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Try fixing CI setup to avoid snakemake/snakemake#3108 #96

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Try fixing CI setup to avoid snakemake/snakemake#3108

Try fixing CI setup to avoid snakemake/snakemake#3108 #96

Triggered via push November 27, 2024 13:26
@lczechlczech
pushed 09b688e
master
Status Failure
Total duration 18m 2s
Artifacts 53

ci.yaml

on: push
Matrix: envs
Matrix: example
Matrix: test
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49 errors and 4 warnings
test (ubuntu-latest, mapping-bwa-aln-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem2-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-freebayes-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-seqprep-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-skewer-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-freebayes-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-4, mamba)
Process completed with exit code 1.
test (ubuntu-24.04, base)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-cutadapt-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, duplicates-dedup-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-4, mamba)
Process completed with exit code 1.
test (ubuntu-22.04, base)
Process completed with exit code 1.
test (ubuntu-latest, trimming-none, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem2-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mappings-table, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bowtie2-1, mamba)
Process completed with exit code 1.
test (ubuntu-20.04, base)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, base, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-freebayes-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, pileup-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-seqprep-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bowtie2-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-skewer-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-cutadapt-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, download, mamba)
Process completed with exit code 1.
test (ubuntu-latest, duplicates-dedup-2, mamba)
Process completed with exit code 1.
test (macos-12, base)
Process completed with exit code 1.
test (macos-13, base)
Process completed with exit code 127.
test (macos-13, base)
Process completed with exit code 1.
example (macos-12)
The macOS-12 environment is deprecated, consider switching to macOS-13, macOS-14 (macos-latest) or macOS-15. For more details, see https://github.com/actions/runner-images/issues/10721
envs (macos-12, micromamba)
The macOS-12 environment is deprecated, consider switching to macOS-13, macOS-14 (macos-latest) or macOS-15. For more details, see https://github.com/actions/runner-images/issues/10721
test (macos-12, base)
The macOS-12 environment is deprecated, consider switching to macOS-13, macOS-14 (macos-latest) or macOS-15. For more details, see https://github.com/actions/runner-images/issues/10721
envs (macos-12, mamba)
The macOS-12 environment is deprecated, consider switching to macOS-13, macOS-14 (macos-latest) or macOS-15. For more details, see https://github.com/actions/runner-images/issues/10721

Artifacts

Produced during runtime
Name Size
logs-example-macos-12
3.24 KB
logs-example-macos-13
3.63 KB
logs-example-ubuntu-20.04
3.14 KB
logs-example-ubuntu-22.04
3.24 KB
logs-example-ubuntu-24.04
3.13 KB
logs-test-macos-12-base
21.4 KB
logs-test-macos-13-base
284 Bytes
logs-test-ubuntu-20.04-base
21.3 KB
logs-test-ubuntu-22.04-base
21.3 KB
logs-test-ubuntu-24.04-base
21.3 KB
logs-test-ubuntu-latest-base
21.4 KB
logs-test-ubuntu-latest-calling-bcftools-1
21.5 KB
logs-test-ubuntu-latest-calling-bcftools-2
21.5 KB
logs-test-ubuntu-latest-calling-bcftools-3
21.5 KB
logs-test-ubuntu-latest-calling-bcftools-4
21.5 KB
logs-test-ubuntu-latest-calling-freebayes-1
21.5 KB
logs-test-ubuntu-latest-calling-freebayes-2
21.5 KB
logs-test-ubuntu-latest-calling-freebayes-3
21.5 KB
logs-test-ubuntu-latest-calling-haplotypecaller-1
21.6 KB
logs-test-ubuntu-latest-calling-haplotypecaller-2
21.6 KB
logs-test-ubuntu-latest-calling-haplotypecaller-3
21.6 KB
logs-test-ubuntu-latest-calling-haplotypecaller-4
21.7 KB
logs-test-ubuntu-latest-download
21.4 KB
logs-test-ubuntu-latest-duplicates-dedup-1
21.6 KB
logs-test-ubuntu-latest-duplicates-dedup-2
21.5 KB
logs-test-ubuntu-latest-hafpipe-1
21.5 KB
logs-test-ubuntu-latest-hafpipe-2
21.5 KB
logs-test-ubuntu-latest-hafpipe-3
21.5 KB
logs-test-ubuntu-latest-hafpipe-4
21.5 KB
logs-test-ubuntu-latest-mapping-bowtie2-1
21.5 KB
logs-test-ubuntu-latest-mapping-bowtie2-2
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-aln-1
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-aln-2
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-aln-3
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-aln-4
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-mem-1
21.5 KB
logs-test-ubuntu-latest-mapping-bwa-mem2-1
21.6 KB
logs-test-ubuntu-latest-mapping-bwa-mem2-2
21.5 KB
logs-test-ubuntu-latest-mappings-table
21.4 KB
logs-test-ubuntu-latest-pileup-1
21.3 KB
logs-test-ubuntu-latest-trimming-adapterremoval-1
21.6 KB
logs-test-ubuntu-latest-trimming-adapterremoval-2
21.6 KB
logs-test-ubuntu-latest-trimming-adapterremoval-3
21.6 KB
logs-test-ubuntu-latest-trimming-cutadapt-1
21.5 KB
logs-test-ubuntu-latest-trimming-cutadapt-2
21.5 KB
logs-test-ubuntu-latest-trimming-fastp-1
21.5 KB
logs-test-ubuntu-latest-trimming-fastp-2
21.5 KB
logs-test-ubuntu-latest-trimming-fastp-3
21.5 KB
logs-test-ubuntu-latest-trimming-none
21.4 KB
logs-test-ubuntu-latest-trimming-seqprep-1
21.6 KB
logs-test-ubuntu-latest-trimming-seqprep-2
21.5 KB
logs-test-ubuntu-latest-trimming-skewer-1
21.5 KB
logs-test-ubuntu-latest-trimming-skewer-2
21.6 KB