -S eg1.sam
+
+# Paired-end example
+hisat2 -f -x index/22_20-21M_snp -1 reads/reads_1.fa -2 reads/reads_2.fa -S eg2.sam
+
+hisat -f -x index/22_20-21M_snp -1 reads/reads_1.fa -2 reads/reads_2.fa -S eg2.sam
+samtools mpileup -uf reference/22_20-21M.fa eg2.sorted.bam | bcftools view -bvcg - > eg2.raw.bcf



View it on GitLab: https://salsa.debian.org/med-team/hisat2/commit/2a8654465e30297388a0d8be92895d20e89b1f96

-- 
View it on GitLab: https://salsa.debian.org/med-team/hisat2/commit/2a8654465e30297388a0d8be92895d20e89b1f96
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20190802/eed4e9ea/attachment.html>