From d08ba5f5fa03d415b42b75114d560bdcd4359f3b Mon Sep 17 00:00:00 2001 From: CI Date: Thu, 5 Dec 2024 15:28:05 +0000 Subject: [PATCH] Build branch main with version main (2b3d511) Build pipeline: viash-hub.rnaseq.main-8jfv9 Source commit: https://github.com/viash-hub/rnaseq/commit/2b3d511b34246648b934fd1dc99b22e0a71c37f2 Source message: Add CHANGELOG --- CHANGELOG.md | 13 +++++++++++++ .../executable/bedtools_genomecov/.config.vsh.yaml | 4 ++-- .../bedtools_genomecov/bedtools_genomecov | 6 +++--- .../cat_additional_fasta/.config.vsh.yaml | 4 ++-- .../cat_additional_fasta/cat_additional_fasta | 6 +++--- target/executable/cat_fastq/.config.vsh.yaml | 4 ++-- target/executable/cat_fastq/cat_fastq | 6 +++--- target/executable/deseq2_qc/.config.vsh.yaml | 4 ++-- target/executable/deseq2_qc/deseq2_qc | 6 +++--- target/executable/dupradar/.config.vsh.yaml | 4 ++-- target/executable/dupradar/dupradar | 6 +++--- target/executable/getchromsizes/.config.vsh.yaml | 4 ++-- target/executable/getchromsizes/getchromsizes | 6 +++--- target/executable/gtf2bed/.config.vsh.yaml | 4 ++-- target/executable/gtf2bed/gtf2bed | 6 +++--- target/executable/gtf_filter/.config.vsh.yaml | 4 ++-- target/executable/gtf_filter/gtf_filter | 6 +++--- target/executable/gunzip/.config.vsh.yaml | 4 ++-- target/executable/gunzip/gunzip | 6 +++--- .../multiqc_custom_biotype/.config.vsh.yaml | 4 ++-- .../multiqc_custom_biotype/multiqc_custom_biotype | 6 +++--- .../picard_markduplicates/.config.vsh.yaml | 4 ++-- .../picard_markduplicates/picard_markduplicates | 6 +++--- .../prepare_multiqc_input/.config.vsh.yaml | 4 ++-- .../prepare_multiqc_input/prepare_multiqc_input | 6 +++--- .../preprocess_transcripts_fasta/.config.vsh.yaml | 4 ++-- .../preprocess_transcripts_fasta | 6 +++--- target/executable/preseq_lcextrap/.config.vsh.yaml | 4 ++-- target/executable/preseq_lcextrap/preseq_lcextrap | 6 +++--- .../executable/rsem_merge_counts/.config.vsh.yaml | 4 ++-- .../executable/rsem_merge_counts/rsem_merge_counts | 6 +++--- .../rseqc/rseqc_junctionannotation/.config.vsh.yaml | 4 ++-- .../rseqc_junctionannotation | 6 +++--- .../rseqc/rseqc_junctionsaturation/.config.vsh.yaml | 4 ++-- .../rseqc_junctionsaturation | 6 +++--- .../rseqc/rseqc_readdistribution/.config.vsh.yaml | 4 ++-- .../rseqc_readdistribution/rseqc_readdistribution | 6 +++--- .../rseqc/rseqc_readduplication/.config.vsh.yaml | 4 ++-- .../rseqc_readduplication/rseqc_readduplication | 6 +++--- target/executable/rseqc/rseqc_tin/.config.vsh.yaml | 4 ++-- target/executable/rseqc/rseqc_tin/rseqc_tin | 6 +++--- target/executable/sortmerna/.config.vsh.yaml | 4 ++-- target/executable/sortmerna/sortmerna | 6 +++--- target/executable/stringtie/.config.vsh.yaml | 4 ++-- target/executable/stringtie/stringtie | 6 +++--- .../summarizedexperiment/.config.vsh.yaml | 4 ++-- .../summarizedexperiment/summarizedexperiment | 6 +++--- target/executable/tx2gene/.config.vsh.yaml | 4 ++-- target/executable/tx2gene/tx2gene | 6 +++--- target/executable/tximport/.config.vsh.yaml | 4 ++-- target/executable/tximport/tximport | 6 +++--- target/executable/ucsc/bedclip/.config.vsh.yaml | 4 ++-- target/executable/ucsc/bedclip/bedclip | 6 +++--- .../ucsc/bedgraphtobigwig/.config.vsh.yaml | 4 ++-- .../ucsc/bedgraphtobigwig/bedgraphtobigwig | 6 +++--- .../genome_alignment_and_quant/.config.vsh.yaml | 4 ++-- .../workflows/merge_quant_results/.config.vsh.yaml | 4 ++-- .../workflows/post_processing/.config.vsh.yaml | 4 ++-- .../workflows/pre_processing/.config.vsh.yaml | 4 ++-- .../workflows/prepare_genome/.config.vsh.yaml | 4 ++-- .../pseudo_alignment_and_quant/.config.vsh.yaml | 4 ++-- .../workflows/quality_control/.config.vsh.yaml | 4 ++-- target/executable/workflows/rnaseq/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools_genomecov/.config.vsh.yaml | 4 ++-- target/nextflow/bedtools_genomecov/main.nf | 4 ++-- .../nextflow/cat_additional_fasta/.config.vsh.yaml | 4 ++-- target/nextflow/cat_additional_fasta/main.nf | 4 ++-- target/nextflow/cat_fastq/.config.vsh.yaml | 4 ++-- target/nextflow/cat_fastq/main.nf | 4 ++-- target/nextflow/deseq2_qc/.config.vsh.yaml | 4 ++-- target/nextflow/deseq2_qc/main.nf | 4 ++-- target/nextflow/dupradar/.config.vsh.yaml | 4 ++-- target/nextflow/dupradar/main.nf | 4 ++-- target/nextflow/getchromsizes/.config.vsh.yaml | 4 ++-- target/nextflow/getchromsizes/main.nf | 4 ++-- target/nextflow/gtf2bed/.config.vsh.yaml | 4 ++-- target/nextflow/gtf2bed/main.nf | 4 ++-- target/nextflow/gtf_filter/.config.vsh.yaml | 4 ++-- target/nextflow/gtf_filter/main.nf | 4 ++-- target/nextflow/gunzip/.config.vsh.yaml | 4 ++-- target/nextflow/gunzip/main.nf | 4 ++-- .../multiqc_custom_biotype/.config.vsh.yaml | 4 ++-- target/nextflow/multiqc_custom_biotype/main.nf | 4 ++-- .../nextflow/picard_markduplicates/.config.vsh.yaml | 4 ++-- target/nextflow/picard_markduplicates/main.nf | 4 ++-- .../nextflow/prepare_multiqc_input/.config.vsh.yaml | 4 ++-- target/nextflow/prepare_multiqc_input/main.nf | 4 ++-- .../preprocess_transcripts_fasta/.config.vsh.yaml | 4 ++-- .../nextflow/preprocess_transcripts_fasta/main.nf | 4 ++-- target/nextflow/preseq_lcextrap/.config.vsh.yaml | 4 ++-- target/nextflow/preseq_lcextrap/main.nf | 4 ++-- target/nextflow/rsem_merge_counts/.config.vsh.yaml | 4 ++-- target/nextflow/rsem_merge_counts/main.nf | 4 ++-- .../rseqc/rseqc_junctionannotation/.config.vsh.yaml | 4 ++-- .../nextflow/rseqc/rseqc_junctionannotation/main.nf | 4 ++-- .../rseqc/rseqc_junctionsaturation/.config.vsh.yaml | 4 ++-- .../nextflow/rseqc/rseqc_junctionsaturation/main.nf | 4 ++-- .../rseqc/rseqc_readdistribution/.config.vsh.yaml | 4 ++-- .../nextflow/rseqc/rseqc_readdistribution/main.nf | 4 ++-- .../rseqc/rseqc_readduplication/.config.vsh.yaml | 4 ++-- target/nextflow/rseqc/rseqc_readduplication/main.nf | 4 ++-- target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml | 4 ++-- target/nextflow/rseqc/rseqc_tin/main.nf | 4 ++-- target/nextflow/sortmerna/.config.vsh.yaml | 4 ++-- target/nextflow/sortmerna/main.nf | 4 ++-- target/nextflow/stringtie/.config.vsh.yaml | 4 ++-- target/nextflow/stringtie/main.nf | 4 ++-- .../nextflow/summarizedexperiment/.config.vsh.yaml | 4 ++-- target/nextflow/summarizedexperiment/main.nf | 4 ++-- target/nextflow/tx2gene/.config.vsh.yaml | 4 ++-- target/nextflow/tx2gene/main.nf | 4 ++-- target/nextflow/tximport/.config.vsh.yaml | 4 ++-- target/nextflow/tximport/main.nf | 4 ++-- target/nextflow/ucsc/bedclip/.config.vsh.yaml | 4 ++-- target/nextflow/ucsc/bedclip/main.nf | 4 ++-- .../nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml | 4 ++-- target/nextflow/ucsc/bedgraphtobigwig/main.nf | 4 ++-- .../genome_alignment_and_quant/.config.vsh.yaml | 4 ++-- .../workflows/genome_alignment_and_quant/main.nf | 4 ++-- .../workflows/merge_quant_results/.config.vsh.yaml | 4 ++-- .../nextflow/workflows/merge_quant_results/main.nf | 4 ++-- .../workflows/post_processing/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/post_processing/main.nf | 4 ++-- .../workflows/pre_processing/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/pre_processing/main.nf | 4 ++-- .../workflows/prepare_genome/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/prepare_genome/main.nf | 4 ++-- .../pseudo_alignment_and_quant/.config.vsh.yaml | 4 ++-- .../workflows/pseudo_alignment_and_quant/main.nf | 4 ++-- .../workflows/quality_control/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/quality_control/main.nf | 4 ++-- target/nextflow/workflows/rnaseq/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/rnaseq/main.nf | 4 ++-- 133 files changed, 304 insertions(+), 291 deletions(-) create mode 100644 CHANGELOG.md diff --git a/CHANGELOG.md b/CHANGELOG.md new file mode 100644 index 0000000..4c2c965 --- /dev/null +++ b/CHANGELOG.md @@ -0,0 +1,13 @@ +# RNAseq version x.y.z + +## Changes + +- Add resources labels +- Increase the number of components that are fetched from BioBox + +## Known issues + +The following caveats are known and will be addressed in future releases: + +- [`bbmap_bbsplit` input file logic requires revision](https://github.com/viash-hub/rnaseq/issues/30) +- [Setting `--skip_deseq2_qc=false` results