test update with updated rlen calculation in htslib #2402
+13
−13
Merged
Cirrus CI / ubuntu-clang CFLAGS:-g -O2 -Werror -Wall -Wformat -Wformat=2 USE_CONFIG:no
failed
May 7, 2025 in 2m 53s
Task Summary
Instruction test failed in 01:41
Details
✅ 00:03 clone
✅ 00:18 install
✅ 00:02 htslib_clone
✅ 00:45 compile
❌ 01:41 test
/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/_LxGCH6Zco/gtcheck.1.vcf.gz -g /tmp/_LxGCH6Zco/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 300 /tmp/_LxGCH6Zco/gtcheck.1.vcf.gz -g /tmp/_LxGCH6Zco/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -u PL -e 30 /tmp/_LxGCH6Zco/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck /tmp/_LxGCH6Zco/gtcheck.ntop.vcf.gz -g /tmp/_LxGCH6Zco/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck --n-matches 2 /tmp/_LxGCH6Zco/gtcheck.ntop.vcf.gz -g /tmp/_LxGCH6Zco/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck /tmp/_LxGCH6Zco/gtcheck.5.vcf.gz -g /tmp/_LxGCH6Zco/gtcheck.5.gts.vcf.gz | grep -v ^# | grep -v Time
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -p A,B,B,C /tmp/_LxGCH6Zco/gtcheck.6.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -t 11:33 -p A,D,A,E,D,E -u GT -e 10 /tmp/_LxGCH6Zco/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_vcf_plugin:
export BCFTOOLS_PLUGINS=/tmp/cirrus-ci-build/plugins; /tmp/cirrus-ci-build/bcftools +vcf2table /tmp/_LxGCH6Zco/merge.4.b.vcf.gz | grep -v ^##bcftools_
.. ok
test_vcf_plugin:
export BCFTOOLS_PLUGINS=/tmp/cirrus-ci-build/plugins; /tmp/cirrus-ci-build/bcftools +vcf2table /tmp/_LxGCH6Zco/merge.4.b.bcf | grep -v ^##bcftools_
.. ok
test_vcf_plugin:
export BCFTOOLS_PLUGINS=/tmp/cirrus-ci-build/plugins; /tmp/cirrus-ci-build/bcftools +vcf2table /tmp/_LxGCH6Zco/split-vep.2.vcf.gz -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok
test_vcf_plugin:
export BCFTOOLS_PLUGINS=/tmp/cirrus-ci-build/plugins; /tmp/cirrus-ci-build/bcftools +vcf2table /tmp/_LxGCH6Zco/split-vep.2.bcf -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok
Number of tests:
total .. 2355
passed .. 2351
failed .. 4
make: *** [Makefile:324: test-plugins] Error 1
Exit status: 2
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