From 36bd60bf4c5d66daae3543938fc797041d5d1a5b Mon Sep 17 00:00:00 2001 From: CI Date: Fri, 1 Aug 2025 11:53:04 +0000 Subject: [PATCH] Build branch main with version main (5a046ba) Build pipeline: viash-hub.htrnaseq.main-vzhp4 Source commit: https://github.com/viash-hub/htrnaseq/commit/5a046ba00351f55ce8e9f524bc329dabda0a7a14 Source message: Fix detection of FASTQ files with non-alphanumerical sample names. (#65) --- CHANGELOG.md | 2 ++ src/utils/listInputDir/main.nf | 2 +- target/executable/eset/create_eset/.config.vsh.yaml | 4 ++-- target/executable/eset/create_eset/create_eset | 4 ++-- target/executable/eset/create_fdata/.config.vsh.yaml | 4 ++-- target/executable/eset/create_fdata/create_fdata | 4 ++-- target/executable/eset/create_pdata/.config.vsh.yaml | 4 ++-- target/executable/eset/create_pdata/create_pdata | 4 ++-- .../htrnaseq/check_eset/.config.vsh.yaml | 4 ++-- .../htrnaseq/check_eset/check_eset | 4 ++-- .../check_cutadapt_output/.config.vsh.yaml | 4 ++-- .../check_cutadapt_output/check_cutadapt_output | 4 ++-- target/executable/io/publish_fastqs/.config.vsh.yaml | 4 ++-- target/executable/io/publish_fastqs/publish_fastqs | 4 ++-- target/executable/io/publish_results/.config.vsh.yaml | 4 ++-- target/executable/io/publish_results/publish_results | 4 ++-- target/executable/parallel_map/.config.vsh.yaml | 4 ++-- target/executable/parallel_map/parallel_map | 4 ++-- target/executable/report/create_report/.config.vsh.yaml | 4 ++-- target/executable/report/create_report/create_report | 4 ++-- target/executable/stats/combine_star_logs/.config.vsh.yaml | 4 ++-- target/executable/stats/combine_star_logs/combine_star_logs | 4 ++-- .../stats/generate_pool_statistics/.config.vsh.yaml | 4 ++-- .../stats/generate_pool_statistics/generate_pool_statistics | 4 ++-- .../stats/generate_well_statistics/.config.vsh.yaml | 4 ++-- .../stats/generate_well_statistics/generate_well_statistics | 4 ++-- target/executable/utils/save_params/.config.vsh.yaml | 4 ++-- target/executable/utils/save_params/save_params | 4 ++-- target/nextflow/eset/create_eset/.config.vsh.yaml | 4 ++-- target/nextflow/eset/create_eset/main.nf | 4 ++-- target/nextflow/eset/create_fdata/.config.vsh.yaml | 4 ++-- target/nextflow/eset/create_fdata/main.nf | 4 ++-- target/nextflow/eset/create_pdata/.config.vsh.yaml | 4 ++-- target/nextflow/eset/create_pdata/main.nf | 4 ++-- .../htrnaseq/check_eset/.config.vsh.yaml | 4 ++-- .../integration_test_components/htrnaseq/check_eset/main.nf | 4 ++-- .../check_cutadapt_output/.config.vsh.yaml | 4 ++-- .../well_demultiplexing/check_cutadapt_output/main.nf | 4 ++-- target/nextflow/io/publish_fastqs/.config.vsh.yaml | 4 ++-- target/nextflow/io/publish_fastqs/main.nf | 4 ++-- target/nextflow/io/publish_results/.config.vsh.yaml | 4 ++-- target/nextflow/io/publish_results/main.nf | 4 ++-- target/nextflow/parallel_map/.config.vsh.yaml | 4 ++-- target/nextflow/parallel_map/main.nf | 4 ++-- target/nextflow/report/create_report/.config.vsh.yaml | 4 ++-- target/nextflow/report/create_report/main.nf | 4 ++-- target/nextflow/stats/combine_star_logs/.config.vsh.yaml | 4 ++-- target/nextflow/stats/combine_star_logs/main.nf | 4 ++-- .../stats/generate_pool_statistics/.config.vsh.yaml | 4 ++-- target/nextflow/stats/generate_pool_statistics/main.nf | 4 ++-- .../stats/generate_well_statistics/.config.vsh.yaml | 4 ++-- target/nextflow/stats/generate_well_statistics/main.nf | 4 ++-- target/nextflow/utils/concatRuns/.config.vsh.yaml | 4 ++-- target/nextflow/utils/concatRuns/main.nf | 4 ++-- target/nextflow/utils/listInputDir/.config.vsh.yaml | 4 ++-- target/nextflow/utils/listInputDir/main.nf | 6 +++--- target/nextflow/utils/save_params/.config.vsh.yaml | 4 ++-- target/nextflow/utils/save_params/main.nf | 4 ++-- target/nextflow/workflows/htrnaseq/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/htrnaseq/main.nf | 4 ++-- target/nextflow/workflows/runner/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/runner/main.nf | 4 ++-- target/nextflow/workflows/well_demultiplex/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/well_demultiplex/main.nf | 4 ++-- target/nextflow/workflows/well_metadata/.config.vsh.yaml | 4 ++-- target/nextflow/workflows/well_metadata/main.nf | 4 ++-- 66 files changed, 132 insertions(+), 130 