diff --git a/src/workflows/rnaseq/main.nf b/src/workflows/rnaseq/main.nf index d9e10b1..001cb86 100644 --- a/src/workflows/rnaseq/main.nf +++ b/src/workflows/rnaseq/main.nf @@ -467,9 +467,9 @@ workflow run_wf { "star_alignment": "star_alignment", "genome_bam_sorted": "genome_bam_sorted", "genome_bam_index": "genome_bam_index", - "genome_bam_stats": "samtools_stats", - "genome_bam_flagstat": "samtools_flagstat", - "genome_bam_idxstats": "samtools_idxstats", + "genome_bam_stats": "genome_bam_stats", + "genome_bam_flagstat": "genome_bam_flagstat", + "genome_bam_idxstats": "genome_bam_idxstats", "transcriptome_bam": "transcriptome_bam", "transcriptome_bam_index": "transcriptome_bam_index", "transcriptome_bam_stats": "transcriptome_bam_stats", diff --git a/target/executable/bbmap_bbsplit/.config.vsh.yaml b/target/executable/bbmap_bbsplit/.config.vsh.yaml index 9536b38..975a7d6 100644 --- a/target/executable/bbmap_bbsplit/.config.vsh.yaml +++ b/target/executable/bbmap_bbsplit/.config.vsh.yaml @@ -238,8 +238,8 @@ build_info: output: "target/executable/bbmap_bbsplit" executable: "target/executable/bbmap_bbsplit/bbmap_bbsplit" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/bbmap_bbsplit/bbmap_bbsplit b/target/executable/bbmap_bbsplit/bbmap_bbsplit index d35a10a..4084e27 100755 --- a/target/executable/bbmap_bbsplit/bbmap_bbsplit +++ b/target/executable/bbmap_bbsplit/bbmap_bbsplit @@ -506,9 +506,9 @@ tar xzf BBMap_39.01.tar.gz && \ cp -r bbmap/* /usr/local/bin LABEL org.opencontainers.image.description="Companion container for running component bbmap_bbsplit" -LABEL org.opencontainers.image.created="2024-09-30T11:51:56Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:41Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/bedtools_genomecov/.config.vsh.yaml b/target/executable/bedtools_genomecov/.config.vsh.yaml index 1ad5cfc..4d723e1 100644 --- a/target/executable/bedtools_genomecov/.config.vsh.yaml +++ b/target/executable/bedtools_genomecov/.config.vsh.yaml @@ -178,8 +178,8 @@ build_info: output: "target/executable/bedtools_genomecov" executable: "target/executable/bedtools_genomecov/bedtools_genomecov" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/bedtools_genomecov/bedtools_genomecov b/target/executable/bedtools_genomecov/bedtools_genomecov index c456c69..7368397 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="2024-09-30T11:51:57Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:42Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/cat_additional_fasta/.config.vsh.yaml b/target/executable/cat_additional_fasta/.config.vsh.yaml index 038ea3c..17bbae5 100644 --- a/target/executable/cat_additional_fasta/.config.vsh.yaml +++ b/target/executable/cat_additional_fasta/.config.vsh.yaml @@ -182,8 +182,8 @@ build_info: output: "target/executable/cat_additional_fasta" executable: "target/executable/cat_additional_fasta/cat_additional_fasta" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/cat_additional_fasta/cat_additional_fasta b/target/executable/cat_additional_fasta/cat_additional_fasta index 1e45cb3..c64662a 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="2024-09-30T11:52:05Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:50Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/cat_fastq/.config.vsh.yaml b/target/executable/cat_fastq/.config.vsh.yaml index 01aeb2b..f38b3a6 100644 --- a/target/executable/cat_fastq/.config.vsh.yaml +++ b/target/executable/cat_fastq/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/executable/cat_fastq" executable: "target/executable/cat_fastq/cat_fastq" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/cat_fastq/cat_fastq b/target/executable/cat_fastq/cat_fastq index 377b00a..9c82bd7 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="2024-09-30T11:52:05Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:50Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/deseq2_qc/.config.vsh.yaml b/target/executable/deseq2_qc/.config.vsh.yaml index 627b9eb..5c28bc7 100644 --- a/target/executable/deseq2_qc/.config.vsh.yaml +++ b/target/executable/deseq2_qc/.config.vsh.yaml @@ -237,8 +237,8 @@ build_info: output: "target/executable/deseq2_qc" executable: "target/executable/deseq2_qc/deseq2_qc" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/deseq2_qc/deseq2_qc b/target/executable/deseq2_qc/deseq2_qc index 85eaeb9..16fe7a1 100755 --- a/target/executable/deseq2_qc/deseq2_qc +++ b/target/executable/deseq2_qc/deseq2_qc @@ -502,9 +502,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag Rscript -e 'remotes::install_url(c("https://cran.r-project.org/src/contrib/Archive/matrixStats/matrixStats_1.1.0.tar.gz"), repos = "https://cran.rstudio.com")' LABEL org.opencontainers.image.description="Companion container for running component deseq2_qc" -LABEL org.opencontainers.image.created="2024-09-30T11:52:15Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:02Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/dupradar/.config.vsh.yaml b/target/executable/dupradar/.config.vsh.yaml index e2b39ad..dc7210f 100644 --- a/target/executable/dupradar/.config.vsh.yaml +++ b/target/executable/dupradar/.config.vsh.yaml @@ -266,8 +266,8 @@ build_info: output: "target/executable/dupradar" executable: "target/executable/dupradar/dupradar" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/dupradar/dupradar b/target/executable/dupradar/dupradar index 4d6fd14..fe1d19b 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="2024-09-30T11:52:06Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:52Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/fastqc/.config.vsh.yaml b/target/executable/fastqc/.config.vsh.yaml index c8906ce..de15122 100644 --- a/target/executable/fastqc/.config.vsh.yaml +++ b/target/executable/fastqc/.config.vsh.yaml @@ -198,8 +198,8 @@ build_info: output: "target/executable/fastqc" executable: "target/executable/fastqc/fastqc" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/fastqc/fastqc b/target/executable/fastqc/fastqc index 986f869..dd20cf3 100755 --- a/target/executable/fastqc/fastqc +++ b/target/executable/fastqc/fastqc @@ -490,9 +490,9 @@ RUN apt-get update && \ rm -rf /var/lib/apt/lists/* LABEL org.opencontainers.image.description="Companion container for running component fastqc" -LABEL org.opencontainers.image.created="2024-09-30T11:51:58Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:43Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/fq_subsample/.config.vsh.yaml b/target/executable/fq_subsample/.config.vsh.yaml index c8da9a3..d9f42d6 100644 --- a/target/executable/fq_subsample/.config.vsh.yaml +++ b/target/executable/fq_subsample/.config.vsh.yaml @@ -177,8 +177,8 @@ build_info: output: "target/executable/fq_subsample" executable: "target/executable/fq_subsample/fq_subsample" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/fq_subsample/fq_subsample b/target/executable/fq_subsample/fq_subsample index 795615c..d3a230c 100755 --- a/target/executable/fq_subsample/fq_subsample +++ b/target/executable/fq_subsample/fq_subsample @@ -485,9 +485,9 @@ cargo install --locked --path . && \ mv /usr/local/fq/target/release/fq /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component fq_subsample" -LABEL org.opencontainers.image.created="2024-09-30T11:51:58Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:43Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/getchromsizes/.config.vsh.yaml b/target/executable/getchromsizes/.config.vsh.yaml index e4b5817..ecf280e 100644 --- a/target/executable/getchromsizes/.config.vsh.yaml +++ b/target/executable/getchromsizes/.config.vsh.yaml @@ -167,8 +167,8 @@ build_info: output: "target/executable/getchromsizes" executable: "target/executable/getchromsizes/getchromsizes" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/getchromsizes/getchromsizes b/target/executable/getchromsizes/getchromsizes index e3d7585..aea837a 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="2024-09-30T11:51:59Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:43Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/gtf2bed/.config.vsh.yaml b/target/executable/gtf2bed/.config.vsh.yaml index c8f80a6..9122e3f 100644 --- a/target/executable/gtf2bed/.config.vsh.yaml +++ b/target/executable/gtf2bed/.config.vsh.yaml @@ -145,8 +145,8 @@ build_info: output: "target/executable/gtf2bed" executable: "target/executable/gtf2bed/gtf2bed" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/gtf2bed/gtf2bed b/target/executable/gtf2bed/gtf2bed index 123ba63..a12b252 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="2024-09-30T11:52:10Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:57Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/gtf_filter/.config.vsh.yaml b/target/executable/gtf_filter/.config.vsh.yaml index 2e05b2c..48b6483 100644 --- a/target/executable/gtf_filter/.config.vsh.yaml +++ b/target/executable/gtf_filter/.config.vsh.yaml @@ -155,8 +155,8 @@ build_info: output: "target/executable/gtf_filter" executable: "target/executable/gtf_filter/gtf_filter" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/gtf_filter/gtf_filter b/target/executable/gtf_filter/gtf_filter index aa4a75a..d748811 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="2024-09-30T11:52:14Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:00Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/gunzip/.config.vsh.yaml b/target/executable/gunzip/.config.vsh.yaml index a47aa3c..7058b79 100644 --- a/target/executable/gunzip/.config.vsh.yaml +++ b/target/executable/gunzip/.config.vsh.yaml @@ -144,8 +144,8 @@ build_info: output: "target/executable/gunzip" executable: "target/executable/gunzip/gunzip" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/gunzip/gunzip b/target/executable/gunzip/gunzip index af17014..6dd5b6b 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="2024-09-30T11:51:59Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:44Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/kallisto/kallisto_index/.config.vsh.yaml b/target/executable/kallisto/kallisto_index/.config.vsh.yaml index 4cfc04a..51beef2 100644 --- a/target/executable/kallisto/kallisto_index/.config.vsh.yaml +++ b/target/executable/kallisto/kallisto_index/.config.vsh.yaml @@ -155,8 +155,8 @@ build_info: output: "target/executable/kallisto/kallisto_index" executable: "target/executable/kallisto/kallisto_index/kallisto_index" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/kallisto/kallisto_index/kallisto_index b/target/executable/kallisto/kallisto_index/kallisto_index index 4753783..fa6fcac 100755 --- a/target/executable/kallisto/kallisto_index/kallisto_index +++ b/target/executable/kallisto/kallisto_index/kallisto_index @@ -471,9 +471,9 @@ tar -xzf kallisto_linux-v0.50.1.tar.gz && \ mv kallisto/kallisto /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component kallisto kallisto_index" -LABEL org.opencontainers.image.created="2024-09-30T11:52:12Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:59Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/kallisto/kallisto_quant/.config.vsh.yaml b/target/executable/kallisto/kallisto_quant/.config.vsh.yaml index fdbfc89..1b45318 100644 --- a/target/executable/kallisto/kallisto_quant/.config.vsh.yaml +++ b/target/executable/kallisto/kallisto_quant/.config.vsh.yaml @@ -253,8 +253,8 @@ build_info: output: "target/executable/kallisto/kallisto_quant" executable: "target/executable/kallisto/kallisto_quant/kallisto_quant" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/kallisto/kallisto_quant/kallisto_quant b/target/executable/kallisto/kallisto_quant/kallisto_quant index e9c63eb..e56181c 100755 --- a/target/executable/kallisto/kallisto_quant/kallisto_quant +++ b/target/executable/kallisto/kallisto_quant/kallisto_quant @@ -515,9 +515,9 @@ tar -xzf kallisto_linux-v0.50.1.tar.gz && \ mv kallisto/kallisto /usr/local/bin/ LABEL org.opencontainers.image.description="Companion container for running component kallisto kallisto_quant" -LABEL org.opencontainers.image.created="2024-09-30T11:52:12Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:58Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/multiqc_custom_biotype/.config.vsh.yaml b/target/executable/multiqc_custom_biotype/.config.vsh.yaml index f0636b0..1f5d81a 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/multiqc_custom_biotype/multiqc_custom_biotype b/target/executable/multiqc_custom_biotype/multiqc_custom_biotype index 95d4205..96627c6 100755 --- a/target/executable/multiqc_custom_biotype/multiqc_custom_biotype +++ b/target/executable/multiqc_custom_biotype/multiqc_custom_biotype @@ -481,9 +481,9 @@ RUN apt-get update && \ RUN pip install --upgrade pip LABEL org.opencontainers.image.description="Companion container for running component multiqc_custom_biotype" -LABEL org.opencontainers.image.created="2024-09-30T11:52:06Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:52Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/picard_markduplicates/.config.vsh.yaml b/target/executable/picard_markduplicates/.config.vsh.yaml index 1fc6a5f..b74fc09 100644 --- a/target/executable/picard_markduplicates/.config.vsh.yaml +++ b/target/executable/picard_markduplicates/.config.vsh.yaml @@ -207,8 +207,8 @@ build_info: output: "target/executable/picard_markduplicates" executable: "target/executable/picard_markduplicates/picard_markduplicates" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/picard_markduplicates/picard_markduplicates b/target/executable/picard_markduplicates/picard_markduplicates index e1abb3e..7e4175c 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="2024-09-30T11:52:14Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:01Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/prepare_multiqc_input/.config.vsh.yaml b/target/executable/prepare_multiqc_input/.config.vsh.yaml index 1ae6f60..cbdc3e8 100644 --- a/target/executable/prepare_multiqc_input/.config.vsh.yaml +++ b/target/executable/prepare_multiqc_input/.config.vsh.yaml @@ -409,8 +409,8 @@ build_info: output: "target/executable/prepare_multiqc_input" executable: "target/executable/prepare_multiqc_input/prepare_multiqc_input" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/prepare_multiqc_input/prepare_multiqc_input b/target/executable/prepare_multiqc_input/prepare_multiqc_input index 749df7b..204e162 100755 --- a/target/executable/prepare_multiqc_input/prepare_multiqc_input +++ b/target/executable/prepare_multiqc_input/prepare_multiqc_input @@ -557,9 +557,9 @@ 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="2024-09-30T11:52:10Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:56Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml b/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml index dc08e0f..c696b3a 100644 --- a/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml +++ b/target/executable/preprocess_transcripts_fasta/.config.vsh.yaml @@ -138,8 +138,8 @@ build_info: output: "target/executable/preprocess_transcripts_fasta" executable: "target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta b/target/executable/preprocess_transcripts_fasta/preprocess_transcripts_fasta index 375056a..25f8cf9 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="2024-09-30T11:52:09Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:56Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/preseq_lcextrap/.config.vsh.yaml b/target/executable/preseq_lcextrap/.config.vsh.yaml index ccb3388..819685d 100644 --- a/target/executable/preseq_lcextrap/.config.vsh.yaml +++ b/target/executable/preseq_lcextrap/.config.vsh.yaml @@ -191,8 +191,8 @@ build_info: output: "target/executable/preseq_lcextrap" executable: "target/executable/preseq_lcextrap/preseq_lcextrap" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/preseq_lcextrap/preseq_lcextrap b/target/executable/preseq_lcextrap/preseq_lcextrap index 15b314a..3d269e7 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="2024-09-30T11:51:59Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:44Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/qualimap/.config.vsh.yaml b/target/executable/qualimap/.config.vsh.yaml index 6f81361..d9ebec3 100644 --- a/target/executable/qualimap/.config.vsh.yaml +++ b/target/executable/qualimap/.config.vsh.yaml @@ -271,8 +271,8 @@ build_info: output: "target/executable/qualimap" executable: "target/executable/qualimap/qualimap" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/qualimap/qualimap b/target/executable/qualimap/qualimap index 3118244..4d6e5c6 100755 --- a/target/executable/qualimap/qualimap +++ b/target/executable/qualimap/qualimap @@ -537,9 +537,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag Rscript -e 'remotes::install_cran(c("optparse"), repos = "https://cran.rstudio.com")' LABEL org.opencontainers.image.description="Companion container for running component qualimap" -LABEL org.opencontainers.image.created="2024-09-30T11:51:57Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:42Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml b/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml index ae6c617..993a190 100644 --- a/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml +++ b/target/executable/rsem/rsem_calculate_expression/.config.vsh.yaml @@ -299,8 +299,8 @@ build_info: output: "target/executable/rsem/rsem_calculate_expression" executable: "target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression b/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression index 2d7c098..1711056 100755 --- a/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression +++ b/target/executable/rsem/rsem_calculate_expression/rsem_calculate_expression @@ -542,9 +542,9 @@ echo 'export PATH=$PATH:/usr/local/bin' >> ~/.bashrc && \ /bin/bash -c "source /etc/profile && source ~/.bashrc && echo $PATH && which STAR" LABEL org.opencontainers.image.description="Companion container for running component rsem rsem_calculate_expression" -LABEL org.opencontainers.image.created="2024-09-30T11:52:11Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:58Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rsem/rsem_merge_counts/.config.vsh.yaml b/target/executable/rsem/rsem_merge_counts/.config.vsh.yaml index f3c2a66..3795cbe 100644 --- a/target/executable/rsem/rsem_merge_counts/.config.vsh.yaml +++ b/target/executable/rsem/rsem_merge_counts/.config.vsh.yaml @@ -182,8 +182,8 @@ build_info: output: "target/executable/rsem/rsem_merge_counts" executable: "target/executable/rsem/rsem_merge_counts/rsem_merge_counts" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rsem/rsem_merge_counts/rsem_merge_counts b/target/executable/rsem/rsem_merge_counts/rsem_merge_counts index f4a1d90..26ad9df 100755 --- a/target/executable/rsem/rsem_merge_counts/rsem_merge_counts +++ b/target/executable/rsem/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 rsem_merge_counts" -LABEL org.opencontainers.image.created="2024-09-30T11:52:11Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:58Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml b/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml index 781a7b3..95ac4b6 100644 --- a/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml @@ -163,8 +163,8 @@ build_info: output: "target/executable/rseqc/rseqc_bamstat" executable: "target/executable/rseqc/rseqc_bamstat/rseqc_bamstat" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat b/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat index b81e573..035eb8d 100755 --- a/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat +++ b/target/executable/rseqc/rseqc_bamstat/rseqc_bamstat @@ -477,9 +477,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_bamstat" -LABEL org.opencontainers.image.created="2024-09-30T11:52:09Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:55Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml b/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml index ed03f0e..bb772ac 100644 --- a/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml @@ -186,8 +186,8 @@ build_info: output: "target/executable/rseqc/rseqc_inferexperiment" executable: "target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment b/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment index 5b2d28b..d58115d 100755 --- a/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment +++ b/target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment @@ -487,9 +487,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_inferexperiment" -LABEL org.opencontainers.image.created="2024-09-30T11:52:07Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:53Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_innerdistance/.config.vsh.yaml b/target/executable/rseqc/rseqc_innerdistance/.config.vsh.yaml index 841e843..8da9a08 100644 --- a/target/executable/rseqc/rseqc_innerdistance/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_innerdistance/.config.vsh.yaml @@ -272,8 +272,8 @@ build_info: output: "target/executable/rseqc/rseqc_innerdistance" executable: "target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance b/target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance index 34dbf88..c3856c9 100755 --- a/target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance +++ b/target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance @@ -529,9 +529,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "RSeQC" LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_innerdistance" -LABEL org.opencontainers.image.created="2024-09-30T11:52:08Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:55Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml b/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml index 0e5062c..37eafd5 100644 --- a/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml @@ -260,8 +260,8 @@ build_info: output: "target/executable/rseqc/rseqc_junctionannotation" executable: "target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation b/target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation index 4be346f..9e9823f 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="2024-09-30T11:52:08Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:54Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml b/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml index 1829303..14e4043 100644 --- a/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml @@ -249,8 +249,8 @@ build_info: output: "target/executable/rseqc/rseqc_junctionsaturation" executable: "target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation b/target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation index 31a7ab8..2141b09 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="2024-09-30T11:52:08Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:54Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml b/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml index 4974dff..030a4d1 100644 --- a/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml @@ -162,8 +162,8 @@ build_info: output: "target/executable/rseqc/rseqc_readdistribution" executable: "target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution b/target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution index 83c8798..95351df 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="2024-09-30T11:52:09Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:56Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml b/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml index 345143e..e4c71d0 100644 --- a/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml @@ -211,8 +211,8 @@ build_info: output: "target/executable/rseqc/rseqc_readduplication" executable: "target/executable/rseqc/rseqc_readduplication/rseqc_readduplication" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication b/target/executable/rseqc/rseqc_readduplication/rseqc_readduplication index 2f3c5e5..ecc0841 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="2024-09-30T11:52:07Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:53Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/rseqc/rseqc_tin/.config.vsh.yaml b/target/executable/rseqc/rseqc_tin/.config.vsh.yaml index 1e05cf2..cde5af1 100644 --- a/target/executable/rseqc/rseqc_tin/.config.vsh.yaml +++ b/target/executable/rseqc/rseqc_tin/.config.vsh.yaml @@ -214,8 +214,8 @@ build_info: output: "target/executable/rseqc/rseqc_tin" executable: "target/executable/rseqc/rseqc_tin/rseqc_tin" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/rseqc/rseqc_tin/rseqc_tin b/target/executable/rseqc/rseqc_tin/rseqc_tin index db556c6..b73bcb8 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="2024-09-30T11:52:07Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:53Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/sortmerna/.config.vsh.yaml b/target/executable/sortmerna/.config.vsh.yaml index 5e28c39..b35f92b 100644 --- a/target/executable/sortmerna/.config.vsh.yaml +++ b/target/executable/sortmerna/.config.vsh.yaml @@ -198,8 +198,8 @@ build_info: output: "target/executable/sortmerna" executable: "target/executable/sortmerna/sortmerna" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/sortmerna/sortmerna b/target/executable/sortmerna/sortmerna index 1c34b60..468d580 100755 --- a/target/executable/sortmerna/sortmerna +++ b/target/executable/sortmerna/sortmerna @@ -492,9 +492,9 @@ wget --no-check-certificate https://github.com/sortmerna/sortmerna/releases/down bash sortmerna-4.3.6-Linux.sh --skip-license LABEL org.opencontainers.image.description="Companion container for running component sortmerna" -LABEL org.opencontainers.image.created="2024-09-30T11:52:14Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:00Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/stringtie/.config.vsh.yaml b/target/executable/stringtie/.config.vsh.yaml index b21e4d3..087ae22 100644 --- a/target/executable/stringtie/.config.vsh.yaml +++ b/target/executable/stringtie/.config.vsh.yaml @@ -216,8 +216,8 @@ build_info: output: "target/executable/stringtie" executable: "target/executable/stringtie/stringtie" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/stringtie/stringtie b/target/executable/stringtie/stringtie index 2d486ca..d404b8c 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="2024-09-30T11:52:11Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:57Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/summarizedexperiment/.config.vsh.yaml b/target/executable/summarizedexperiment/.config.vsh.yaml index a1edb30..872f666 100644 --- a/target/executable/summarizedexperiment/.config.vsh.yaml +++ b/target/executable/summarizedexperiment/.config.vsh.yaml @@ -199,8 +199,8 @@ build_info: output: "target/executable/summarizedexperiment" executable: "target/executable/summarizedexperiment/summarizedexperiment" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/summarizedexperiment/summarizedexperiment b/target/executable/summarizedexperiment/summarizedexperiment index 33071c6..f936a15 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="2024-09-30T11:52:15Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:01Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/trimgalore/.config.vsh.yaml b/target/executable/trimgalore/.config.vsh.yaml index 28c9898..e800fdc 100644 --- a/target/executable/trimgalore/.config.vsh.yaml +++ b/target/executable/trimgalore/.config.vsh.yaml @@ -788,8 +788,8 @@ build_info: output: "target/executable/trimgalore" executable: "target/executable/trimgalore/trimgalore" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/trimgalore/trimgalore b/target/executable/trimgalore/trimgalore index a5cd07b..98c43b3 100755 --- a/target/executable/trimgalore/trimgalore +++ b/target/executable/trimgalore/trimgalore @@ -858,9 +858,9 @@ ENTRYPOINT [] RUN echo "TrimGalore: `trim_galore --version | sed -n 's/.*version\s\+\([0-9]\+\.[0-9]\+\.[0-9]\+\).