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Refine extra snakemake logging #92

Refine extra snakemake logging

Refine extra snakemake logging #92

Triggered via push July 19, 2024 13:45
Status Cancelled
Total duration 6m 30s
Artifacts 51

ci.yaml

on: push
Matrix: envs
Matrix: example
Matrix: test
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126 errors
example (macos-13)
The run was canceled by @lczech.
test (macos-12, base)
The run was canceled by @lczech.
test (macos-13, base)
The run was canceled by @lczech.
envs (ubuntu-20.04, micromamba)
The run was canceled by @lczech.
example (ubuntu-20.04)
The run was canceled by @lczech.
example (ubuntu-20.04)
The operation was canceled.
test (ubuntu-latest, calling-haplotypecaller-4, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-haplotypecaller-4, mamba)
The operation was canceled.
test (ubuntu-latest, calling-bcftools-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bowtie2-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-bcftools-2, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bowtie2-2, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-aln-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-aln-1, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-fastp-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-fastp-3, mamba)
The operation was canceled.
test (ubuntu-20.04, base)
The run was canceled by @lczech.
test (ubuntu-20.04, base)
The operation was canceled.
test (ubuntu-latest, download, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, download, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-aln-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-aln-2, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-adapterremoval-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-adapterremoval-2, mamba)
The operation was canceled.
test (ubuntu-latest, calling-haplotypecaller-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-haplotypecaller-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-bcftools-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-bcftools-1, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-cutadapt-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-cutadapt-1, mamba)
The operation was canceled.
example (ubuntu-22.04)
The run was canceled by @lczech.
example (ubuntu-22.04)
The operation was canceled.
test (ubuntu-latest, mapping-bowtie2-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bowtie2-1, mamba)
The operation was canceled.
test (ubuntu-24.04, base)
The run was canceled by @lczech.
test (ubuntu-24.04, base)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-mem2-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-mem2-2, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-seqprep-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-seqprep-2, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-fastp-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-fastp-2, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-skewer-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-skewer-2, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-fastp-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-fastp-1, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-cutadapt-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-cutadapt-2, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-mem-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-mem-1, mamba)
The operation was canceled.
test (ubuntu-latest, pileup-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, pileup-1, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-none, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-none, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-aln-4, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-aln-4, mamba)
The operation was canceled.
test (ubuntu-latest, calling-bcftools-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-bcftools-3, mamba)
The operation was canceled.
test (ubuntu-latest, base, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, base, mamba)
The operation was canceled.
test (ubuntu-latest, duplicates-dedup-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, duplicates-dedup-2, mamba)
The operation was canceled.
test (ubuntu-latest, duplicates-dedup-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, duplicates-dedup-1, mamba)
The operation was canceled.
test (ubuntu-latest, hafpipe-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, hafpipe-2, mamba)
The operation was canceled.
test (ubuntu-22.04, base)
The run was canceled by @lczech.
test (ubuntu-22.04, base)
The operation was canceled.
example (ubuntu-24.04)
The run was canceled by @lczech.
example (ubuntu-24.04)
The operation was canceled.
test (ubuntu-latest, trimming-seqprep-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-seqprep-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-freebayes-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-freebayes-2, mamba)
The operation was canceled.
test (ubuntu-latest, hafpipe-4, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, hafpipe-4, mamba)
The operation was canceled.
envs (ubuntu-20.04, mamba)
The run was canceled by @lczech.
example (macos-12)
The run was canceled by @lczech.
envs (ubuntu-20.04, mamba)
The operation was canceled.
example (macos-12)
The operation was canceled.
envs (ubuntu-20.04, mamba)
ENOTEMPTY: directory not empty, rmdir '/home/runner/micromamba/envs/grenepipe/envs/qualimap/.condatmp'
test (ubuntu-latest, trimming-skewer-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-skewer-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-haplotypecaller-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-haplotypecaller-3, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-mem2-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-mem2-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-freebayes-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-freebayes-3, mamba)
The operation was canceled.
envs (macos-12, micromamba)
The run was canceled by @lczech.
envs (macos-12, micromamba)
ENOTEMPTY: directory not empty, rmdir '/Users/runner/micromamba/envs/frequency-table/conda-meta'
envs (macos-12, micromamba)
The operation was canceled.
test (ubuntu-latest, hafpipe-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, hafpipe-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-bcftools-4, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-bcftools-4, mamba)
The operation was canceled.
test (ubuntu-latest, mappings-table, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mappings-table, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-adapterremoval-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-adapterremoval-3, mamba)
The operation was canceled.
test (ubuntu-latest, trimming-adapterremoval-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, trimming-adapterremoval-1, mamba)
The operation was canceled.
test (ubuntu-latest, calling-freebayes-1, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-freebayes-1, mamba)
The operation was canceled.
test (ubuntu-latest, hafpipe-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, hafpipe-3, mamba)
The operation was canceled.
test (ubuntu-latest, calling-haplotypecaller-2, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, calling-haplotypecaller-2, mamba)
The operation was canceled.
envs (macos-13, mamba)
The run was canceled by @lczech.
envs (macos-13, mamba)
ENOTEMPTY: directory not empty, rmdir '/Users/runner/micromamba/envs/grenepipe/envs/bwa-mem2/bin'
envs (macos-13, mamba)
The operation was canceled.
envs (macos-12, mamba)
The run was canceled by @lczech.
envs (macos-12, mamba)
ENOTEMPTY: directory not empty, rmdir '/Users/runner/micromamba/envs/grenepipe/pkgs/damageprofiler-1.1-hdfd78af_2/info/test'
envs (macos-12, mamba)
The operation was canceled.
envs (ubuntu-24.04, mamba)
The run was canceled by @lczech.
envs (ubuntu-24.04, mamba)
The operation was canceled.
envs (ubuntu-24.04, mamba)
ENOTEMPTY: directory not empty, rmdir '/home/runner/micromamba/envs/grenepipe/envs/qualimap'
envs (ubuntu-22.04, mamba)
The run was canceled by @lczech.
envs (ubuntu-22.04, mamba)
The operation was canceled.
envs (ubuntu-22.04, mamba)
ENOTEMPTY: directory not empty, rmdir '/home/runner/micromamba/envs/grenepipe/envs/qualimap'
test (ubuntu-latest, mapping-bwa-aln-3, mamba)
The run was canceled by @lczech.
test (ubuntu-latest, mapping-bwa-aln-3, mamba)
The operation was canceled.
test (ubuntu-latest, mapping-bwa-aln-3, mamba)
Failed to FinalizeArtifact: Unable to make request: ECONNRESET If you are using self-hosted runners, please make sure your runner has access to all GitHub endpoints: https://docs.github.com/en/actions/hosting-your-own-runners/managing-self-hosted-runners/about-self-hosted-runners#communication-between-self-hosted-runners-and-github
envs (macos-13, micromamba)
The run was canceled by @lczech.
envs (macos-13, micromamba)
The operation was canceled.
envs (macos-13, micromamba)
ENOTEMPTY: directory not empty, rmdir '/Users/runner/micromamba/pkgs'

