Add all nf-core modules and CI/CD and all nf-tests to everything #2288

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Triggered via pull request March 4, 2024 18:45

maxulysse

synchronize #1221

adamrtalbot:nf-test-cicd

Status Success

Total duration 20m 22s

Artifacts –

ci.yml

on: pull_request

Check for changes

Matrix: Test HISAT2 with workflow parameters

Matrix: Test Pseudoaligners with workflow parameters

Matrix: Test STAR RSEM with workflow parameters

Matrix: Test STAR Salmon with workflow parameters

Matrix: test

Annotations

64 errors and 152 warnings

HISAT2_EXTRACTSPLICESITES docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BEDGRAPH_BEDCLIP_BEDGRAPHTOBIGWIG docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

CUSTOM_CATADDITIONALFASTA docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

CUSTOM_GETCHROMSIZES docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

PRESEQ_LCEXTRAP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

GUNZIP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

KALLISTO_INDEX docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

GFFREAD docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

HISAT2_BUILD docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BBMAP_BBSPLIT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_BAMSTAT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_JUNCTIONANNOTATION docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEM_PREPAREREFERENCE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_INFEREXPERIMENT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTQ_FASTQC_UMITOOLS_FASTP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

CUSTOM_TX2GENE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

KALLISTO_QUANT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BAM_DEDUP_STATS_SAMTOOLS_UMITOOLS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTQ_SUBSAMPLE_FQ_SALMON docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BAM_SORT_STATS_SAMTOOLS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BAM_RSEQC docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_INNERDISTANCE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FQ_SUBSAMPLE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTQ_ALIGN_HISAT2 docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

CAT_FASTQ docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BAM_MARKDUPLICATES_PICARD docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

HISAT2_ALIGN docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

PICARD_MARKDUPLICATES docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SAMTOOLS_FLAGSTAT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

MULTIQC docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_TIN docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SAMTOOLS_IDXSTATS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_READDISTRIBUTION docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_JUNCTIONSATURATION docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEQC_READDUPLICATION docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SALMON_INDEX docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SAMTOOLS_SORT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UCSC_BEDCLIP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

QUALIMAP_RNASEQ docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UCSC_BEDGRAPHTOBIGWIG docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SUBREAD_FEATURECOUNTS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SAMTOOLS_INDEX docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

STAR_GENOMEGENERATE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

STRINGTIE_STRINGTIE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UMITOOLS_PREPAREFORRSEM docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SALMON_QUANT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UTILS_NEXTFLOW_PIPELINE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UTILS_NFVALIDATION_PLUGIN docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

BAM_STATS_SAMTOOLS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UMITOOLS_DEDUP docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

RSEM_CALCULATEEXPRESSION docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UTILS_NFCORE_PIPELINE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

TXIMETA_TXIMPORT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SORTMERNA docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UMITOOLS_EXTRACT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

FASTQC docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

TRIMGALORE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SUMMARIZEDEXPERIMENT_SUMMARIZEDEXPERIMENT docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

SAMTOOLS_STATS docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

UNTAR docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

STAR_ALIGN docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

PIPELINE docker NF-23.04.0

❌ Failed to create checks using the provided token. (HttpError: Resource not accessible by integration)

Check for changes

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

HISAT2_EXTRACTSPLICESITES docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

HISAT2_EXTRACTSPLICESITES docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BEDGRAPH_BEDCLIP_BEDGRAPHTOBIGWIG docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

BEDGRAPH_BEDCLIP_BEDGRAPHTOBIGWIG docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

CUSTOM_CATADDITIONALFASTA docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_CATADDITIONALFASTA docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

CUSTOM_GETCHROMSIZES docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

PRESEQ_LCEXTRAP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

PRESEQ_LCEXTRAP docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

GUNZIP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

GUNZIP docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

KALLISTO_INDEX docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

GFFREAD docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

HISAT2_BUILD docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

HISAT2_BUILD docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BBMAP_BBSPLIT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_BAMSTAT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_BAMSTAT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_JUNCTIONANNOTATION docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_JUNCTIONANNOTATION docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEM_PREPAREREFERENCE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_INFEREXPERIMENT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_INFEREXPERIMENT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTQ_FASTQC_UMITOOLS_FASTP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

CUSTOM_TX2GENE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_TX2GENE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

