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Add warning about invalid setting combination for trimming #94

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Add warning about invalid setting combination for trimming

Add warning about invalid setting combination for trimming #94

Triggered via push October 11, 2024 10:14
@lczechlczech
pushed 4fc3386
master
Status Failure
Total duration 16m 30s
Artifacts 53

ci.yaml

on: push
Matrix: envs
Matrix: example
Matrix: test
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53 errors and 57 warnings
test (ubuntu-20.04, base)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-3, mamba)
Process completed with exit code 1.
test (ubuntu-22.04, base)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem2-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, duplicates-dedup-1, mamba)
Process completed with exit code 1.
example (ubuntu-20.04)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-freebayes-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, base, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-freebayes-1, mamba)
Process completed with exit code 1.
example (ubuntu-22.04)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem-1, mamba)
Process completed with exit code 1.
example (ubuntu-24.04)
Process completed with exit code 1.
test (ubuntu-latest, trimming-cutadapt-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mappings-table, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-4, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bowtie2-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-2, mamba)
Process completed with exit code 1.
test (ubuntu-24.04, base)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bowtie2-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-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-bcftools-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, duplicates-dedup-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-haplotypecaller-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, download, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-aln-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, hafpipe-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-skewer-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-adapterremoval-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, pileup-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, calling-bcftools-3, mamba)
Process completed with exit code 1.
test (ubuntu-latest, mapping-bwa-mem2-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-cutadapt-2, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-fastp-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-seqprep-2, mamba)
Process completed with exit code 1.
example (macos-13)
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 1.
test (ubuntu-latest, trimming-seqprep-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-skewer-1, mamba)
Process completed with exit code 1.
test (ubuntu-latest, trimming-none, mamba)
Process completed with exit code 1.
example (macos-12)
Process completed with exit code 1.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
test (macos-12, base)
A brownout will take place on November 4, 14:00 UTC - November 5, 00:00 UTC to raise awareness of the upcoming macOS-12 environment removal. For more details, see https://github.com/actions/runner-images/issues/10721
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
example (macos-12)
A brownout will take place on November 4, 14:00 UTC - November 5, 00:00 UTC to raise awareness of the upcoming macOS-12 environment removal. For more details, see https://github.com/actions/runner-images/issues/10721
Mambaforge is now deprecated!
Future Miniforge releases will NOT build Mambaforge installers. We advise you switch to Miniforge at your earliest convenience. More details at https://conda-forge.org/news/2024/07/29/sunsetting-mambaforge/.
envs (macos-12, mamba)
A brownout will take place on November 4, 14:00 UTC - November 5, 00:00 UTC to raise awareness of the upcoming macOS-12 environment removal. For more details, see https://github.com/actions/runner-images/issues/10721
envs (macos-12, micromamba)
A brownout will take place on November 4, 14:00 UTC - November 5, 00:00 UTC to raise awareness of the upcoming macOS-12 environment removal. For more details, see https://github.com/actions/runner-images/issues/10721

Artifacts

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