*/\1/p'`" > /var/software_versions.txt LABEL org.opencontainers.image.description="Companion container for running component trimgalore" -LABEL org.opencontainers.image.created="2024-09-30T11:52:13Z" +LABEL org.opencontainers.image.created="2024-09-30T12:30:00Z" LABEL org.opencontainers.image.source="https://github.com/FelixKrueger/TrimGalore" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/tx2gene/.config.vsh.yaml b/target/executable/tx2gene/.config.vsh.yaml index 04898c5..cf0a429 100644 --- a/target/executable/tx2gene/.config.vsh.yaml +++ b/target/executable/tx2gene/.config.vsh.yaml @@ -192,8 +192,8 @@ build_info: output: "target/executable/tx2gene" executable: "target/executable/tx2gene/tx2gene" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/tx2gene/tx2gene b/target/executable/tx2gene/tx2gene index 3da4d71..864baca 100755 --- a/target/executable/tx2gene/tx2gene +++ b/target/executable/tx2gene/tx2gene @@ -487,9 +487,9 @@ 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="2024-09-30T11:52:10Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:57Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/tximport/.config.vsh.yaml b/target/executable/tximport/.config.vsh.yaml index da61de2..8184c5c 100644 --- a/target/executable/tximport/.config.vsh.yaml +++ b/target/executable/tximport/.config.vsh.yaml @@ -247,8 +247,8 @@ build_info: output: "target/executable/tximport" executable: "target/executable/tximport/tximport" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/tximport/tximport b/target/executable/tximport/tximport index 25ed1d2..962b89b 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="2024-09-30T11:52:04Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:49Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/ucsc/bedclip/.config.vsh.yaml b/target/executable/ucsc/bedclip/.config.vsh.yaml index 8a5b718..e6585ca 100644 --- a/target/executable/ucsc/bedclip/.config.vsh.yaml +++ b/target/executable/ucsc/bedclip/.config.vsh.yaml @@ -164,8 +164,8 @@ build_info: output: "target/executable/ucsc/bedclip" executable: "target/executable/ucsc/bedclip/bedclip" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/ucsc/bedclip/bedclip b/target/executable/ucsc/bedclip/bedclip index ab442c7..0bf5c13 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="2024-09-30T11:52:05Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:51Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml b/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml index 355da30..57a6273 100644 --- a/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml +++ b/target/executable/ucsc/bedgraphtobigwig/.config.vsh.yaml @@ -164,8 +164,8 @@ build_info: output: "target/executable/ucsc/bedgraphtobigwig" executable: "target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig b/target/executable/ucsc/bedgraphtobigwig/bedgraphtobigwig index 888e55f..27acae1 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="2024-09-30T11:52:06Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:51Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/umitools/umitools_dedup/.config.vsh.yaml b/target/executable/umitools/umitools_dedup/.config.vsh.yaml index f4c7bc8..ae4851b 100644 --- a/target/executable/umitools/umitools_dedup/.config.vsh.yaml +++ b/target/executable/umitools/umitools_dedup/.config.vsh.yaml @@ -195,8 +195,8 @@ build_info: output: "target/executable/umitools/umitools_dedup" executable: "target/executable/umitools/umitools_dedup/umitools_dedup" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/umitools/umitools_dedup/umitools_dedup b/target/executable/umitools/umitools_dedup/umitools_dedup index 8d23b6f..d9b9c0d 100755 --- a/target/executable/umitools/umitools_dedup/umitools_dedup +++ b/target/executable/umitools/umitools_dedup/umitools_dedup @@ -489,9 +489,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "umi_tools" LABEL org.opencontainers.image.description="Companion container for running component umitools umitools_dedup" -LABEL org.opencontainers.image.created="2024-09-30T11:52:12Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:59Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/umitools/umitools_extract/.config.vsh.yaml b/target/executable/umitools/umitools_extract/.config.vsh.yaml index d3b4b49..8f5038c 100644 --- a/target/executable/umitools/umitools_extract/.config.vsh.yaml +++ b/target/executable/umitools/umitools_extract/.config.vsh.yaml @@ -253,8 +253,8 @@ build_info: output: "target/executable/umitools/umitools_extract" executable: "target/executable/umitools/umitools_extract/umitools_extract" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/umitools/umitools_extract/umitools_extract b/target/executable/umitools/umitools_extract/umitools_extract index 5dd30dd..3dda0b3 100755 --- a/target/executable/umitools/umitools_extract/umitools_extract +++ b/target/executable/umitools/umitools_extract/umitools_extract @@ -521,9 +521,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "umi_tools" LABEL org.opencontainers.image.description="Companion container for running component umitools umitools_extract" -LABEL org.opencontainers.image.created="2024-09-30T11:52:13Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:29:59Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" VIASHDOCKER diff --git a/target/executable/umitools_prepareforquant/.config.vsh.yaml b/target/executable/umitools_prepareforquant/.config.vsh.yaml index 0e0a7d3..2cf378d 100644 --- a/target/executable/umitools_prepareforquant/.config.vsh.yaml +++ b/target/executable/umitools_prepareforquant/.config.vsh.yaml @@ -156,8 +156,8 @@ build_info: output: "target/executable/umitools_prepareforquant" executable: "target/executable/umitools_prepareforquant/umitools_prepareforquant" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/executable/umitools_prepareforquant/umitools_prepareforquant b/target/executable/umitools_prepareforquant/umitools_prepareforquant index 3507def..f4c4167 100755 --- a/target/executable/umitools_prepareforquant/umitools_prepareforquant +++ b/target/executable/umitools_prepareforquant/umitools_prepareforquant @@ -473,9 +473,9 @@ RUN pip install --upgrade pip && \ pip install --upgrade --no-cache-dir "umi_tools" "pysam" LABEL org.opencontainers.image.description="Companion container for running component umitools_prepareforquant" -LABEL org.opencontainers.image.created="2024-09-30T11:52:15Z" -LABEL org.opencontainers.image.source="https://x-access-token/ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" -LABEL org.opencontainers.image.revision="7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" +LABEL org.opencontainers.image.created="2024-09-30T12:30:01Z" +LABEL org.opencontainers.image.source="https://x-access-token/ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" +LABEL org.opencontainers.image.revision="dc43230e43731e5733fffba429a1190f08dbc742" LABEL org.opencontainers.image.version="multiple_fixes" 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 2f4fb51..c691685 100644 --- a/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml +++ b/target/executable/workflows/genome_alignment_and_quant/.config.vsh.yaml @@ -603,8 +603,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/star/star_align_reads" - "target/dependencies/vsh/vsh/biobox/v0.2.0/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 296842f..76b53f8 100644 --- a/target/executable/workflows/merge_quant_results/.config.vsh.yaml +++ b/target/executable/workflows/merge_quant_results/.config.vsh.yaml @@ -278,8 +278,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@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 b46fe09..2e15fc5 100644 --- a/target/executable/workflows/post_processing/.config.vsh.yaml +++ b/target/executable/workflows/post_processing/.config.vsh.yaml @@ -486,8 +486,8 @@ build_info: output: "target/executable/workflows/post_processing" executable: "target/executable/workflows/post_processing/post_processing" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/picard_markduplicates" - "target/dependencies/vsh/vsh/biobox/v0.2.0/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 d7074c0..2af4373 100644 --- a/target/executable/workflows/pre_processing/.config.vsh.yaml +++ b/target/executable/workflows/pre_processing/.config.vsh.yaml @@ -673,8 +673,8 @@ build_info: output: "target/executable/workflows/pre_processing" executable: "target/executable/workflows/pre_processing/pre_processing" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/fastqc" - "target/nextflow/umitools/umitools_extract" diff --git a/target/executable/workflows/prepare_genome/.config.vsh.yaml b/target/executable/workflows/prepare_genome/.config.vsh.yaml index ed8e350..e9f9a94 100644 --- a/target/executable/workflows/prepare_genome/.config.vsh.yaml +++ b/target/executable/workflows/prepare_genome/.config.vsh.yaml @@ -496,8 +496,8 @@ build_info: output: "target/executable/workflows/prepare_genome" executable: "target/executable/workflows/prepare_genome/prepare_genome" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/gunzip" - "target/dependencies/vsh/vsh/biobox/v0.2.0/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 1064494..b071554 100644 --- a/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml +++ b/target/executable/workflows/pseudo_alignment_and_quant/.config.vsh.yaml @@ -283,8 +283,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/salmon/salmon_quant" - "target/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 bd72700..f1ffedc 100644 --- a/target/executable/workflows/quality_control/.config.vsh.yaml +++ b/target/executable/workflows/quality_control/.config.vsh.yaml @@ -1596,8 +1596,8 @@ build_info: output: "target/executable/workflows/quality_control" executable: "target/executable/workflows/quality_control/quality_control" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/rseqc/rseqc_bamstat" - "target/nextflow/rseqc/rseqc_inferexperiment" diff --git a/target/executable/workflows/rnaseq/.config.vsh.yaml b/target/executable/workflows/rnaseq/.config.vsh.yaml index 6be0ee9..62be148 100644 --- a/target/executable/workflows/rnaseq/.config.vsh.yaml +++ b/target/executable/workflows/rnaseq/.config.vsh.yaml @@ -2117,8 +2117,8 @@ build_info: output: "target/executable/workflows/rnaseq" executable: "target/executable/workflows/rnaseq/rnaseq" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/workflows/prepare_genome" - "target/nextflow/cat_fastq" diff --git a/target/executable/workflows/rnaseq/rnaseq b/target/executable/workflows/rnaseq/rnaseq index 5b0761e..36eeb33 100755 --- a/target/executable/workflows/rnaseq/rnaseq +++ b/target/executable/workflows/rnaseq/rnaseq @@ -4929,9 +4929,9 @@ workflow run_wf { "star_alignment": "star_alignment", "genome_bam_sorted": "genome_bam_sorted", "genome_bam_index": "genome_bam_index", - "genome_bam_stats": "samtools_stats", - "genome_bam_flagstat": "samtools_flagstat", - "genome_bam_idxstats": "samtools_idxstats", + "genome_bam_stats": "genome_bam_stats", + "genome_bam_flagstat": "genome_bam_flagstat", + "genome_bam_idxstats": "genome_bam_idxstats", "transcriptome_bam": "transcriptome_bam", "transcriptome_bam_index": "transcriptome_bam_index", "transcriptome_bam_stats": "transcriptome_bam_stats", diff --git a/target/nextflow/bbmap_bbsplit/.config.vsh.yaml b/target/nextflow/bbmap_bbsplit/.config.vsh.yaml index 16a74b6..c061515 100644 --- a/target/nextflow/bbmap_bbsplit/.config.vsh.yaml +++ b/target/nextflow/bbmap_bbsplit/.config.vsh.yaml @@ -238,8 +238,8 @@ build_info: output: "target/nextflow/bbmap_bbsplit" executable: "target/nextflow/bbmap_bbsplit/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/bbmap_bbsplit/main.nf b/target/nextflow/bbmap_bbsplit/main.nf index 57d730e..6db8d07 100644 --- a/target/nextflow/bbmap_bbsplit/main.nf +++ b/target/nextflow/bbmap_bbsplit/main.nf @@ -3104,8 +3104,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/bbmap_bbsplit", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/bedtools_genomecov/.config.vsh.yaml b/target/nextflow/bedtools_genomecov/.config.vsh.yaml index b5e5d07..de9576b 100644 --- a/target/nextflow/bedtools_genomecov/.config.vsh.yaml +++ b/target/nextflow/bedtools_genomecov/.config.vsh.yaml @@ -178,8 +178,8 @@ build_info: output: "target/nextflow/bedtools_genomecov" executable: "target/nextflow/bedtools_genomecov/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/bedtools_genomecov/main.nf b/target/nextflow/bedtools_genomecov/main.nf index 15d1d40..ac540d1 100644 --- a/target/nextflow/bedtools_genomecov/main.nf +++ b/target/nextflow/bedtools_genomecov/main.nf @@ -3031,8 +3031,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/bedtools_genomecov", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/cat_additional_fasta/.config.vsh.yaml b/target/nextflow/cat_additional_fasta/.config.vsh.yaml index fddb40e..04f154d 100644 --- a/target/nextflow/cat_additional_fasta/.config.vsh.yaml +++ b/target/nextflow/cat_additional_fasta/.config.vsh.yaml @@ -182,8 +182,8 @@ build_info: output: "target/nextflow/cat_additional_fasta" executable: "target/nextflow/cat_additional_fasta/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/cat_additional_fasta/main.nf b/target/nextflow/cat_additional_fasta/main.nf index b49801d..0ed3073 100644 --- a/target/nextflow/cat_additional_fasta/main.nf +++ b/target/nextflow/cat_additional_fasta/main.nf @@ -3032,8 +3032,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/cat_additional_fasta", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/cat_fastq/.config.vsh.yaml b/target/nextflow/cat_fastq/.config.vsh.yaml index 441603c..badebbb 100644 --- a/target/nextflow/cat_fastq/.config.vsh.yaml +++ b/target/nextflow/cat_fastq/.config.vsh.yaml @@ -169,8 +169,8 @@ build_info: output: "target/nextflow/cat_fastq" executable: "target/nextflow/cat_fastq/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/cat_fastq/main.nf b/target/nextflow/cat_fastq/main.nf index 8208aff..a901634 100644 --- a/target/nextflow/cat_fastq/main.nf +++ b/target/nextflow/cat_fastq/main.nf @@ -3023,8 +3023,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/cat_fastq", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/deseq2_qc/.config.vsh.yaml b/target/nextflow/deseq2_qc/.config.vsh.yaml index e3393fa..cf49752 