Artifacts

Produced during runtime
Name Size
logs-example-macos-12 Expired
2.93 KB
logs-example-ubuntu-20.04 Expired
15.1 KB
logs-example-ubuntu-22.04 Expired
15 KB
logs-example-ubuntu-24.04 Expired
15 KB
logs-test-ubuntu-20.04-base Expired
22.9 KB
logs-test-ubuntu-22.04-base Expired
22.8 KB
logs-test-ubuntu-24.04-base Expired
22.8 KB
logs-test-ubuntu-latest-base Expired
22.8 KB
logs-test-ubuntu-latest-calling-bcftools-1 Expired
22.9 KB
logs-test-ubuntu-latest-calling-bcftools-2 Expired
22.9 KB
logs-test-ubuntu-latest-calling-bcftools-3 Expired
22.9 KB
logs-test-ubuntu-latest-calling-bcftools-4 Expired
30.1 KB
logs-test-ubuntu-latest-calling-freebayes-1 Expired
35.3 KB
logs-test-ubuntu-latest-calling-freebayes-2 Expired
36.5 KB
logs-test-ubuntu-latest-calling-freebayes-3 Expired
37.5 KB
logs-test-ubuntu-latest-calling-haplotypecaller-1 Expired
40.2 KB
logs-test-ubuntu-latest-calling-haplotypecaller-2 Expired
35.7 KB
logs-test-ubuntu-latest-calling-haplotypecaller-3 Expired
32.5 KB
logs-test-ubuntu-latest-calling-haplotypecaller-4 Expired
37.9 KB
logs-test-ubuntu-latest-download Expired
22.8 KB
logs-test-ubuntu-latest-duplicates-dedup-1 Expired
37.8 KB
logs-test-ubuntu-latest-duplicates-dedup-2 Expired
37.7 KB
logs-test-ubuntu-latest-hafpipe-1 Expired
76.5 KB
logs-test-ubuntu-latest-hafpipe-2 Expired
83.4 KB
logs-test-ubuntu-latest-hafpipe-3 Expired
86.6 KB
logs-test-ubuntu-latest-hafpipe-4 Expired
83 KB
logs-test-ubuntu-latest-mapping-bowtie2-1 Expired
38 KB
logs-test-ubuntu-latest-mapping-bowtie2-2 Expired
38.2 KB
logs-test-ubuntu-latest-mapping-bwa-aln-1 Expired
37.9 KB
logs-test-ubuntu-latest-mapping-bwa-aln-2 Expired
38.6 KB
logs-test-ubuntu-latest-mapping-bwa-aln-3 Expired
38 KB
logs-test-ubuntu-latest-mapping-bwa-aln-3 Expired
38 KB
logs-test-ubuntu-latest-mapping-bwa-aln-4 Expired
38.9 KB
logs-test-ubuntu-latest-mapping-bwa-mem-1 Expired
22.7 KB
logs-test-ubuntu-latest-mapping-bwa-mem2-1 Expired
34.3 KB
logs-test-ubuntu-latest-mapping-bwa-mem2-2 Expired
22.9 KB
logs-test-ubuntu-latest-mappings-table Expired
57.5 KB
logs-test-ubuntu-latest-pileup-1 Expired
54.4 KB
logs-test-ubuntu-latest-trimming-adapterremoval-1 Expired
46.7 KB
logs-test-ubuntu-latest-trimming-adapterremoval-2 Expired
37.8 KB
logs-test-ubuntu-latest-trimming-adapterremoval-3 Expired
36.4 KB
logs-test-ubuntu-latest-trimming-cutadapt-1 Expired
36 KB
logs-test-ubuntu-latest-trimming-cutadapt-2 Expired
36.4 KB
logs-test-ubuntu-latest-trimming-fastp-1 Expired
38.2 KB
logs-test-ubuntu-latest-trimming-fastp-2 Expired
36.7 KB
logs-test-ubuntu-latest-trimming-fastp-3 Expired
36.9 KB
logs-test-ubuntu-latest-trimming-none Expired
34.5 KB
logs-test-ubuntu-latest-trimming-seqprep-1 Expired
35.5 KB
logs-test-ubuntu-latest-trimming-seqprep-2 Expired
35.6 KB
logs-test-ubuntu-latest-trimming-skewer-1 Expired
56.4 KB
logs-test-ubuntu-latest-trimming-skewer-2 Expired
56.3 KB