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Integrate Ribo-TISH #98

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Integrate Ribo-TISH

Integrate Ribo-TISH #98

Triggered via pull request March 12, 2024 18:11
@pinin4fjordspinin4fjords
synchronize #39
install_ribotish
Status Cancelled
Total duration 4m 19s
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ci.yml

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104 errors and 20 warnings
Should run without failures: Should run without failures#L1
Assertion failed: assert workflow.success | | workflow false
PIPELINE docker NF-23.04
Process completed with exit code 1.
sarscov2 [bam] - single_end: sarscov2 [bam] - single_end#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - stub: sarscov2 [bam] - single_end - stub#L1
Assertion failed: 5 of 5 assertions failed
RIBOTISH_QUALITY docker NF-23.04
Process completed with exit code 1.
sarscov2 [bam] - single_end - single ribo bam: sarscov2 [bam] - single_end - single ribo bam#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - single ribo bam - stub: sarscov2 [bam] - single_end - single ribo bam - stub#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - multi ribo bam: sarscov2 [bam] - single_end - multi ribo bam#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - multi ribo bam - stub: sarscov2 [bam] - single_end - multi ribo bam - stub#L1
Assertion failed: 5 of 5 assertions failed
BAM_SORT_STATS_SAMTOOLS docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
BAM_STATS_SAMTOOLS docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
sarscov2 [bam] - single_end - single ribo bam: sarscov2 [bam] - single_end - single ribo bam#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - single ribo bam - stub: sarscov2 [bam] - single_end - single ribo bam - stub#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - multi ribo bam: sarscov2 [bam] - single_end - multi ribo bam#L1
Assertion failed: 5 of 5 assertions failed
sarscov2 [bam] - single_end - multi ribo bam - stub: sarscov2 [bam] - single_end - multi ribo bam - stub#L1
Assertion failed: 5 of 5 assertions failed
BBMAP_BBSPLIT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
CUTADAPT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
CAT_FASTQ docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_ALIGN_STAR docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
BAM_DEDUP_STATS_SAMTOOLS_UMITOOLS docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_FASTQC_UMITOOLS_FASTP docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
CUSTOM_GETCHROMSIZES docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
CUSTOM_CATADDITIONALFASTA docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTP docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_INDEX docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_IDXSTATS docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SORTMERNA docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_STATS docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NFCORE_PIPELINE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQC docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
GUNZIP docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
TRIMGALORE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_SUBSAMPLE_FQ_SALMON docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FQ_SUBSAMPLE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
GFFREAD docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
KALLISTO_INDEX docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
PIPELINE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
PREPROCESS_RNASEQ docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
RIBOTISH_PREDICT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
MULTIQC docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
RIBOTISH_QUALITY docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SALMON_QUANT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
RSEM_PREPAREREFERENCE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NEXTFLOW_PIPELINE docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NEXTFLOW_PIPELINE docker NF-23.04
The operation was canceled.
SAMTOOLS_SORT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_FLAGSTAT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
STAR_ALIGN docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SALMON_INDEX docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
STAR_GENOMEGENERATE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_EXTRACT docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_DEDUP docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NEXTFLOW_PIPELINE docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_PREPAREFORRSEM docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NFVALIDATION_PLUGIN docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UNTAR docker NF-latest-everything
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
TRIMGALORE docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
TRIMGALORE docker NF-23.04
The operation was canceled.
UMITOOLS_PREPAREFORRSEM docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_PREPAREFORRSEM docker NF-23.04
The operation was canceled.
UTILS_NFCORE_PIPELINE docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NFCORE_PIPELINE docker NF-23.04
The operation was canceled.
UNTAR docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UNTAR docker NF-23.04
The operation was canceled.
GUNZIP docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
GUNZIP docker NF-23.04
Process completed with exit code 1.
FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-23.04
The operation was canceled.
PREPROCESS_RNASEQ docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
PREPROCESS_RNASEQ docker NF-23.04
The operation was canceled.
STAR_ALIGN docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
STAR_ALIGN docker NF-23.04
The operation was canceled.
FASTQ_ALIGN_STAR docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQ_ALIGN_STAR docker NF-23.04
The operation was canceled.
SALMON_QUANT docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SALMON_QUANT docker NF-23.04
The operation was canceled.
SAMTOOLS_STATS docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_STATS docker NF-23.04
The operation was canceled.
FASTQC docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTQC docker NF-23.04
The operation was canceled.
FASTP docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
FASTP docker NF-23.04
The operation was canceled.
UMITOOLS_EXTRACT docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_EXTRACT docker NF-23.04
The operation was canceled.
SAMTOOLS_INDEX docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_INDEX docker NF-23.04
The operation was canceled.
UMITOOLS_DEDUP docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_DEDUP docker NF-23.04
The operation was canceled.
SAMTOOLS_SORT docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SAMTOOLS_SORT docker NF-23.04
The operation was canceled.
SORTMERNA docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
SORTMERNA docker NF-23.04
The operation was canceled.
STAR_GENOMEGENERATE docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
STAR_GENOMEGENERATE docker NF-23.04
The operation was canceled.
RIBOTISH_PREDICT docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
RIBOTISH_PREDICT docker NF-23.04
Process completed with exit code 1.
RIBOTISH_PREDICT docker NF-23.04
The operation was canceled.
UTILS_NFVALIDATION_PLUGIN docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UTILS_NFVALIDATION_PLUGIN docker NF-23.04
The operation was canceled.
MULTIQC docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
MULTIQC docker NF-23.04
The operation was canceled.
UMITOOLS_PREPAREFORRSEM docker NF-23.04
Canceling since a higher priority waiting request for 'nf-core CI-39' exists
UMITOOLS_PREPAREFORRSEM docker NF-23.04
The operation was canceled.
Check for changes
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, actions/checkout@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
CUSTOM_CATADDITIONALFASTA docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
BAM_DEDUP_STATS_SAMTOOLS_UMITOOLS docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
BAM_SORT_STATS_SAMTOOLS docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
BBMAP_BBSPLIT docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
CUSTOM_GETCHROMSIZES docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
CUTADAPT docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
FASTQ_FASTQC_UMITOOLS_FASTP docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
KALLISTO_INDEX docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
CAT_FASTQ docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
PIPELINE docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
FASTQ_SUBSAMPLE_FQ_SALMON docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
GFFREAD docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
SALMON_INDEX docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
RSEM_PREPAREREFERENCE docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
FQ_SUBSAMPLE docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
BAM_STATS_SAMTOOLS docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
RIBOTISH_QUALITY docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
SAMTOOLS_IDXSTATS docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
SAMTOOLS_FLAGSTAT docker NF-23.04
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/setup-nextflow@v1, actions/setup-python@v4, actions/cache@v3, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.