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index a93a43fa..65468195 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -4,6 +4,8 @@ * Reverted functionality to set `fastq_publish_dir` and `results_publish_dir` using fromState (PR #64). +* `runner`: fix detection of FASTQ files with non-numerical characters in the sample name (PR #65). + # htrnaseq v0.9.0 ## Breaking changes diff --git a/src/utils/listInputDir/main.nf b/src/utils/listInputDir/main.nf index 03c97fc3..a38acb96 100644 --- a/src/utils/listInputDir/main.nf +++ b/src/utils/listInputDir/main.nf @@ -18,7 +18,7 @@ workflow run_wf { println("Extracting information from fastq/fasta filenames") def processed_fastqs = allFastqs.collect { f -> - def regex = ~/^(\w+)_S(\d+)_(L(\d+)_)?R(\d)_(\d+)\.fast[qa](\.gz)?$/ + def regex = ~/^(\S+)_S(\d+)_(L(\d+)_)?R(\d)_(\d+)\.fast[qa](\.gz)?$/ def validFastq = f.name ==~ regex assert validFastq: "${f} does not match the regex ${regex}" diff --git a/target/executable/eset/create_eset/.config.vsh.yaml b/target/executable/eset/create_eset/.config.vsh.yaml index dd944a1d..9b5253c9 100644 --- a/target/executable/eset/create_eset/.config.vsh.yaml +++ b/target/executable/eset/create_eset/.config.vsh.yaml @@ -206,9 +206,9 @@ build_info: output: "target/executable/eset/create_eset" executable: "target/executable/eset/create_eset/create_eset" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/eset/create_eset/create_eset b/target/executable/eset/create_eset/create_eset index 13b2a5a4..9bd869de 100755 --- a/target/executable/eset/create_eset/create_eset +++ b/target/executable/eset/create_eset/create_eset @@ -456,9 +456,9 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component eset create_eset" -LABEL org.opencontainers.image.created="2025-08-01T09:22:57Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:09Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/eset/create_fdata/.config.vsh.yaml b/target/executable/eset/create_fdata/.config.vsh.yaml index 022dd4e5..c10e3d5a 100644 --- a/target/executable/eset/create_fdata/.config.vsh.yaml +++ b/target/executable/eset/create_fdata/.config.vsh.yaml @@ -183,9 +183,9 @@ build_info: output: "target/executable/eset/create_fdata" executable: "target/executable/eset/create_fdata/create_fdata" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/eset/create_fdata/create_fdata b/target/executable/eset/create_fdata/create_fdata index 5e0dc11c..7fd00475 100755 --- a/target/executable/eset/create_fdata/create_fdata +++ b/target/executable/eset/create_fdata/create_fdata @@ -458,9 +458,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component eset create_fdata" -LABEL org.opencontainers.image.created="2025-08-01T09:22:58Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:09Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/eset/create_pdata/.config.vsh.yaml b/target/executable/eset/create_pdata/.config.vsh.yaml index 44cb2ad0..a77fda95 100644 --- a/target/executable/eset/create_pdata/.config.vsh.yaml +++ b/target/executable/eset/create_pdata/.config.vsh.yaml @@ -197,9 +197,9 @@ build_info: output: "target/executable/eset/create_pdata" executable: "target/executable/eset/create_pdata/create_pdata" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/eset/create_pdata/create_pdata b/target/executable/eset/create_pdata/create_pdata index c828ebac..75f5a8ad 100755 --- a/target/executable/eset/create_pdata/create_pdata +++ b/target/executable/eset/create_pdata/create_pdata @@ -458,9 +458,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component eset create_pdata" -LABEL org.opencontainers.image.created="2025-08-01T09:22:57Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:08Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml b/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml index 6da61921..91a9ff27 100644 --- a/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml +++ b/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml @@ -155,9 +155,9 @@ build_info: output: "target/executable/integration_test_components/htrnaseq/check_eset" executable: "target/executable/integration_test_components/htrnaseq/check_eset/check_eset" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/integration_test_components/htrnaseq/check_eset/check_eset b/target/executable/integration_test_components/htrnaseq/check_eset/check_eset