in an error](https://github.com/viash-hub/rnaseq/issues/31) diff --git a/target/executable/bedtools_genomecov/.config.vsh.yaml b/target/executable/bedtools_genomecov/.config.vsh.yaml index 7bee430..70686df 100644 --- a/target/executable/bedtools_genomecov/.config.vsh.yaml +++ b/target/executable/bedtools_genomecov/.config.vsh.yaml @@ -183,8 +183,8 @@ build_info: output: "target/executable/bedtools_genomecov" executable: "target/executable/bedtools_genomecov/bedtools_genomecov" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/bedtools_genomecov/bedtools_genomecov b/target/executable/bedtools_genomecov/bedtools_genomecov index e088418..7a0f9d3 100755 --- a/target/executable/bedtools_genomecov/bedtools_genomecov +++ b/target/executable/bedtools_genomecov/bedtools_genomecov @@ -481,9 +481,9 @@ mv bedtools.static /usr/local/bin/bedtools && \ chmod a+x /usr/local/bin/bedtools LABEL org.opencontainers.image.description="Companion container for running component bedtools_genomecov" -LABEL org.opencontainers.image.created="2024-12-05T08:04:23Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:12Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/cat_additional_fasta/.config.vsh.yaml b/target/executable/cat_additional_fasta/.config.vsh.yaml index d50f236..7c8f832 100644 --- a/target/executable/cat_additional_fasta/.config.vsh.yaml +++ b/target/executable/cat_additional_fasta/.config.vsh.yaml @@ -187,8 +187,8 @@ build_info: output: "target/executable/cat_additional_fasta" executable: "target/executable/cat_additional_fasta/cat_additional_fasta" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/cat_additional_fasta/cat_additional_fasta b/target/executable/cat_additional_fasta/cat_additional_fasta index 7bec505..312322f 100755 --- a/target/executable/cat_additional_fasta/cat_additional_fasta +++ b/target/executable/cat_additional_fasta/cat_additional_fasta @@ -480,9 +480,9 @@ function ViashDockerfile { FROM python:latest ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component cat_additional_fasta" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/cat_fastq/.config.vsh.yaml b/target/executable/cat_fastq/.config.vsh.yaml index 8e75fb7..e28ea1e 100644 --- a/target/executable/cat_fastq/.config.vsh.yaml +++ b/target/executable/cat_fastq/.config.vsh.yaml @@ -174,8 +174,8 @@ build_info: output: "target/executable/cat_fastq" executable: "target/executable/cat_fastq/cat_fastq" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/cat_fastq/cat_fastq b/target/executable/cat_fastq/cat_fastq index 95dc38a..87aee80 100755 --- a/target/executable/cat_fastq/cat_fastq +++ b/target/executable/cat_fastq/cat_fastq @@ -472,9 +472,9 @@ function ViashDockerfile { FROM ubuntu:22.04 ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component cat_fastq" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:10Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/deseq2_qc/.config.vsh.yaml b/target/executable/deseq2_qc/.config.vsh.yaml index 6d425d8..1820320 100644 --- a/target/executable/deseq2_qc/.config.vsh.yaml +++ b/target/executable/deseq2_qc/.config.vsh.yaml @@ -242,8 +242,8 @@ build_info: output: "target/executable/deseq2_qc" executable: "target/executable/deseq2_qc/deseq2_qc" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/deseq2_qc/deseq2_qc b/target/executable/deseq2_qc/deseq2_qc index 67cb000..a0563d1 100755 --- a/target/executable/deseq2_qc/deseq2_qc +++ b/target/executable/deseq2_qc/deseq2_qc @@ -506,9 +506,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag Rscript -e 'remotes::install_cran(c("optparse", "ggplot2", "RColorBrewer", "pheatmap", "stringr", "matrixStats"), repos = "https://cran.rstudio.com")' LABEL org.opencontainers.image.description="Companion container for running component deseq2_qc" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:10Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/dupradar/.config.vsh.yaml b/target/executable/dupradar/.config.vsh.yaml index facf709..c6ce725 100644 --- a/target/executable/dupradar/.config.vsh.yaml +++ b/target/executable/dupradar/.config.vsh.yaml @@ -271,8 +271,8 @@ build_info: output: "target/executable/dupradar" executable: "target/executable/dupradar/dupradar" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/dupradar/dupradar b/target/executable/dupradar/dupradar index 78de1f6..20f5ea0 100755 --- a/target/executable/dupradar/dupradar +++ b/target/executable/dupradar/dupradar @@ -520,9 +520,9 @@ RUN Rscript -e 'if (!requireNamespace("BiocManager", quietly = TRUE)) install.pa Rscript -e 'if (!requireNamespace("dupRadar", quietly = TRUE)) BiocManager::install("dupRadar")' LABEL org.opencontainers.image.description="Companion container for running component dupradar" -LABEL org.opencontainers.image.created="2024-12-05T08:04:24Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:12Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/getchromsizes/.config.vsh.yaml b/target/executable/getchromsizes/.config.vsh.yaml index 364dadd..f1b64e0 100644 --- a/target/executable/getchromsizes/.config.vsh.yaml +++ b/target/executable/getchromsizes/.config.vsh.yaml @@ -172,8 +172,8 @@ build_info: output: "target/executable/getchromsizes" executable: "target/executable/getchromsizes/getchromsizes" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/getchromsizes/getchromsizes b/target/executable/getchromsizes/getchromsizes index 362516e..b03096d 100755 --- a/target/executable/getchromsizes/getchromsizes +++ b/target/executable/getchromsizes/getchromsizes @@ -480,9 +480,9 @@ make && \ make install LABEL org.opencontainers.image.description="Companion container for running component getchromsizes" -LABEL org.opencontainers.image.created="2024-12-05T08:04:23Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/gtf2bed/.config.vsh.yaml b/target/executable/gtf2bed/.config.vsh.yaml index 58a0a03..da6351b 100644 --- a/target/executable/gtf2bed/.config.vsh.yaml +++ b/target/executable/gtf2bed/.config.vsh.yaml @@ -150,8 +150,8 @@ build_info: output: "target/executable/gtf2bed" executable: "target/executable/gtf2bed/gtf2bed" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/gtf2bed/gtf2bed b/target/executable/gtf2bed/gtf2bed index a563ff0..c466e51 100755 --- a/target/executable/gtf2bed/gtf2bed +++ b/target/executable/gtf2bed/gtf2bed @@ -466,9 +466,9 @@ RUN apt-get update && \ rm -rf /var/lib/apt/lists/* LABEL org.opencontainers.image.description="Companion container for running component gtf2bed" -LABEL org.opencontainers.image.created="2024-12-05T08:04:24Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:13Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/gtf_filter/.config.vsh.yaml b/target/executable/gtf_filter/.config.vsh.yaml index b694ff0..13fc9cf 100644 --- a/target/executable/gtf_filter/.config.vsh.yaml +++ b/target/executable/gtf_filter/.config.vsh.yaml @@ -160,8 +160,8 @@ build_info: output: "target/executable/gtf_filter" executable: "target/executable/gtf_filter/gtf_filter" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/gtf_filter/gtf_filter b/target/executable/gtf_filter/gtf_filter index 5149e7a..b54ee7d 100755 --- a/target/executable/gtf_filter/gtf_filter +++ b/target/executable/gtf_filter/gtf_filter @@ -470,9 +470,9 @@ function ViashDockerfile { FROM python:latest ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component gtf_filter" -LABEL org.opencontainers.image.created="2024-12-05T08:04:23Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/gunzip/.config.vsh.yaml b/target/executable/gunzip/.config.vsh.yaml index a67a8be..125f575 100644 --- a/target/executable/gunzip/.config.vsh.yaml +++ b/target/executable/gunzip/.config.vsh.yaml @@ -149,8 +149,8 @@ build_info: output: "target/executable/gunzip" executable: "target/executable/gunzip/gunzip" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/gunzip/gunzip b/target/executable/gunzip/gunzip index e6bc9c8..84ebcc3 100755 --- a/target/executable/gunzip/gunzip +++ b/target/executable/gunzip/gunzip @@ -466,9 +466,9 @@ RUN apt-get update && \ rm -rf /var/lib/apt/lists/* LABEL org.opencontainers.image.description="Companion container for running component