KALLISTO_QUANT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_QUANT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BAM_DEDUP_STATS_SAMTOOLS_UMITOOLS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTQ_SUBSAMPLE_FQ_SALMON docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BAM_SORT_STATS_SAMTOOLS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_RSEQC docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BAM_RSEQC docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_INNERDISTANCE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_INNERDISTANCE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FQ_SUBSAMPLE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTQ_ALIGN_HISAT2 docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_ALIGN_HISAT2 docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

CAT_FASTQ docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BAM_MARKDUPLICATES_PICARD docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_MARKDUPLICATES_PICARD docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

HISAT2_ALIGN docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

HISAT2_ALIGN docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

PICARD_MARKDUPLICATES docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

PICARD_MARKDUPLICATES docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SAMTOOLS_FLAGSTAT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

MULTIQC docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

MULTIQC docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_TIN docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_TIN docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SAMTOOLS_IDXSTATS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_READDISTRIBUTION docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_READDISTRIBUTION docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_JUNCTIONSATURATION docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_JUNCTIONSATURATION docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEQC_READDUPLICATION docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

RSEQC_READDUPLICATION docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SALMON_INDEX docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SAMTOOLS_SORT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_SORT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UCSC_BEDCLIP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UCSC_BEDCLIP docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_TRIMGALORE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

QUALIMAP_RNASEQ docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

QUALIMAP_RNASEQ docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UCSC_BEDGRAPHTOBIGWIG docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UCSC_BEDGRAPHTOBIGWIG docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SUBREAD_FEATURECOUNTS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

SUBREAD_FEATURECOUNTS docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SAMTOOLS_INDEX docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_INDEX docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

STAR_GENOMEGENERATE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

STAR_GENOMEGENERATE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

STRINGTIE_STRINGTIE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

STRINGTIE_STRINGTIE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UMITOOLS_PREPAREFORRSEM docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UMITOOLS_PREPAREFORRSEM docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SALMON_QUANT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_QUANT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UTILS_NEXTFLOW_PIPELINE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UTILS_NEXTFLOW_PIPELINE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

FASTP docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UTILS_NFVALIDATION_PLUGIN docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UTILS_NFVALIDATION_PLUGIN docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

BAM_STATS_SAMTOOLS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UMITOOLS_DEDUP docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UMITOOLS_DEDUP docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

RSEM_CALCULATEEXPRESSION docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_CALCULATEEXPRESSION docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UTILS_NFCORE_PIPELINE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UTILS_NFCORE_PIPELINE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

TXIMETA_TXIMPORT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

TXIMETA_TXIMPORT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SORTMERNA docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

SORTMERNA docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

UMITOOLS_EXTRACT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UMITOOLS_EXTRACT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

FASTQC docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

FASTQC docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

TRIMGALORE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

TRIMGALORE docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --skip_alignment --skip_pse...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --skip_alignment --skip_p...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

SUMMARIZEDEXPERIMENT_SUMMARIZEDEXPERIMENT docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

SUMMARIZEDEXPERIMENT_SUMMARIZEDEXPERIMENT docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

SAMTOOLS_STATS docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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_STATS docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

Test HISAT2 with workflow parameters (--skip_qc)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

UNTAR docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

UNTAR docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

Test STAR RSEM with workflow parameters (--skip_qc)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --skip_qc)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--skip_qc)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test HISAT2 with workflow parameters (--hisat2_index false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --skip_qc)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

STAR_ALIGN docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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/.

STAR_ALIGN docker NF-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

Test STAR Salmon with workflow parameters (--trimmer fastp)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR RSEM with workflow parameters (--rsem_index false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --salmon_index false --tran...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--bam_csi_index)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--featurecounts_group_type false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --kallisto_index false --...

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--star_index false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--gtf false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--save_align_intermeds --save_reference)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--skip_trimming)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

PIPELINE docker NF-23.04.0

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected], 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-23.04.0

⚠️ This usually indicates insufficient permissions. More details: https://github.com/mikepenz/action-junit-report/issues/23

Test STAR Salmon with workflow parameters (--transcript_fasta false)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--with_umi)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--with_umi --skip_trimming)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--min_mapped_reads 90)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

Test STAR Salmon with workflow parameters (--remove_ribo_rna --skip_qualimap)

Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: nf-core/[email protected]. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.