index 5df1c2e0..bcda1180 100755 --- a/target/executable/integration_test_components/htrnaseq/check_eset/check_eset +++ b/target/executable/integration_test_components/htrnaseq/check_eset/check_eset @@ -455,9 +455,9 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/htrnaseq check_eset" -LABEL org.opencontainers.image.created="2025-08-01T09:22:58Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:09Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml index 27f13945..c2915f31 100644 --- a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml +++ b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml @@ -164,9 +164,9 @@ build_info: output: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output" executable: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output index c3cf32b2..17282184 100755 --- a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output +++ b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output @@ -457,9 +457,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/well_demultiplexing check_cutadapt_output" -LABEL org.opencontainers.image.created="2025-08-01T09:22:58Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:09Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/io/publish_fastqs/.config.vsh.yaml b/target/executable/io/publish_fastqs/.config.vsh.yaml index 084fed81..0cedb563 100644 --- a/target/executable/io/publish_fastqs/.config.vsh.yaml +++ b/target/executable/io/publish_fastqs/.config.vsh.yaml @@ -139,9 +139,9 @@ build_info: output: "target/executable/io/publish_fastqs" executable: "target/executable/io/publish_fastqs/publish_fastqs" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/io/publish_fastqs/publish_fastqs b/target/executable/io/publish_fastqs/publish_fastqs index 758fcf92..1644c8ea 100755 --- a/target/executable/io/publish_fastqs/publish_fastqs +++ b/target/executable/io/publish_fastqs/publish_fastqs @@ -450,9 +450,9 @@ RUN apt-get update && \ rm -rf /var/lib/apt/lists/* LABEL org.opencontainers.image.description="Companion container for running component io publish_fastqs" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/io/publish_results/.config.vsh.yaml b/target/executable/io/publish_results/.config.vsh.yaml index 8edafebe..d4709343 100644 --- a/target/executable/io/publish_results/.config.vsh.yaml +++ b/target/executable/io/publish_results/.config.vsh.yaml @@ -202,9 +202,9 @@ build_info: output: "target/executable/io/publish_results" executable: "target/executable/io/publish_results/publish_results" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/io/publish_results/publish_results b/target/executable/io/publish_results/publish_results index c9ed3062..1e6a9f56 100755 --- a/target/executable/io/publish_results/publish_results +++ b/target/executable/io/publish_results/publish_results @@ -450,9 +450,9 @@ RUN apt-get update && \ rm -rf /var/lib/apt/lists/* LABEL org.opencontainers.image.description="Companion container for running component io publish_results" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/parallel_map/.config.vsh.yaml b/target/executable/parallel_map/.config.vsh.yaml index 5d397bd6..2fd123ba 100644 --- a/target/executable/parallel_map/.config.vsh.yaml +++ b/target/executable/parallel_map/.config.vsh.yaml @@ -285,9 +285,9 @@ build_info: output: "target/executable/parallel_map" executable: "target/executable/parallel_map/parallel_map" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/parallel_map/parallel_map b/target/executable/parallel_map/parallel_map index 0ca87be2..f266c8cd 100755 --- a/target/executable/parallel_map/parallel_map +++ b/target/executable/parallel_map/parallel_map @@ -461,9 +461,9 @@ ENV STAR_BINARY=STAR COPY STAR /usr/local/bin/$STAR_BINARY LABEL org.opencontainers.image.authors="Dries Schaumont, Toni Verbeiren" LABEL org.opencontainers.image.description="Companion container for running component parallel_map" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/report/create_report/.config.vsh.yaml b/target/executable/report/create_report/.config.vsh.yaml index f02fa5a7..b0c30c5c 100644 --- a/target/executable/report/create_report/.config.vsh.yaml +++ b/target/executable/report/create_report/.config.vsh.yaml @@ -215,9 +215,9 @@ build_info: output: "target/executable/report/create_report" executable: "target/executable/report/create_report/create_report" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/report/create_report/create_report b/target/executable/report/create_report/create_report index e03424e8..5ea91b0f 100755 --- a/target/executable/report/create_report/create_report +++ b/target/executable/report/create_report/create_report @@ -465,9 +465,9 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component report create_report" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/stats/combine_star_logs/.config.vsh.yaml b/target/executable/stats/combine_star_logs/.config.vsh.yaml index 2ef2c556..0558b46a 100644 --- a/target/executable/stats/combine_star_logs/.config.vsh.yaml +++ b/target/executable/stats/combine_star_logs/.config.vsh.yaml @@ -204,9 +204,9 @@ build_info: output: "target/executable/stats/combine_star_logs" executable: "target/executable/stats/combine_star_logs/combine_star_logs" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/stats/combine_star_logs/combine_star_logs b/target/executable/stats/combine_star_logs/combine_star_logs index c284e10d..bfdee003 100755 --- a/target/executable/stats/combine_star_logs/combine_star_logs +++ b/target/executable/stats/combine_star_logs/combine_star_logs @@ -457,9 +457,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont" LABEL org.opencontainers.image.description="Companion container for running component stats combine_star_logs" -LABEL org.opencontainers.image.created="2025-08-01T09:22:57Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:09Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/stats/generate_pool_statistics/.config.vsh.yaml b/target/executable/stats/generate_pool_statistics/.config.vsh.yaml index 4c63d009..a9aa302e 100644 --- a/target/executable/stats/generate_pool_statistics/.config.vsh.yaml +++ b/target/executable/stats/generate_pool_statistics/.config.vsh.yaml @@ -188,9 +188,9 @@ build_info: output: "target/executable/stats/generate_pool_statistics" executable: "target/executable/stats/generate_pool_statistics/generate_pool_statistics" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/stats/generate_pool_statistics/generate_pool_statistics b/target/executable/stats/generate_pool_statistics/generate_pool_statistics index f8fdf593..ce753fbf 100755 --- a/target/executable/stats/generate_pool_statistics/generate_pool_statistics +++ b/target/executable/stats/generate_pool_statistics/generate_pool_statistics @@ -458,9 +458,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component stats generate_pool_statistics" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/stats/generate_well_statistics/.config.vsh.yaml b/target/executable/stats/generate_well_statistics/.config.vsh.yaml index de15daff..b240b14d 100644 --- a/target/executable/stats/generate_well_statistics/.config.vsh.yaml +++ b/target/executable/stats/generate_well_statistics/.config.vsh.yaml @@ -270,9 +270,9 @@ build_info: output: "target/executable/stats/generate_well_statistics" executable: "target/executable/stats/generate_well_statistics/generate_well_statistics" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/stats/generate_well_statistics/generate_well_statistics b/target/executable/stats/generate_well_statistics/generate_well_statistics index 7147a610..fe492331 100755 --- a/target/executable/stats/generate_well_statistics/generate_well_statistics +++ b/target/executable/stats/generate_well_statistics/generate_well_statistics @@ -461,9 +461,9 @@ RUN pip install --upgrade pip && \ LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke" LABEL org.opencontainers.image.description="Companion container for running component stats generate_well_statistics" -LABEL org.opencontainers.image.created="2025-08-01T09:22:57Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:08Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/executable/utils/save_params/.config.vsh.yaml b/target/executable/utils/save_params/.config.vsh.yaml index f1709899..59781818 100644 --- a/target/executable/utils/save_params/.config.vsh.yaml +++ b/target/executable/utils/save_params/.config.vsh.yaml @@ -151,9 +151,9 @@ build_info: output: "target/executable/utils/save_params" executable: "target/executable/utils/save_params/save_params" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/executable/utils/save_params/save_params b/target/executable/utils/save_params/save_params index dd54856d..3247ce25 100755 --- a/target/executable/utils/save_params/save_params +++ b/target/executable/utils/save_params/save_params @@ -453,9 +453,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "pyyaml" LABEL org.opencontainers.image.description="Companion container for running component utils save_params" -LABEL org.opencontainers.image.created="2025-08-01T09:22:59Z" +LABEL org.opencontainers.image.created="2025-08-01T11:01:10Z" LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq" -LABEL org.opencontainers.image.revision="10d3b382d6ee8368c846736f24b076eeddfc8ce2" +LABEL org.opencontainers.image.revision="5a046ba00351f55ce8e9f524bc329dabda0a7a14" LABEL org.opencontainers.image.version="main" VIASHDOCKER diff --git a/target/nextflow/eset/create_eset/.config.vsh.yaml b/target/nextflow/eset/create_eset/.config.vsh.yaml index 2e0b42c6..79bc91a4 100644 --- a/target/nextflow/eset/create_eset/.config.vsh.yaml +++ b/target/nextflow/eset/create_eset/.config.vsh.yaml @@ -206,9 +206,9 @@ build_info: output: "target/nextflow/eset/create_eset" executable: "target/nextflow/eset/create_eset/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/eset/create_eset/main.nf b/target/nextflow/eset/create_eset/main.nf index 3a0cfcbc..709ac863 100644 --- a/target/nextflow/eset/create_eset/main.nf +++ b/target/nextflow/eset/create_eset/main.nf @@ -3309,9 +3309,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/eset/create_eset", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/eset/create_fdata/.config.vsh.yaml b/target/nextflow/eset/create_fdata/.config.vsh.yaml index b240def8..bb091f5d 100644 --- a/target/nextflow/eset/create_fdata/.config.vsh.yaml +++ b/target/nextflow/eset/create_fdata/.config.vsh.yaml @@ -183,9 +183,9 @@ build_info: output: "target/nextflow/eset/create_fdata" executable: "target/nextflow/eset/create_fdata/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/eset/create_fdata/main.nf b/target/nextflow/eset/create_fdata/main.nf index 53cafbe4..c29ecb4e 100644 --- a/target/nextflow/eset/create_fdata/main.nf +++ b/target/nextflow/eset/create_fdata/main.nf @@ -3279,9 +3279,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/eset/create_fdata", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/eset/create_pdata/.config.vsh.yaml b/target/nextflow/eset/create_pdata/.config.vsh.yaml index 80603e09..d64f16c4 100644 --- a/target/nextflow/eset/create_pdata/.config.vsh.yaml +++ b/target/nextflow/eset/create_pdata/.config.vsh.yaml @@ -197,9 +197,9 @@ build_info: output: "target/nextflow/eset/create_pdata" executable: "target/nextflow/eset/create_pdata/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/eset/create_pdata/main.nf b/target/nextflow/eset/create_pdata/main.nf index d1c8e5c1..144b4bd6 100644 --- a/target/nextflow/eset/create_pdata/main.nf +++ b/target/nextflow/eset/create_pdata/main.nf @@ -3293,9 +3293,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/eset/create_pdata", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml b/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml index 7fd6d6f4..36df22ef 100644 --- a/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml +++ b/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml @@ -155,9 +155,9 @@ build_info: output: "target/nextflow/integration_test_components/htrnaseq/check_eset" executable: "target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf b/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf index f11c0ade..2fa8adef 100644 --- a/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf +++ b/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf @@ -3233,9 +3233,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/integration_test_components/htrnaseq/check_eset", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml b/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml index 39603d6f..8cc3d8af 100644 --- a/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml +++ b/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml @@ -164,9 +164,9 @@ build_info: output: "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output" executable: "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf b/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf index 316a6ae0..e65ab534 100644 --- a/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf +++ b/target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output/main.nf @@ -3244,9 +3244,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/integration_test_components/well_demultiplexing/check_cutadapt_output", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/io/publish_fastqs/.config.vsh.yaml b/target/nextflow/io/publish_fastqs/.config.vsh.yaml index ff5a830d..23be5664 100644 --- a/target/nextflow/io/publish_fastqs/.config.vsh.yaml +++ b/target/nextflow/io/publish_fastqs/.config.vsh.yaml @@ -139,9 +139,9 @@ build_info: output: "target/nextflow/io/publish_fastqs" executable: "target/nextflow/io/publish_fastqs/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/io/publish_fastqs/main.nf b/target/nextflow/io/publish_fastqs/main.nf index d2f1a60a..5bcdc164 100644 --- a/target/nextflow/io/publish_fastqs/main.nf +++ b/target/nextflow/io/publish_fastqs/main.nf @@ -3207,9 +3207,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/io/publish_fastqs", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/io/publish_results/.config.vsh.yaml b/target/nextflow/io/publish_results/.config.vsh.yaml index b7e0b6fa..5ba18bc8 100644 --- a/target/nextflow/io/publish_results/.config.vsh.yaml +++ b/target/nextflow/io/publish_results/.config.vsh.yaml @@ -202,9 +202,9 @@ build_info: output: "target/nextflow/io/publish_results" executable: "target/nextflow/io/publish_results/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/io/publish_results/main.nf b/target/nextflow/io/publish_results/main.nf index fdcabf3d..66f89c24 100644 --- a/target/nextflow/io/publish_results/main.nf +++ b/target/nextflow/io/publish_results/main.nf @@ -3277,9 +3277,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/io/publish_results", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/parallel_map/.config.vsh.yaml b/target/nextflow/parallel_map/.config.vsh.yaml index 6af2ebe4..46b522b2 100644 --- a/target/nextflow/parallel_map/.config.vsh.yaml +++ b/target/nextflow/parallel_map/.config.vsh.yaml @@ -285,9 +285,9 @@ build_info: output: "target/nextflow/parallel_map" executable: "target/nextflow/parallel_map/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/parallel_map/main.nf b/target/nextflow/parallel_map/main.nf index 25022f83..f271204b 100644 --- a/target/nextflow/parallel_map/main.nf +++ b/target/nextflow/parallel_map/main.nf @@ -3379,9 +3379,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/parallel_map", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/report/create_report/.config.vsh.yaml b/target/nextflow/report/create_report/.config.vsh.yaml index 1e72f3da..2dfe87c7 100644 --- a/target/nextflow/report/create_report/.config.vsh.yaml +++ b/target/nextflow/report/create_report/.config.vsh.yaml @@ -215,9 +215,9 @@ build_info: output: "target/nextflow/report/create_report" executable: "target/nextflow/report/create_report/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/report/create_report/main.nf b/target/nextflow/report/create_report/main.nf index 11bab234..d5aa817a 100644 --- a/target/nextflow/report/create_report/main.nf +++ b/target/nextflow/report/create_report/main.nf @@ -3323,9 +3323,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/report/create_report", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/stats/combine_star_logs/.config.vsh.yaml b/target/nextflow/stats/combine_star_logs/.config.vsh.yaml index 9dd79712..3b2136f6 100644 --- a/target/nextflow/stats/combine_star_logs/.config.vsh.yaml +++ b/target/nextflow/stats/combine_star_logs/.config.vsh.yaml @@ -204,9 +204,9 @@ build_info: output: "target/nextflow/stats/combine_star_logs" executable: "target/nextflow/stats/combine_star_logs/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/stats/combine_star_logs/main.nf b/target/nextflow/stats/combine_star_logs/main.nf index 37832f5a..7cda6d70 100644 --- a/target/nextflow/stats/combine_star_logs/main.nf +++ b/target/nextflow/stats/combine_star_logs/main.nf @@ -3295,9 +3295,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/stats/combine_star_logs", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml b/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml index a79873fb..dee8b5fb 100644 --- a/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml +++ b/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml @@ -188,9 +188,9 @@ build_info: output: "target/nextflow/stats/generate_pool_statistics" executable: "target/nextflow/stats/generate_pool_statistics/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/stats/generate_pool_statistics/main.nf b/target/nextflow/stats/generate_pool_statistics/main.nf index d8a184b7..3cd78e9b 100644 --- a/target/nextflow/stats/generate_pool_statistics/main.nf +++ b/target/nextflow/stats/generate_pool_statistics/main.nf @@ -3279,9 +3279,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/stats/generate_pool_statistics", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml b/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml index 36b68764..e778b0e7 100644 --- a/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml +++ b/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml @@ -270,9 +270,9 @@ build_info: output: "target/nextflow/stats/generate_well_statistics" executable: "target/nextflow/stats/generate_well_statistics/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/stats/generate_well_statistics/main.nf b/target/nextflow/stats/generate_well_statistics/main.nf index 56133612..88378cf0 100644 --- a/target/nextflow/stats/generate_well_statistics/main.nf +++ b/target/nextflow/stats/generate_well_statistics/main.nf @@ -3374,9 +3374,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/stats/generate_well_statistics", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/utils/concatRuns/.config.vsh.yaml b/target/nextflow/utils/concatRuns/.config.vsh.yaml index bd567fc4..b01fa59a 100644 --- a/target/nextflow/utils/concatRuns/.config.vsh.yaml +++ b/target/nextflow/utils/concatRuns/.config.vsh.yaml @@ -160,9 +160,9 @@ build_info: output: "target/nextflow/utils/concatRuns" executable: "target/nextflow/utils/concatRuns/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" dependencies: - "target/dependencies/vsh/vsh/craftbox/v0.2.0/nextflow/concat_text" package_config: diff --git a/target/nextflow/utils/concatRuns/main.nf b/target/nextflow/utils/concatRuns/main.nf index a537de93..102d8b34 100644 --- a/target/nextflow/utils/concatRuns/main.nf +++ b/target/nextflow/utils/concatRuns/main.nf @@ -3229,9 +3229,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/utils/concatRuns", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/utils/listInputDir/.config.vsh.yaml b/target/nextflow/utils/listInputDir/.config.vsh.yaml index 725e60ff..d8d6aefe 100644 --- a/target/nextflow/utils/listInputDir/.config.vsh.yaml +++ b/target/nextflow/utils/listInputDir/.config.vsh.yaml @@ -171,9 +171,9 @@ build_info: output: "target/nextflow/utils/listInputDir" executable: "target/nextflow/utils/listInputDir/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/utils/listInputDir/main.nf b/target/nextflow/utils/listInputDir/main.nf index 2bc5ee2d..cf260d48 100644 --- a/target/nextflow/utils/listInputDir/main.nf +++ b/target/nextflow/utils/listInputDir/main.nf @@ -3239,9 +3239,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/utils/listInputDir", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", @@ -3310,7 +3310,7 @@ workflow run_wf { println("Extracting information from fastq/fasta filenames") def processed_fastqs = allFastqs.collect { f -> - def regex = ~/^(\w+)_S(\d+)_(L(\d+)_)?R(\d)_(\d+)\.fast[qa](\.gz)?$/ + def regex = ~/^(\S+)_S(\d+)_(L(\d+)_)?R(\d)_(\d+)\.fast[qa](\.gz)?$/ def validFastq = f.name ==~ regex assert validFastq: "${f} does not match the regex ${regex}" diff --git a/target/nextflow/utils/save_params/.config.vsh.yaml b/target/nextflow/utils/save_params/.config.vsh.yaml index db487a58..dc293fe1 100644 --- a/target/nextflow/utils/save_params/.config.vsh.yaml +++ b/target/nextflow/utils/save_params/.config.vsh.yaml @@ -151,9 +151,9 @@ build_info: output: "target/nextflow/utils/save_params" executable: "target/nextflow/utils/save_params/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/utils/save_params/main.nf b/target/nextflow/utils/save_params/main.nf index c13b8633..59685d27 100644 --- a/target/nextflow/utils/save_params/main.nf +++ b/target/nextflow/utils/save_params/main.nf @@ -3223,9 +3223,9 @@ meta = [ "engine" : "docker|native", "output" : "target/nextflow/utils/save_params", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/workflows/htrnaseq/.config.vsh.yaml b/target/nextflow/workflows/htrnaseq/.config.vsh.yaml index 9d3d2abe..0040842b 100644 --- a/target/nextflow/workflows/htrnaseq/.config.vsh.yaml +++ b/target/nextflow/workflows/htrnaseq/.config.vsh.yaml @@ -345,9 +345,9 @@ build_info: output: "target/nextflow/workflows/htrnaseq" executable: "target/nextflow/workflows/htrnaseq/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" dependencies: - "target/nextflow/stats/combine_star_logs" - "target/nextflow/stats/generate_pool_statistics" diff --git a/target/nextflow/workflows/htrnaseq/main.nf b/target/nextflow/workflows/htrnaseq/main.nf index dc3dd1c7..37646a73 100644 --- a/target/nextflow/workflows/htrnaseq/main.nf +++ b/target/nextflow/workflows/htrnaseq/main.nf @@ -3484,9 +3484,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/workflows/htrnaseq", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/workflows/runner/.config.vsh.yaml b/target/nextflow/workflows/runner/.config.vsh.yaml index 1f9ee3f2..0d16f0de 100644 --- a/target/nextflow/workflows/runner/.config.vsh.yaml +++ b/target/nextflow/workflows/runner/.config.vsh.yaml @@ -235,9 +235,9 @@ build_info: output: "target/nextflow/workflows/runner" executable: "target/nextflow/workflows/runner/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" dependencies: - "target/nextflow/utils/listInputDir" - "target/nextflow/workflows/htrnaseq" diff --git a/target/nextflow/workflows/runner/main.nf b/target/nextflow/workflows/runner/main.nf index 6a0023b5..c14ceaa2 100644 --- a/target/nextflow/workflows/runner/main.nf +++ b/target/nextflow/workflows/runner/main.nf @@ -3333,9 +3333,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/workflows/runner", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml b/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml index c9305d47..607a7b06 100644 --- a/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml +++ b/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml @@ -217,9 +217,9 @@ build_info: output: "target/nextflow/workflows/well_demultiplex" executable: "target/nextflow/workflows/well_demultiplex/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" dependencies: - "target/dependencies/vsh/vsh/biobox/v0.3.1/nextflow/cutadapt" - "target/dependencies/vsh/vsh/craftbox/v0.2.0/nextflow/concat_text" diff --git a/target/nextflow/workflows/well_demultiplex/main.nf b/target/nextflow/workflows/well_demultiplex/main.nf index a72807be..1de3b5de 100644 --- a/target/nextflow/workflows/well_demultiplex/main.nf +++ b/target/nextflow/workflows/well_demultiplex/main.nf @@ -3319,9 +3319,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/workflows/well_demultiplex", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq", diff --git a/target/nextflow/workflows/well_metadata/.config.vsh.yaml b/target/nextflow/workflows/well_metadata/.config.vsh.yaml index 951dac1a..e8302643 100644 --- a/target/nextflow/workflows/well_metadata/.config.vsh.yaml +++ b/target/nextflow/workflows/well_metadata/.config.vsh.yaml @@ -215,9 +215,9 @@ build_info: output: "target/nextflow/workflows/well_metadata" executable: "target/nextflow/workflows/well_metadata/main.nf" viash_version: "0.9.4" - git_commit: "10d3b382d6ee8368c846736f24b076eeddfc8ce2" + git_commit: "5a046ba00351f55ce8e9f524bc329dabda0a7a14" git_remote: "https://github.com/viash-hub/htrnaseq" - git_tag: "v0.7.2-11-g10d3b38" + git_tag: "v0.7.2-12-g5a046ba" package_config: name: "htrnaseq" version: "main" diff --git a/target/nextflow/workflows/well_metadata/main.nf b/target/nextflow/workflows/well_metadata/main.nf index 51c7f076..2a14017b 100644 --- a/target/nextflow/workflows/well_metadata/main.nf +++ b/target/nextflow/workflows/well_metadata/main.nf @@ -3299,9 +3299,9 @@ meta = [ "engine" : "native|native", "output" : "target/nextflow/workflows/well_metadata", "viash_version" : "0.9.4", - "git_commit" : "10d3b382d6ee8368c846736f24b076eeddfc8ce2", + "git_commit" : "5a046ba00351f55ce8e9f524bc329dabda0a7a14", "git_remote" : "https://github.com/viash-hub/htrnaseq", - "git_tag" : "v0.7.2-11-g10d3b38" + "git_tag" : "v0.7.2-12-g5a046ba" }, "package_config" : { "name" : "htrnaseq",