This is an automated email from the git hooks/post-receive script. bob.dybian-guest pushed a commit to branch master in repository beagle.
commit 4975d546e8388cf21dc2b5f04111c2212307fd67 Author: Dylan Aïssi <[email protected]> Date: Sat Jun 25 00:31:28 2016 +0200 Rework autopkgtest to simply update --- debian/tests/run-sample-analysis | 14 ++++++++------ 1 file changed, 8 insertions(+), 6 deletions(-) diff --git a/debian/tests/run-sample-analysis b/debian/tests/run-sample-analysis index 73c4e78..dadde77 100755 --- a/debian/tests/run-sample-analysis +++ b/debian/tests/run-sample-analysis @@ -2,7 +2,7 @@ # http://dep.debian.net/deps/dep8/ # Autopkgtest: Test if beagle run analysis correctly # Author: Dylan Aïssi <[email protected]> -# Last-Update: 2016-03-20 +# Last-Update: 2016-06-17 pkg=beagle if [ "$ADTTMP" = "" ] ; then @@ -13,16 +13,18 @@ cp -a /usr/share/doc/${pkg}/examples/* $ADTTMP BEAGLE_TEST='java -jar /usr/share/beagle/beagle.jar' +# Generate necessary files +zcat test.vcf.gz | cut -f1-190 | tr '/' '|' | gzip > ref.vcf.gz +zcat test.vcf.gz | cut -f1-9,191-200 | gzip > target.vcf.gz + # Beagle with gt argument -$BEAGLE_TEST gt=test.22Feb16.8ef.vcf.gz out=out.gt +$BEAGLE_TEST gt=test.vcf.gz out=out.gt # Beagle with gl argument -$BEAGLE_TEST gl=test.22Feb16.8ef.vcf.gz out=out.gl +$BEAGLE_TEST gl=test.vcf.gz out=out.gl # Beagle with ref argument -zcat test.22Feb16.8ef.vcf.gz | cut -f1-190 | tr '/' '|' | gzip > ref.22Feb16.8ef.vcf.gz -zcat test.22Feb16.8ef.vcf.gz | cut -f1-9,191-200 | gzip > target.22Feb16.8ef.vcf.gz -$BEAGLE_TEST ref=ref.22Feb16.8ef.vcf.gz gt=target.22Feb16.8ef.vcf.gz out=out.ref +$BEAGLE_TEST ref=ref.vcf.gz gt=target.vcf.gz out=out.ref rm -f $ADTTMP/* -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/beagle.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