100644 --- a/target/nextflow/deseq2_qc/.config.vsh.yaml +++ b/target/nextflow/deseq2_qc/.config.vsh.yaml @@ -237,8 +237,8 @@ build_info: output: "target/nextflow/deseq2_qc" executable: "target/nextflow/deseq2_qc/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/deseq2_qc/main.nf b/target/nextflow/deseq2_qc/main.nf index 7b5cb1c..eeffa90 100644 --- a/target/nextflow/deseq2_qc/main.nf +++ b/target/nextflow/deseq2_qc/main.nf @@ -3110,8 +3110,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/deseq2_qc", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/dupradar/.config.vsh.yaml b/target/nextflow/dupradar/.config.vsh.yaml index a1ea545..f742f2f 100644 --- a/target/nextflow/dupradar/.config.vsh.yaml +++ b/target/nextflow/dupradar/.config.vsh.yaml @@ -266,8 +266,8 @@ build_info: output: "target/nextflow/dupradar" executable: "target/nextflow/dupradar/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/dupradar/main.nf b/target/nextflow/dupradar/main.nf index cf98392..9d3fda3 100644 --- a/target/nextflow/dupradar/main.nf +++ b/target/nextflow/dupradar/main.nf @@ -3136,8 +3136,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/dupradar", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/fastqc/.config.vsh.yaml b/target/nextflow/fastqc/.config.vsh.yaml index 6fee4a0..2f8eadc 100644 --- a/target/nextflow/fastqc/.config.vsh.yaml +++ b/target/nextflow/fastqc/.config.vsh.yaml @@ -198,8 +198,8 @@ build_info: output: "target/nextflow/fastqc" executable: "target/nextflow/fastqc/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/fastqc/main.nf b/target/nextflow/fastqc/main.nf index b4f545d..0822d4a 100644 --- a/target/nextflow/fastqc/main.nf +++ b/target/nextflow/fastqc/main.nf @@ -3056,8 +3056,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/fastqc", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/fq_subsample/.config.vsh.yaml b/target/nextflow/fq_subsample/.config.vsh.yaml index 86a1e13..a37d1ee 100644 --- a/target/nextflow/fq_subsample/.config.vsh.yaml +++ b/target/nextflow/fq_subsample/.config.vsh.yaml @@ -177,8 +177,8 @@ build_info: output: "target/nextflow/fq_subsample" executable: "target/nextflow/fq_subsample/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/fq_subsample/main.nf b/target/nextflow/fq_subsample/main.nf index fa3403c..54536ab 100644 --- a/target/nextflow/fq_subsample/main.nf +++ b/target/nextflow/fq_subsample/main.nf @@ -3027,8 +3027,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/fq_subsample", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/getchromsizes/.config.vsh.yaml b/target/nextflow/getchromsizes/.config.vsh.yaml index 64a0f75..8f2923c 100644 --- a/target/nextflow/getchromsizes/.config.vsh.yaml +++ b/target/nextflow/getchromsizes/.config.vsh.yaml @@ -167,8 +167,8 @@ build_info: output: "target/nextflow/getchromsizes" executable: "target/nextflow/getchromsizes/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/getchromsizes/main.nf b/target/nextflow/getchromsizes/main.nf index 3941183..dea365c 100644 --- a/target/nextflow/getchromsizes/main.nf +++ b/target/nextflow/getchromsizes/main.nf @@ -3013,8 +3013,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/getchromsizes", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/gtf2bed/.config.vsh.yaml b/target/nextflow/gtf2bed/.config.vsh.yaml index c8545ee..14dde9e 100644 --- a/target/nextflow/gtf2bed/.config.vsh.yaml +++ b/target/nextflow/gtf2bed/.config.vsh.yaml @@ -145,8 +145,8 @@ build_info: output: "target/nextflow/gtf2bed" executable: "target/nextflow/gtf2bed/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/gtf2bed/main.nf b/target/nextflow/gtf2bed/main.nf index 40037c4..89bd790 100644 --- a/target/nextflow/gtf2bed/main.nf +++ b/target/nextflow/gtf2bed/main.nf @@ -2995,8 +2995,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gtf2bed", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/gtf_filter/.config.vsh.yaml b/target/nextflow/gtf_filter/.config.vsh.yaml index e9f8f18..60c36ac 100644 --- a/target/nextflow/gtf_filter/.config.vsh.yaml +++ b/target/nextflow/gtf_filter/.config.vsh.yaml @@ -155,8 +155,8 @@ build_info: output: "target/nextflow/gtf_filter" executable: "target/nextflow/gtf_filter/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/gtf_filter/main.nf b/target/nextflow/gtf_filter/main.nf index 692ff4b..39c1bcc 100644 --- a/target/nextflow/gtf_filter/main.nf +++ b/target/nextflow/gtf_filter/main.nf @@ -3003,8 +3003,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gtf_filter", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/gunzip/.config.vsh.yaml b/target/nextflow/gunzip/.config.vsh.yaml index 9f1a9eb..320be04 100644 --- a/target/nextflow/gunzip/.config.vsh.yaml +++ b/target/nextflow/gunzip/.config.vsh.yaml @@ -144,8 +144,8 @@ build_info: output: "target/nextflow/gunzip" executable: "target/nextflow/gunzip/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/gunzip/main.nf b/target/nextflow/gunzip/main.nf index 27aa5a5..1cae6bd 100644 --- a/target/nextflow/gunzip/main.nf +++ b/target/nextflow/gunzip/main.nf @@ -2992,8 +2992,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/gunzip", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml b/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml index af86be7..379a5a1 100644 --- a/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml +++ b/target/nextflow/kallisto/kallisto_index/.config.vsh.yaml @@ -155,8 +155,8 @@ build_info: output: "target/nextflow/kallisto/kallisto_index" executable: "target/nextflow/kallisto/kallisto_index/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/kallisto/kallisto_index/main.nf b/target/nextflow/kallisto/kallisto_index/main.nf index 816c15e..ae3e3d3 100644 --- a/target/nextflow/kallisto/kallisto_index/main.nf +++ b/target/nextflow/kallisto/kallisto_index/main.nf @@ -3002,8 +3002,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/kallisto/kallisto_index", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml b/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml index df28afa..8dd56b6 100644 --- a/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml +++ b/target/nextflow/kallisto/kallisto_quant/.config.vsh.yaml @@ -253,8 +253,8 @@ build_info: output: "target/nextflow/kallisto/kallisto_quant" executable: "target/nextflow/kallisto/kallisto_quant/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/kallisto/kallisto_quant/main.nf b/target/nextflow/kallisto/kallisto_quant/main.nf index 393e4c3..52473d7 100644 --- a/target/nextflow/kallisto/kallisto_quant/main.nf +++ b/target/nextflow/kallisto/kallisto_quant/main.nf @@ -3114,8 +3114,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/kallisto/kallisto_quant", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml b/target/nextflow/multiqc_custom_biotype/.config.vsh.yaml index 9e46d85..2131c40 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/multiqc_custom_biotype/main.nf b/target/nextflow/multiqc_custom_biotype/main.nf index 03fc2dc..9e0b303 