gunzip" -LABEL org.opencontainers.image.created="2024-12-05T08:04:19Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:07Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/multiqc_custom_biotype/.config.vsh.yaml b/target/executable/multiqc_custom_biotype/.config.vsh.yaml index d1c045c..35d6d29 100644 --- a/target/executable/multiqc_custom_biotype/.config.vsh.yaml +++ b/target/executable/multiqc_custom_biotype/.config.vsh.yaml @@ -170,8 +170,8 @@ build_info: output: "target/executable/multiqc_custom_biotype" executable: "target/executable/multiqc_custom_biotype/multiqc_custom_biotype" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/multiqc_custom_biotype/multiqc_custom_biotype b/target/executable/multiqc_custom_biotype/multiqc_custom_biotype index 0de64f7..4b7d5f5 100755 --- a/target/executable/multiqc_custom_biotype/multiqc_custom_biotype +++ b/target/executable/multiqc_custom_biotype/multiqc_custom_biotype @@ -476,9 +476,9 @@ function ViashDockerfile { FROM python:latest ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component multiqc_custom_biotype" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:10Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/picard_markduplicates/.config.vsh.yaml b/target/executable/picard_markduplicates/.config.vsh.yaml index a0df7f4..5632556 100644 --- a/target/executable/picard_markduplicates/.config.vsh.yaml +++ b/target/executable/picard_markduplicates/.config.vsh.yaml @@ -212,8 +212,8 @@ build_info: output: "target/executable/picard_markduplicates" executable: "target/executable/picard_markduplicates/picard_markduplicates" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/picard_markduplicates/picard_markduplicates b/target/executable/picard_markduplicates/picard_markduplicates index 8b9ca9a..ad4fef5 100755 --- a/target/executable/picard_markduplicates/picard_markduplicates +++ b/target/executable/picard_markduplicates/picard_markduplicates @@ -494,9 +494,9 @@ wget --no-check-certificate https://github.com/broadinstitute/picard/releases/do mv picard.jar /usr/local/bin LABEL org.opencontainers.image.description="Companion container for running component picard_markduplicates" -LABEL org.opencontainers.image.created="2024-12-05T08:04:20Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:08Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/prepare_multiqc_input/.config.vsh.yaml b/target/executable/prepare_multiqc_input/.config.vsh.yaml index e115ee4..f8af77d 100644 --- a/target/executable/prepare_multiqc_input/.config.vsh.yaml +++ b/target/executable/prepare_multiqc_input/.config.vsh.yaml @@ -417,8 +417,8 @@ build_info: output: "target/executable/prepare_multiqc_input" executable: "target/executable/prepare_multiqc_input/prepare_multiqc_input" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/prepare_multiqc_input/prepare_multiqc_input b/target/executable/prepare_multiqc_input/prepare_multiqc_input index 964b57e..750e0d9 100755 --- a/target/executable/prepare_multiqc_input/prepare_multiqc_input +++ b/target/executable/prepare_multiqc_input/prepare_multiqc_input @@ -558,9 +558,9 @@ function ViashDockerfile { FROM ubuntu:22.04 ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component prepare_multiqc_input" -LABEL org.opencontainers.image.created="2024-12-05T08:04:18Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:06Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml b/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml index 9d4d79e..a56f702 100644 --- a/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml +++ b/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml @@ -143,8 +143,8 @@ build_info: output: "target/executable/preprocess_transcripts_fasta" executable: "target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta b/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta index 18a0f48..ba18b17 100755 --- a/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta +++ b/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta @@ -462,9 +462,9 @@ function ViashDockerfile { FROM ubuntu:22.04 ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component preprocess_transcripts_fasta" -LABEL org.opencontainers.image.created="2024-12-05T08:04:20Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:08Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/preseq_lcextrap/.config.vsh.yaml b/target/executable/preseq_lcextrap/.config.vsh.yaml index d76c7c3..079af22 100644 --- a/target/executable/preseq_lcextrap/.config.vsh.yaml +++ b/target/executable/preseq_lcextrap/.config.vsh.yaml @@ -196,8 +196,8 @@ build_info: output: "target/executable/preseq_lcextrap" executable: "target/executable/preseq_lcextrap/preseq_lcextrap" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/preseq_lcextrap/preseq_lcextrap b/target/executable/preseq_lcextrap/preseq_lcextrap index 9384191..a294a76 100755 --- a/target/executable/preseq_lcextrap/preseq_lcextrap +++ b/target/executable/preseq_lcextrap/preseq_lcextrap @@ -495,9 +495,9 @@ mkdir build && cd build && \ make && make install && make HAVE_HTSLIB=1 all LABEL org.opencontainers.image.description="Companion container for running component preseq_lcextrap" -LABEL org.opencontainers.image.created="2024-12-05T08:04:19Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:07Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rsem_merge_counts/.config.vsh.yaml b/target/executable/rsem_merge_counts/.config.vsh.yaml index 8170704..9d5d363 100644 --- a/target/executable/rsem_merge_counts/.config.vsh.yaml +++ b/target/executable/rsem_merge_counts/.config.vsh.yaml @@ -186,8 +186,8 @@ build_info: output: "target/executable/rsem_merge_counts" executable: "target/executable/rsem_merge_counts/rsem_merge_counts" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rsem_merge_counts/rsem_merge_counts b/target/executable/rsem_merge_counts/rsem_merge_counts index 16f1ecf..5fba3a5 100755 --- a/target/executable/rsem_merge_counts/rsem_merge_counts +++ b/target/executable/rsem_merge_counts/rsem_merge_counts @@ -483,9 +483,9 @@ function ViashDockerfile { FROM ubuntu:22.04 ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component rsem_merge_counts" -LABEL org.opencontainers.image.created="2024-12-05T08:04:21Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:09Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml b/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml index 58b9398..87395d4 100644 --- a/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml @@ -265,8 +265,8 @@ build_info: output: "target/executable/rseqc/rseqc_junctionannotation" executable: "target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation b/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation index a6b8d6c..7ecaa09 100755 --- a/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation +++ b/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation @@ -519,9 +519,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_junctionannotation" -LABEL org.opencontainers.image.created="2024-12-05T08:04:21Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:09Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml b/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml index c8fcd28..e164814 100644 --- a/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml @@ -254,8 +254,8 @@ build_info: output: "target/executable/rseqc/rseqc_junctionsaturation" executable: "target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation b/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation index 019c544..c174b4e 100755 --- a/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation +++ b/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation @@ -522,9 +522,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_junctionsaturation" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:10Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml b/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml index ae89023..36d8c40 100644 --- a/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml @@ -167,8 +167,8 @@ build_info: output: "target/executable/rseqc/rseqc_readdistribution" executable: "target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution b/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution index 7ea1f7c..765fdb2 100755 --- a/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution +++ b/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution @@ -474,9 +474,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_readdistribution" -LABEL org.opencontainers.image.created="2024-12-05T08:04:21Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:09Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml b/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml index c423fcb..7a42440 100644 --- a/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml @@ -216,8 +216,8 @@ build_info: output: "target/executable/rseqc/rseqc_readduplication" executable: "target/executable/rseqc/rseqc_readduplication/rseqc_readduplication" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication b/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication index bd49844..90e4898 100755 --- a/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication +++ b/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication @@ -499,9 +499,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_readduplication" -LABEL org.opencontainers.image.created="2024-12-05T08:04:20Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:08Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_tin/.config.vsh.yaml b/target/executable/rseqc/rseqc_tin/.config.vsh.yaml index affeb50..f5fb845 100644 --- a/target/executable/rseqc/rseqc_tin/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_tin/.config.vsh.yaml @@ -219,8 +219,8 @@ build_info: output: "target/executable/rseqc/rseqc_tin" executable: "target/executable/rseqc/rseqc_tin/rseqc_tin" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/rseqc/rseqc_tin/rseqc_tin b/target/executable/rseqc/rseqc_tin/rseqc_tin index abee8ad..714b54a 100755 --- a/target/executable/rseqc/rseqc_tin/rseqc_tin +++ b/target/executable/rseqc/rseqc_tin/rseqc_tin @@ -501,9 +501,9 @@ RUN apt-get update && \ RUN pip3 install RSeQC LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_tin" -LABEL org.opencontainers.image.created="2024-12-05T08:04:21Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:09Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/sortmerna/.config.vsh.yaml b/target/executable/sortmerna/.config.vsh.yaml index aac02a2..ed97ba4 100644 --- a/target/executable/sortmerna/.config.vsh.yaml +++ b/target/executable/sortmerna/.config.vsh.yaml @@ -197,8 +197,8 @@ build_info: output: "target/executable/sortmerna" executable: "target/executable/sortmerna/sortmerna" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/sortmerna/sortmerna b/target/executable/sortmerna/sortmerna index efbbe2c..9fe11d7 100755 --- a/target/executable/sortmerna/sortmerna +++ b/target/executable/sortmerna/sortmerna @@ -486,9 +486,9 @@ function ViashDockerfile { FROM quay.io/biocontainers/sortmerna:4.3.6--h9ee0642_0 ENTRYPOINT [] LABEL org.opencontainers.image.description="Companion container for running component sortmerna" -LABEL org.opencontainers.image.created="2024-12-05T08:04:25Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:13Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/stringtie/.config.vsh.yaml b/target/executable/stringtie/.config.vsh.yaml index 127c840..18571dc 100644 --- a/target/executable/stringtie/.config.vsh.yaml +++ b/target/executable/stringtie/.config.vsh.yaml @@ -221,8 +221,8 @@ build_info: output: "target/executable/stringtie" executable: "target/executable/stringtie/stringtie" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/stringtie/stringtie b/target/executable/stringtie/stringtie index 10171ca..b32cb3d 100755 --- a/target/executable/stringtie/stringtie +++ b/target/executable/stringtie/stringtie @@ -496,9 +496,9 @@ tar -xzf stringtie-2.2.1.Linux_x86_64.tar.gz && \ cp stringtie-2.2.1.Linux_x86_64/stringtie /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component stringtie" -LABEL org.opencontainers.image.created="2024-12-05T08:04:25Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:13Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/summarizedexperiment/.config.vsh.yaml b/target/executable/summarizedexperiment/.config.vsh.yaml index 7b8ce5a..dfcdff8 100644 --- a/target/executable/summarizedexperiment/.config.vsh.yaml +++ b/target/executable/summarizedexperiment/.config.vsh.yaml @@ -204,8 +204,8 @@ build_info: output: "target/executable/summarizedexperiment" executable: "target/executable/summarizedexperiment/summarizedexperiment" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/summarizedexperiment/summarizedexperiment b/target/executable/summarizedexperiment/summarizedexperiment index 2bb4614..dfeecc1 100755 --- a/target/executable/summarizedexperiment/summarizedexperiment +++ b/target/executable/summarizedexperiment/summarizedexperiment @@ -487,9 +487,9 @@ RUN Rscript -e 'if (!requireNamespace("BiocManager", quietly = TRUE)) install.pa Rscript -e 'if (!requireNamespace("tximeta", quietly = TRUE)) BiocManager::install("tximeta")' LABEL org.opencontainers.image.description="Companion container for running component summarizedexperiment" -LABEL org.opencontainers.image.created="2024-12-05T08:04:24Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:13Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/tx2gene/.config.vsh.yaml b/target/executable/tx2gene/.config.vsh.yaml index 3552d7b..0fcdc6d 100644 --- a/target/executable/tx2gene/.config.vsh.yaml +++ b/target/executable/tx2gene/.config.vsh.yaml @@ -190,8 +190,8 @@ build_info: output: "target/executable/tx2gene" executable: "target/executable/tx2gene/tx2gene" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/tx2gene/tx2gene b/target/executable/tx2gene/tx2gene index 00f16c7..e06aaab 100755 --- a/target/executable/tx2gene/tx2gene +++ b/target/executable/tx2gene/tx2gene @@ -483,9 +483,9 @@ RUN apt-get update && \ RUN pip install --upgrade pip LABEL org.opencontainers.image.description="Companion container for running component tx2gene" -LABEL org.opencontainers.image.created="2024-12-05T08:04:23Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/tximport/.config.vsh.yaml b/target/executable/tximport/.config.vsh.yaml index 878235a..285fc77 100644 --- a/target/executable/tximport/.config.vsh.yaml +++ b/target/executable/tximport/.config.vsh.yaml @@ -256,8 +256,8 @@ build_info: output: "target/executable/tximport" executable: "target/executable/tximport/tximport" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/tximport/tximport b/target/executable/tximport/tximport index ded7b98..96be464 100755 --- a/target/executable/tximport/tximport +++ b/target/executable/tximport/tximport @@ -508,9 +508,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag Rscript -e 'remotes::install_cran(c("jsonlite"), repos = "https://cran.rstudio.com")' LABEL org.opencontainers.image.description="Companion container for running component tximport" -LABEL org.opencontainers.image.created="2024-12-05T08:04:24Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:12Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/ucsc/bedclip/.config.vsh.yaml b/target/executable/ucsc/bedclip/.config.vsh.yaml index 3f30324..b9e743f 100644 --- a/target/executable/ucsc/bedclip/.config.vsh.yaml +++ b/target/executable/ucsc/bedclip/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/executable/ucsc/bedclip" executable: "target/executable/ucsc/bedclip/bedclip" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/ucsc/bedclip/bedclip b/target/executable/ucsc/bedclip/bedclip index 5c2756e..063101b 100755 --- a/target/executable/ucsc/bedclip/bedclip +++ b/target/executable/ucsc/bedclip/bedclip @@ -473,9 +473,9 @@ RUN apt-get update && \ RUN rsync -aP rsync://hgdownload.soe.ucsc.edu/genome/admin/exe/linux.x86_64/bedClip /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component ucsc bedclip" -LABEL org.opencontainers.image.created="2024-12-05T08:04:22Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml b/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml index 5145e0c..5deba06 100644 --- a/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml +++ b/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/executable/ucsc/bedgraphtobigwig" executable: "target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig b/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig index b9d5fe3..d4fa00f 100755 --- a/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig +++ b/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig @@ -473,9 +473,9 @@ RUN apt-get update && \ RUN rsync -aP rsync://hgdownload.soe.ucsc.edu/genome/admin/exe/linux.x86_64/bedGraphToBigWig /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component ucsc bedgraphtobigwig" -LABEL org.opencontainers.image.created="2024-12-05T08:04:23Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="4adb388c7d928eea02bccf890214f3b932b08714" +LABEL org.opencontainers.image.created="2024-12-05T14:40:11Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="2b3d511b34246648b934fd1dc99b22e0a71c37f2" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml b/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml index 91cd5e3..453a60e 100644 --- a/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml +++ b/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml @@ -595,8 +595,8 @@ build_info: output: "target/executable/workflows/genome_alignment_and_quant" executable: "target/executable/workflows/genome_alignment_and_quant/genome_alignment_and_quant" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/star/star_align_reads" - "target/dependencies/vsh/vsh/biobox/main/nextflow/samtools/samtools_sort" diff --git a/target/executable/workflows/merge_quant_results/.config.vsh.yaml b/target/executable/workflows/merge_quant_results/.config.vsh.yaml index 7cab2af..c3dad7b 100644 --- a/target/executable/workflows/merge_quant_results/.config.vsh.yaml +++ b/target/executable/workflows/merge_quant_results/.config.vsh.yaml @@ -283,8 +283,8 @@ build_info: output: "target/executable/workflows/merge_quant_results" executable: "target/executable/workflows/merge_quant_results/merge_quant_results" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/tx2gene" - "target/nextflow/tximport" diff --git a/target/executable/workflows/post_processing/.config.vsh.yaml b/target/executable/workflows/post_processing/.config.vsh.yaml index eb42de8..f4b8235 100644 --- a/target/executable/workflows/post_processing/.config.vsh.yaml +++ b/target/executable/workflows/post_processing/.config.vsh.yaml @@ -482,8 +482,8 @@ build_info: output: "target/executable/workflows/post_processing" executable: "target/executable/workflows/post_processing/post_processing" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/picard_markduplicates" - "target/dependencies/vsh/vsh/biobox/main/nextflow/samtools/samtools_sort" diff --git a/target/executable/workflows/pre_processing/.config.vsh.yaml b/target/executable/workflows/pre_processing/.config.vsh.yaml index eb88689..ac28919 100644 --- a/target/executable/workflows/pre_processing/.config.vsh.yaml +++ b/target/executable/workflows/pre_processing/.config.vsh.yaml @@ -637,8 +637,8 @@ build_info: output: "target/executable/workflows/pre_processing" executable: "target/executable/workflows/pre_processing/pre_processing" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/fastqc" - "target/dependencies/vsh/vsh/biobox/main/nextflow/umi_tools/umi_tools_extract" diff --git a/target/executable/workflows/prepare_genome/.config.vsh.yaml b/target/executable/workflows/prepare_genome/.config.vsh.yaml index b0439f3..18455ef 100644 --- a/target/executable/workflows/prepare_genome/.config.vsh.yaml +++ b/target/executable/workflows/prepare_genome/.config.vsh.yaml @@ -507,8 +507,8 @@ build_info: output: "target/executable/workflows/prepare_genome" executable: "target/executable/workflows/prepare_genome/prepare_genome" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/gunzip" - "target/dependencies/vsh/vsh/biobox/main/nextflow/gffread" diff --git a/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml b/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml index b10de4e..0b217b3 100644 --- a/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml +++ b/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml @@ -290,8 +290,8 @@ build_info: output: "target/executable/workflows/pseudo_alignment_and_quant" executable: "target/executable/workflows/pseudo_alignment_and_quant/pseudo_alignment_and_quant" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/salmon/salmon_quant" - "target/dependencies/vsh/vsh/biobox/main/nextflow/kallisto/kallisto_quant" diff --git a/target/executable/workflows/quality_control/.config.vsh.yaml b/target/executable/workflows/quality_control/.config.vsh.yaml index 56be1a2..9b0d90b 100644 --- a/target/executable/workflows/quality_control/.config.vsh.yaml +++ b/target/executable/workflows/quality_control/.config.vsh.yaml @@ -1561,8 +1561,8 @@ build_info: output: "target/executable/workflows/quality_control" executable: "target/executable/workflows/quality_control/quality_control" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/rseqc/rseqc_bamstat" - "target/dependencies/vsh/vsh/biobox/main/nextflow/rseqc/rseqc_inferexperiment" diff --git a/target/executable/workflows/rnaseq/.config.vsh.yaml b/target/executable/workflows/rnaseq/.config.vsh.yaml index c100f6c..96a58fa 100644 --- a/target/executable/workflows/rnaseq/.config.vsh.yaml +++ b/target/executable/workflows/rnaseq/.config.vsh.yaml @@ -2059,8 +2059,8 @@ build_info: output: "target/executable/workflows/rnaseq" executable: "target/executable/workflows/rnaseq/rnaseq" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/workflows/prepare_genome" - "target/nextflow/cat_fastq" diff --git a/target/nextflow/bedtools_genomecov/.config.vsh.yaml b/target/nextflow/bedtools_genomecov/.config.vsh.yaml index 8948d7e..927ae6f 100644 --- a/target/nextflow/bedtools_genomecov/.config.vsh.yaml +++ b/target/nextflow/bedtools_genomecov/.config.vsh.yaml @@ -183,8 +183,8 @@ build_info: output: "target/nextflow/bedtools_genomecov" executable: "target/nextflow/bedtools_genomecov/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/bedtools_genomecov/main.nf b/target/nextflow/bedtools_genomecov/main.nf index 606d3ec..4843411 100644 --- a/target/nextflow/bedtools_genomecov/main.nf +++ b/target/nextflow/bedtools_genomecov/main.nf @@ -3039,8 +3039,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/bedtools_genomecov", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/cat_additional_fasta/.config.vsh.yaml b/target/nextflow/cat_additional_fasta/.config.vsh.yaml index 2a27bf9..cddda7c 100644 --- a/target/nextflow/cat_additional_fasta/.config.vsh.yaml +++ b/target/nextflow/cat_additional_fasta/.config.vsh.yaml @@ -187,8 +187,8 @@ build_info: output: "target/nextflow/cat_additional_fasta" executable: "target/nextflow/cat_additional_fasta/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/cat_additional_fasta/main.nf b/target/nextflow/cat_additional_fasta/main.nf index cb50f64..bf7a1f3 100644 --- a/target/nextflow/cat_additional_fasta/main.nf +++ b/target/nextflow/cat_additional_fasta/main.nf @@ -3040,8 +3040,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/cat_additional_fasta", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/cat_fastq/.config.vsh.yaml b/target/nextflow/cat_fastq/.config.vsh.yaml index 6181966..e6f343c 100644 --- a/target/nextflow/cat_fastq/.config.vsh.yaml +++ b/target/nextflow/cat_fastq/.config.vsh.yaml @@ -174,8 +174,8 @@ build_info: output: "target/nextflow/cat_fastq" executable: "target/nextflow/cat_fastq/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/cat_fastq/main.nf b/target/nextflow/cat_fastq/main.nf index d15ec20..030df54 100644 --- a/target/nextflow/cat_fastq/main.nf +++ b/target/nextflow/cat_fastq/main.nf @@ -3031,8 +3031,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/cat_fastq", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/deseq2_qc/.config.vsh.yaml b/target/nextflow/deseq2_qc/.config.vsh.yaml index bd3f80c..24d3334 100644 --- a/target/nextflow/deseq2_qc/.config.vsh.yaml +++ b/target/nextflow/deseq2_qc/.config.vsh.yaml @@ -242,8 +242,8 @@ build_info: output: "target/nextflow/deseq2_qc" executable: "target/nextflow/deseq2_qc/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/deseq2_qc/main.nf b/target/nextflow/deseq2_qc/main.nf index 7a27021..e096b11 100644 --- a/target/nextflow/deseq2_qc/main.nf +++ b/target/nextflow/deseq2_qc/main.nf @@ -3112,8 +3112,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/deseq2_qc", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/dupradar/.config.vsh.yaml b/target/nextflow/dupradar/.config.vsh.yaml index da5ef34..1922fbc 100644 --- a/target/nextflow/dupradar/.config.vsh.yaml +++ b/target/nextflow/dupradar/.config.vsh.yaml @@ -271,8 +271,8 @@ build_info: output: "target/nextflow/dupradar" executable: "target/nextflow/dupradar/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/dupradar/main.nf b/target/nextflow/dupradar/main.nf index 5ce3e0c..403868e 100644 --- a/target/nextflow/dupradar/main.nf +++ b/target/nextflow/dupradar/main.nf @@ -3144,8 +3144,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/dupradar", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/getchromsizes/.config.vsh.yaml b/target/nextflow/getchromsizes/.config.vsh.yaml index 172ce00..a03c7e0 100644 --- a/target/nextflow/getchromsizes/.config.vsh.yaml +++ b/target/nextflow/getchromsizes/.config.vsh.yaml @@ -172,8 +172,8 @@ build_info: output: "target/nextflow/getchromsizes" executable: "target/nextflow/getchromsizes/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/getchromsizes/main.nf b/target/nextflow/getchromsizes/main.nf index 3fa6891..45c6af1 100644 --- a/target/nextflow/getchromsizes/main.nf +++ b/target/nextflow/getchromsizes/main.nf @@ -3021,8 +3021,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/getchromsizes", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/gtf2bed/.config.vsh.yaml b/target/nextflow/gtf2bed/.config.vsh.yaml index 53bb7f3..10eb49f 100644 --- a/target/nextflow/gtf2bed/.config.vsh.yaml +++ b/target/nextflow/gtf2bed/.config.vsh.yaml @@ -150,8 +150,8 @@ build_info: output: "target/nextflow/gtf2bed" executable: "target/nextflow/gtf2bed/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/gtf2bed/main.nf b/target/nextflow/gtf2bed/main.nf index ec554f6..74607b1 100644 --- a/target/nextflow/gtf2bed/main.nf +++ b/target/nextflow/gtf2bed/main.nf @@ -3003,8 +3003,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gtf2bed", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/gtf_filter/.config.vsh.yaml b/target/nextflow/gtf_filter/.config.vsh.yaml index 19f131a..3869914 100644 --- a/target/nextflow/gtf_filter/.config.vsh.yaml +++ b/target/nextflow/gtf_filter/.config.vsh.yaml @@ -160,8 +160,8 @@ build_info: output: "target/nextflow/gtf_filter" executable: "target/nextflow/gtf_filter/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/gtf_filter/main.nf b/target/nextflow/gtf_filter/main.nf index 24c333d..360a3fe 100644 --- a/target/nextflow/gtf_filter/main.nf +++ b/target/nextflow/gtf_filter/main.nf @@ -3011,8 +3011,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gtf_filter", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/gunzip/.config.vsh.yaml b/target/nextflow/gunzip/.config.vsh.yaml index 61057d2..2c83ab2 100644 --- a/target/nextflow/gunzip/.config.vsh.yaml +++ b/target/nextflow/gunzip/.config.vsh.yaml @@ -149,8 +149,8 @@ build_info: output: "target/nextflow/gunzip" executable: "target/nextflow/gunzip/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/gunzip/main.nf b/target/nextflow/gunzip/main.nf index 8ac2340..517e3e8 100644 --- a/target/nextflow/gunzip/main.nf +++ b/target/nextflow/gunzip/main.nf @@ -3000,8 +3000,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gunzip", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml b/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml index 883420c..8fb581f 100644 --- a/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml +++ b/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml @@ -170,8 +170,8 @@ build_info: output: "target/nextflow/multiqc_custom_biotype" executable: "target/nextflow/multiqc_custom_biotype/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/multiqc_custom_biotype/main.nf b/target/nextflow/multiqc_custom_biotype/main.nf index d2fb309..ed603dc 100644 --- a/target/nextflow/multiqc_custom_biotype/main.nf +++ b/target/nextflow/multiqc_custom_biotype/main.nf @@ -3020,8 +3020,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/multiqc_custom_biotype", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/picard_markduplicates/.config.vsh.yaml b/target/nextflow/picard_markduplicates/.config.vsh.yaml index b33107e..0f36a43 100644 --- a/target/nextflow/picard_markduplicates/.config.vsh.yaml +++ b/target/nextflow/picard_markduplicates/.config.vsh.yaml @@ -212,8 +212,8 @@ build_info: output: "target/nextflow/picard_markduplicates" executable: "target/nextflow/picard_markduplicates/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/picard_markduplicates/main.nf b/target/nextflow/picard_markduplicates/main.nf index 6df272a..6f8afbd 100644 --- a/target/nextflow/picard_markduplicates/main.nf +++ b/target/nextflow/picard_markduplicates/main.nf @@ -3071,8 +3071,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/picard_markduplicates", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/prepare_multiqc_input/.config.vsh.yaml b/target/nextflow/prepare_multiqc_input/.config.vsh.yaml index 03dca3a..590f04e 100644 --- a/target/nextflow/prepare_multiqc_input/.config.vsh.yaml +++ b/target/nextflow/prepare_multiqc_input/.config.vsh.yaml @@ -417,8 +417,8 @@ build_info: output: "target/nextflow/prepare_multiqc_input" executable: "target/nextflow/prepare_multiqc_input/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/prepare_multiqc_input/main.nf b/target/nextflow/prepare_multiqc_input/main.nf index 91a948f..aac0401 100644 --- a/target/nextflow/prepare_multiqc_input/main.nf +++ b/target/nextflow/prepare_multiqc_input/main.nf @@ -3290,8 +3290,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/prepare_multiqc_input", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml b/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml index 3da2b8a..992adc6 100644 --- a/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml +++ b/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml @@ -143,8 +143,8 @@ build_info: output: "target/nextflow/preprocess_transcripts_fasta" executable: "target/nextflow/preprocess_transcripts_fasta/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/preprocess_transcripts_fasta/main.nf b/target/nextflow/preprocess_transcripts_fasta/main.nf index b1c0ab1..2496d32 100644 --- a/target/nextflow/preprocess_transcripts_fasta/main.nf +++ b/target/nextflow/preprocess_transcripts_fasta/main.nf @@ -2990,8 +2990,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/preprocess_transcripts_fasta", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/preseq_lcextrap/.config.vsh.yaml b/target/nextflow/preseq_lcextrap/.config.vsh.yaml index 343be29..3cadd56 100644 --- a/target/nextflow/preseq_lcextrap/.config.vsh.yaml +++ b/target/nextflow/preseq_lcextrap/.config.vsh.yaml @@ -196,8 +196,8 @@ build_info: output: "target/nextflow/preseq_lcextrap" executable: "target/nextflow/preseq_lcextrap/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/preseq_lcextrap/main.nf b/target/nextflow/preseq_lcextrap/main.nf index ccda8b1..09bddec 100644 --- a/target/nextflow/preseq_lcextrap/main.nf +++ b/target/nextflow/preseq_lcextrap/main.nf @@ -3043,8 +3043,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/preseq_lcextrap", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rsem_merge_counts/.config.vsh.yaml b/target/nextflow/rsem_merge_counts/.config.vsh.yaml index 946dc0a..8b1c871 100644 --- a/target/nextflow/rsem_merge_counts/.config.vsh.yaml +++ b/target/nextflow/rsem_merge_counts/.config.vsh.yaml @@ -186,8 +186,8 @@ build_info: output: "target/nextflow/rsem_merge_counts" executable: "target/nextflow/rsem_merge_counts/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rsem_merge_counts/main.nf b/target/nextflow/rsem_merge_counts/main.nf index 68905e8..93c63b4 100644 --- a/target/nextflow/rsem_merge_counts/main.nf +++ b/target/nextflow/rsem_merge_counts/main.nf @@ -3035,8 +3035,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rsem_merge_counts", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml index f0e95d3..ff63b15 100644 --- a/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml @@ -265,8 +265,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_junctionannotation" executable: "target/nextflow/rseqc/rseqc_junctionannotation/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rseqc/rseqc_junctionannotation/main.nf b/target/nextflow/rseqc/rseqc_junctionannotation/main.nf index 40c0b28..60e0235 100644 --- a/target/nextflow/rseqc/rseqc_junctionannotation/main.nf +++ b/target/nextflow/rseqc/rseqc_junctionannotation/main.nf @@ -3136,8 +3136,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_junctionannotation", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml index 2bbf914..730be0b 100644 --- a/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml @@ -254,8 +254,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_junctionsaturation" executable: "target/nextflow/rseqc/rseqc_junctionsaturation/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf b/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf index fd9486b..d4b9117 100644 --- a/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf +++ b/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf @@ -3121,8 +3121,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_junctionsaturation", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml index 123d5e1..8bf4ffa 100644 --- a/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml @@ -167,8 +167,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_readdistribution" executable: "target/nextflow/rseqc/rseqc_readdistribution/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rseqc/rseqc_readdistribution/main.nf b/target/nextflow/rseqc/rseqc_readdistribution/main.nf index 030d607..f54c84a 100644 --- a/target/nextflow/rseqc/rseqc_readdistribution/main.nf +++ b/target/nextflow/rseqc/rseqc_readdistribution/main.nf @@ -3025,8 +3025,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_readdistribution", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml index ec69d29..a0bc18d 100644 --- a/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml @@ -216,8 +216,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_readduplication" executable: "target/nextflow/rseqc/rseqc_readduplication/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rseqc/rseqc_readduplication/main.nf b/target/nextflow/rseqc/rseqc_readduplication/main.nf index 81737b1..ed19510 100644 --- a/target/nextflow/rseqc/rseqc_readduplication/main.nf +++ b/target/nextflow/rseqc/rseqc_readduplication/main.nf @@ -3079,8 +3079,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_readduplication", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml index d6218ad..13b5030 100644 --- a/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml @@ -219,8 +219,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_tin" executable: "target/nextflow/rseqc/rseqc_tin/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/rseqc/rseqc_tin/main.nf b/target/nextflow/rseqc/rseqc_tin/main.nf index a7b945d..f4d00b8 100644 --- a/target/nextflow/rseqc/rseqc_tin/main.nf +++ b/target/nextflow/rseqc/rseqc_tin/main.nf @@ -3084,8 +3084,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_tin", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/sortmerna/.config.vsh.yaml b/target/nextflow/sortmerna/.config.vsh.yaml index 6e88fca..925ae25 100644 --- a/target/nextflow/sortmerna/.config.vsh.yaml +++ b/target/nextflow/sortmerna/.config.vsh.yaml @@ -197,8 +197,8 @@ build_info: output: "target/nextflow/sortmerna" executable: "target/nextflow/sortmerna/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/sortmerna/main.nf b/target/nextflow/sortmerna/main.nf index 914d3f4..965d599 100644 --- a/target/nextflow/sortmerna/main.nf +++ b/target/nextflow/sortmerna/main.nf @@ -3050,8 +3050,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/sortmerna", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/stringtie/.config.vsh.yaml b/target/nextflow/stringtie/.config.vsh.yaml index f12ff86..57c04ca 100644 --- a/target/nextflow/stringtie/.config.vsh.yaml +++ b/target/nextflow/stringtie/.config.vsh.yaml @@ -221,8 +221,8 @@ build_info: output: "target/nextflow/stringtie" executable: "target/nextflow/stringtie/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/stringtie/main.nf b/target/nextflow/stringtie/main.nf index e03a68b..71b973e 100644 --- a/target/nextflow/stringtie/main.nf +++ b/target/nextflow/stringtie/main.nf @@ -3081,8 +3081,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/stringtie", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/summarizedexperiment/.config.vsh.yaml b/target/nextflow/summarizedexperiment/.config.vsh.yaml index fab4c5e..d796168 100644 --- a/target/nextflow/summarizedexperiment/.config.vsh.yaml +++ b/target/nextflow/summarizedexperiment/.config.vsh.yaml @@ -204,8 +204,8 @@ build_info: output: "target/nextflow/summarizedexperiment" executable: "target/nextflow/summarizedexperiment/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/summarizedexperiment/main.nf b/target/nextflow/summarizedexperiment/main.nf index 1c68f68..25faa99 100644 --- a/target/nextflow/summarizedexperiment/main.nf +++ b/target/nextflow/summarizedexperiment/main.nf @@ -3062,8 +3062,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/summarizedexperiment", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/tx2gene/.config.vsh.yaml b/target/nextflow/tx2gene/.config.vsh.yaml index 7624f3c..dcb3be9 100644 --- a/target/nextflow/tx2gene/.config.vsh.yaml +++ b/target/nextflow/tx2gene/.config.vsh.yaml @@ -190,8 +190,8 @@ build_info: output: "target/nextflow/tx2gene" executable: "target/nextflow/tx2gene/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/tx2gene/main.nf b/target/nextflow/tx2gene/main.nf index ca51b19..5135fa5 100644 --- a/target/nextflow/tx2gene/main.nf +++ b/target/nextflow/tx2gene/main.nf @@ -3051,8 +3051,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/tx2gene", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/tximport/.config.vsh.yaml b/target/nextflow/tximport/.config.vsh.yaml index 5ab5684..6400329 100644 --- a/target/nextflow/tximport/.config.vsh.yaml +++ b/target/nextflow/tximport/.config.vsh.yaml @@ -256,8 +256,8 @@ build_info: output: "target/nextflow/tximport" executable: "target/nextflow/tximport/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/tximport/main.nf b/target/nextflow/tximport/main.nf index a5a90e8..f09513f 100644 --- a/target/nextflow/tximport/main.nf +++ b/target/nextflow/tximport/main.nf @@ -3129,8 +3129,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/tximport", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/ucsc/bedclip/.config.vsh.yaml b/target/nextflow/ucsc/bedclip/.config.vsh.yaml index 8dd6684..adff639 100644 --- a/target/nextflow/ucsc/bedclip/.config.vsh.yaml +++ b/target/nextflow/ucsc/bedclip/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/nextflow/ucsc/bedclip" executable: "target/nextflow/ucsc/bedclip/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/ucsc/bedclip/main.nf b/target/nextflow/ucsc/bedclip/main.nf index 41a248b..fccf61b 100644 --- a/target/nextflow/ucsc/bedclip/main.nf +++ b/target/nextflow/ucsc/bedclip/main.nf @@ -3026,8 +3026,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/ucsc/bedclip", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml b/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml index 520313a..26ce089 100644 --- a/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml +++ b/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/nextflow/ucsc/bedgraphtobigwig" executable: "target/nextflow/ucsc/bedgraphtobigwig/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" package_config: name: "rnaseq" version: "main" diff --git a/target/nextflow/ucsc/bedgraphtobigwig/main.nf b/target/nextflow/ucsc/bedgraphtobigwig/main.nf index be1235c..4308aa4 100644 --- a/target/nextflow/ucsc/bedgraphtobigwig/main.nf +++ b/target/nextflow/ucsc/bedgraphtobigwig/main.nf @@ -3026,8 +3026,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/ucsc/bedgraphtobigwig", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml b/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml index 28382bb..4d74276 100644 --- a/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml +++ b/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml @@ -595,8 +595,8 @@ build_info: output: "target/nextflow/workflows/genome_alignment_and_quant" executable: "target/nextflow/workflows/genome_alignment_and_quant/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/star/star_align_reads" - "target/dependencies/vsh/vsh/biobox/main/nextflow/samtools/samtools_sort" diff --git a/target/nextflow/workflows/genome_alignment_and_quant/main.nf b/target/nextflow/workflows/genome_alignment_and_quant/main.nf index 7fa356c..772405c 100644 --- a/target/nextflow/workflows/genome_alignment_and_quant/main.nf +++ b/target/nextflow/workflows/genome_alignment_and_quant/main.nf @@ -3524,8 +3524,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/genome_alignment_and_quant", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml b/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml index cbe8021..40a58b2 100644 --- a/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml +++ b/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml @@ -283,8 +283,8 @@ build_info: output: "target/nextflow/workflows/merge_quant_results" executable: "target/nextflow/workflows/merge_quant_results/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/tx2gene" - "target/nextflow/tximport" diff --git a/target/nextflow/workflows/merge_quant_results/main.nf b/target/nextflow/workflows/merge_quant_results/main.nf index cf9d08f..651372c 100644 --- a/target/nextflow/workflows/merge_quant_results/main.nf +++ b/target/nextflow/workflows/merge_quant_results/main.nf @@ -3157,8 +3157,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/merge_quant_results", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/post_processing/.config.vsh.yaml b/target/nextflow/workflows/post_processing/.config.vsh.yaml index a71d81c..ca50c5e 100644 --- a/target/nextflow/workflows/post_processing/.config.vsh.yaml +++ b/target/nextflow/workflows/post_processing/.config.vsh.yaml @@ -482,8 +482,8 @@ build_info: output: "target/nextflow/workflows/post_processing" executable: "target/nextflow/workflows/post_processing/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/picard_markduplicates" - "target/dependencies/vsh/vsh/biobox/main/nextflow/samtools/samtools_sort" diff --git a/target/nextflow/workflows/post_processing/main.nf b/target/nextflow/workflows/post_processing/main.nf index ef2fbda..38a7533 100644 --- a/target/nextflow/workflows/post_processing/main.nf +++ b/target/nextflow/workflows/post_processing/main.nf @@ -3395,8 +3395,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/post_processing", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/pre_processing/.config.vsh.yaml b/target/nextflow/workflows/pre_processing/.config.vsh.yaml index 8423cdf..daeae54 100644 --- a/target/nextflow/workflows/pre_processing/.config.vsh.yaml +++ b/target/nextflow/workflows/pre_processing/.config.vsh.yaml @@ -637,8 +637,8 @@ build_info: output: "target/nextflow/workflows/pre_processing" executable: "target/nextflow/workflows/pre_processing/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/fastqc" - "target/dependencies/vsh/vsh/biobox/main/nextflow/umi_tools/umi_tools_extract" diff --git a/target/nextflow/workflows/pre_processing/main.nf b/target/nextflow/workflows/pre_processing/main.nf index 80d5da5..916476f 100644 --- a/target/nextflow/workflows/pre_processing/main.nf +++ b/target/nextflow/workflows/pre_processing/main.nf @@ -3584,8 +3584,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/pre_processing", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/prepare_genome/.config.vsh.yaml b/target/nextflow/workflows/prepare_genome/.config.vsh.yaml index a784837..c4d7762 100644 --- a/target/nextflow/workflows/prepare_genome/.config.vsh.yaml +++ b/target/nextflow/workflows/prepare_genome/.config.vsh.yaml @@ -507,8 +507,8 @@ build_info: output: "target/nextflow/workflows/prepare_genome" executable: "target/nextflow/workflows/prepare_genome/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/gunzip" - "target/dependencies/vsh/vsh/biobox/main/nextflow/gffread" diff --git a/target/nextflow/workflows/prepare_genome/main.nf b/target/nextflow/workflows/prepare_genome/main.nf index 8e966fd..6804504 100644 --- a/target/nextflow/workflows/prepare_genome/main.nf +++ b/target/nextflow/workflows/prepare_genome/main.nf @@ -3425,8 +3425,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/prepare_genome", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml b/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml index 1efe08f..39b63be 100644 --- a/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml +++ b/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml @@ -290,8 +290,8 @@ build_info: output: "target/nextflow/workflows/pseudo_alignment_and_quant" executable: "target/nextflow/workflows/pseudo_alignment_and_quant/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/salmon/salmon_quant" - "target/dependencies/vsh/vsh/biobox/main/nextflow/kallisto/kallisto_quant" diff --git a/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf b/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf index f94159e..dca97f0 100644 --- a/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf +++ b/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf @@ -3153,8 +3153,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/pseudo_alignment_and_quant", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/quality_control/.config.vsh.yaml b/target/nextflow/workflows/quality_control/.config.vsh.yaml index dadf349..3349733 100644 --- a/target/nextflow/workflows/quality_control/.config.vsh.yaml +++ b/target/nextflow/workflows/quality_control/.config.vsh.yaml @@ -1561,8 +1561,8 @@ build_info: output: "target/nextflow/workflows/quality_control" executable: "target/nextflow/workflows/quality_control/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/main/nextflow/rseqc/rseqc_bamstat" - "target/dependencies/vsh/vsh/biobox/main/nextflow/rseqc/rseqc_inferexperiment" diff --git a/target/nextflow/workflows/quality_control/main.nf b/target/nextflow/workflows/quality_control/main.nf index d5184fb..d5d3597 100644 --- a/target/nextflow/workflows/quality_control/main.nf +++ b/target/nextflow/workflows/quality_control/main.nf @@ -4636,8 +4636,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/quality_control", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq", diff --git a/target/nextflow/workflows/rnaseq/.config.vsh.yaml b/target/nextflow/workflows/rnaseq/.config.vsh.yaml index 208a797..0787eab 100644 --- a/target/nextflow/workflows/rnaseq/.config.vsh.yaml +++ b/target/nextflow/workflows/rnaseq/.config.vsh.yaml @@ -2059,8 +2059,8 @@ build_info: output: "target/nextflow/workflows/rnaseq" executable: "target/nextflow/workflows/rnaseq/main.nf" viash_version: "0.9.0" - git_commit: "4adb388c7d928eea02bccf890214f3b932b08714" - git_remote: "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + git_commit: "2b3d511b34246648b934fd1dc99b22e0a71c37f2" + git_remote: "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/workflows/prepare_genome" - "target/nextflow/cat_fastq" diff --git a/target/nextflow/workflows/rnaseq/main.nf b/target/nextflow/workflows/rnaseq/main.nf index e65bcdd..6af2502 100644 --- a/target/nextflow/workflows/rnaseq/main.nf +++ b/target/nextflow/workflows/rnaseq/main.nf @@ -5227,8 +5227,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/rnaseq", "viash_version" : "0.9.0", - "git_commit" : "4adb388c7d928eea02bccf890214f3b932b08714", - "git_remote" : "https://x-access-token:ghs_MW7eJel8BXirGBmM5nVBbQvzqvrjaH0zDh8H@github.com/viash-hub/rnaseq" + "git_commit" : "2b3d511b34246648b934fd1dc99b22e0a71c37f2", + "git_remote" : "https://x-access-token:ghs_mpjpezoXRPhvITbEzvFPaxzcp8yfML2ITu9P@github.com/viash-hub/rnaseq" }, "package_config" : { "name" : "rnaseq",