test update with updated rlen calculation in htslib #2402
+13
−13
Merged
Cirrus CI / debian-gcc CFLAGS:-std=gnu99 -g -Og -Wall -fsanitize=address CONFIG_OPTS:--enable-libgsl --enable-perl-filters USE_CONFIG:yes
failed
May 7, 2025 in 5m 45s
Task Summary
Instruction test failed in 03:52
Details
✅ 00:03 clone
✅ 00:04 install
✅ 00:02 htslib_clone
✅ 01:39 compile
❌ 03:52 test
/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/7ba8LwVXQC/gtcheck.1.vcf.gz -g /tmp/7ba8LwVXQC/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 300 /tmp/7ba8LwVXQC/gtcheck.1.vcf.gz -g /tmp/7ba8LwVXQC/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck -u PL -e 30 /tmp/7ba8LwVXQC/gtcheck.3.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck /tmp/7ba8LwVXQC/gtcheck.ntop.vcf.gz -g /tmp/7ba8LwVXQC/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck --n-matches 2 /tmp/7ba8LwVXQC/gtcheck.ntop.vcf.gz -g /tmp/7ba8LwVXQC/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO
.. ok
test_gtcheck:
/tmp/cirrus-ci-build/bcftools gtcheck /tmp/7ba8LwVXQC/gtcheck.5.vcf.gz -g /tmp/7ba8LwVXQC/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/7ba8LwVXQC/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/7ba8LwVXQC/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/7ba8LwVXQC/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/7ba8LwVXQC/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/7ba8LwVXQC/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/7ba8LwVXQC/split-vep.2.bcf -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok
Number of tests:
total .. 2356
passed .. 2352
failed .. 4
make: *** [Makefile:324: test-plugins] Error 1
Exit status: 2
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