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Fix off-by-one in HMM forward-backward posterior indexing #2519

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sirus20x6 wants to merge 1 commit into from
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Fix off-by-one in fwd-bwd posterior indexing and tprob_arr realloc

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Fix off-by-one in HMM forward-backward posterior indexing #2519

Fix off-by-one in fwd-bwd posterior indexing and tprob_arr realloc
2de686a
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Cirrus CI / debian-gcc failed Mar 26, 2026 in 5m 56s

Task Summary

Instruction test failed in 04:02

Details

⚠️ Not enough compute credits to prioritize tasks!
ℹ️ Scheduling was delayed due to a concurrency limit on community tasks

✅ 00:04 clone
✅ 00:04 install
✅ 00:01 htslib_clone
✅ 01:40 compile
❌ 04:02 test

	/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 30 -p s1,s1 /tmp/_8CVjKuh7k/gtcheck.1.vcf.gz -g /tmp/_8CVjKuh7k/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/tmp/cirrus-ci-build/bcftools gtcheck -u GT -e 300 /tmp/_8CVjKuh7k/gtcheck.1.vcf.gz -g /tmp/_8CVjKuh7k/gtcheck.1.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/tmp/cirrus-ci-build/bcftools gtcheck -u PL -e 30 /tmp/_8CVjKuh7k/gtcheck.3.vcf.gz  | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/tmp/cirrus-ci-build/bcftools gtcheck  /tmp/_8CVjKuh7k/gtcheck.ntop.vcf.gz -g /tmp/_8CVjKuh7k/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/tmp/cirrus-ci-build/bcftools gtcheck --n-matches 2 /tmp/_8CVjKuh7k/gtcheck.ntop.vcf.gz -g /tmp/_8CVjKuh7k/gtcheck.ntop.gts.vcf.gz | grep -v ^# | grep -v ^INFO 
.. ok

test_gtcheck:
	/tmp/cirrus-ci-build/bcftools gtcheck  /tmp/_8CVjKuh7k/gtcheck.5.vcf.gz -g /tmp/_8CVjKuh7k/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/_8CVjKuh7k/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/_8CVjKuh7k/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/_8CVjKuh7k/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/_8CVjKuh7k/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/_8CVjKuh7k/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/_8CVjKuh7k/split-vep.2.bcf  -- --hide 'INFO,URL' | grep -v ^##bcftools_
.. ok


Number of tests:
    total   .. 2430
    passed  .. 2424
    failed  .. 6

make: *** [Makefile:328: test-plugins] Error 1

Exit status: 2
View more details on Cirrus CI