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" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/picard_markduplicates/.config.vsh.yaml b/target/nextflow/picard_markduplicates/.config.vsh.yaml index 2756f12..600a317 100644 --- a/target/nextflow/picard_markduplicates/.config.vsh.yaml +++ b/target/nextflow/picard_markduplicates/.config.vsh.yaml @@ -207,8 +207,8 @@ build_info: output: "target/nextflow/picard_markduplicates" executable: "target/nextflow/picard_markduplicates/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/picard_markduplicates/main.nf b/target/nextflow/picard_markduplicates/main.nf index 09d46c5..8b7b6e4 100644 --- a/target/nextflow/picard_markduplicates/main.nf +++ b/target/nextflow/picard_markduplicates/main.nf @@ -3063,8 +3063,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/picard_markduplicates", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/prepare_multiqc_input/.config.vsh.yaml b/target/nextflow/prepare_multiqc_input/.config.vsh.yaml index 3adfe2f..914caf8 100644 --- a/target/nextflow/prepare_multiqc_input/.config.vsh.yaml +++ b/target/nextflow/prepare_multiqc_input/.config.vsh.yaml @@ -409,8 +409,8 @@ build_info: output: "target/nextflow/prepare_multiqc_input" executable: "target/nextflow/prepare_multiqc_input/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/prepare_multiqc_input/main.nf b/target/nextflow/prepare_multiqc_input/main.nf index 6a6b8be..bc3df1c 100644 --- a/target/nextflow/prepare_multiqc_input/main.nf +++ b/target/nextflow/prepare_multiqc_input/main.nf @@ -3277,8 +3277,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/prepare_multiqc_input", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml b/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml index 5476b8e..2675e21 100644 --- a/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml +++ b/target/nextflow/preprocess_transcripts_fasta/.config.vsh.yaml @@ -138,8 +138,8 @@ build_info: output: "target/nextflow/preprocess_transcripts_fasta" executable: "target/nextflow/preprocess_transcripts_fasta/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/preprocess_transcripts_fasta/main.nf b/target/nextflow/preprocess_transcripts_fasta/main.nf index 65dba7f..c64448f 100644 --- a/target/nextflow/preprocess_transcripts_fasta/main.nf +++ b/target/nextflow/preprocess_transcripts_fasta/main.nf @@ -2982,8 +2982,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/preprocess_transcripts_fasta", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/preseq_lcextrap/.config.vsh.yaml b/target/nextflow/preseq_lcextrap/.config.vsh.yaml index 583a59c..aac9366 100644 --- a/target/nextflow/preseq_lcextrap/.config.vsh.yaml +++ b/target/nextflow/preseq_lcextrap/.config.vsh.yaml @@ -191,8 +191,8 @@ build_info: output: "target/nextflow/preseq_lcextrap" executable: "target/nextflow/preseq_lcextrap/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/preseq_lcextrap/main.nf b/target/nextflow/preseq_lcextrap/main.nf index 074f136..1a8c55e 100644 --- a/target/nextflow/preseq_lcextrap/main.nf +++ b/target/nextflow/preseq_lcextrap/main.nf @@ -3035,8 +3035,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/preseq_lcextrap", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/qualimap/.config.vsh.yaml b/target/nextflow/qualimap/.config.vsh.yaml index 667457e..f36f700 100644 --- a/target/nextflow/qualimap/.config.vsh.yaml +++ b/target/nextflow/qualimap/.config.vsh.yaml @@ -271,8 +271,8 @@ build_info: output: "target/nextflow/qualimap" executable: "target/nextflow/qualimap/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/qualimap/main.nf b/target/nextflow/qualimap/main.nf index b07d2da..e7efe5d 100644 --- a/target/nextflow/qualimap/main.nf +++ b/target/nextflow/qualimap/main.nf @@ -3144,8 +3144,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/qualimap", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml b/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml index 8444d77..6dfe07f 100644 --- a/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml +++ b/target/nextflow/rsem/rsem_calculate_expression/.config.vsh.yaml @@ -299,8 +299,8 @@ build_info: output: "target/nextflow/rsem/rsem_calculate_expression" executable: "target/nextflow/rsem/rsem_calculate_expression/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rsem/rsem_calculate_expression/main.nf b/target/nextflow/rsem/rsem_calculate_expression/main.nf index e8270b0..de6555e 100644 --- a/target/nextflow/rsem/rsem_calculate_expression/main.nf +++ b/target/nextflow/rsem/rsem_calculate_expression/main.nf @@ -3163,8 +3163,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rsem/rsem_calculate_expression", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rsem/rsem_merge_counts/.config.vsh.yaml b/target/nextflow/rsem/rsem_merge_counts/.config.vsh.yaml index b97739a..5057f05 100644 --- a/target/nextflow/rsem/rsem_merge_counts/.config.vsh.yaml +++ b/target/nextflow/rsem/rsem_merge_counts/.config.vsh.yaml @@ -182,8 +182,8 @@ build_info: output: "target/nextflow/rsem/rsem_merge_counts" executable: "target/nextflow/rsem/rsem_merge_counts/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rsem/rsem_merge_counts/main.nf b/target/nextflow/rsem/rsem_merge_counts/main.nf index 072374f..21751d7 100644 --- a/target/nextflow/rsem/rsem_merge_counts/main.nf +++ b/target/nextflow/rsem/rsem_merge_counts/main.nf @@ -3028,8 +3028,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rsem/rsem_merge_counts", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml index 1b2de40..51b2998 100644 --- a/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_bamstat/.config.vsh.yaml @@ -163,8 +163,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_bamstat" executable: "target/nextflow/rseqc/rseqc_bamstat/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_bamstat/main.nf b/target/nextflow/rseqc/rseqc_bamstat/main.nf index 260785a..7f24c76 100644 --- a/target/nextflow/rseqc/rseqc_bamstat/main.nf +++ b/target/nextflow/rseqc/rseqc_bamstat/main.nf @@ -3016,8 +3016,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_bamstat", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml index bdab1be..d493919 100644 --- a/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_inferexperiment/.config.vsh.yaml @@ -186,8 +186,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_inferexperiment" executable: "target/nextflow/rseqc/rseqc_inferexperiment/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_inferexperiment/main.nf b/target/nextflow/rseqc/rseqc_inferexperiment/main.nf index 9f56560..32b60c5 100644 --- a/target/nextflow/rseqc/rseqc_inferexperiment/main.nf +++ b/target/nextflow/rseqc/rseqc_inferexperiment/main.nf @@ -3044,8 +3044,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_inferexperiment", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_innerdistance/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_innerdistance/.config.vsh.yaml index 9a6d58c..ceefcf1 100644 --- a/target/nextflow/rseqc/rseqc_innerdistance/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_innerdistance/.config.vsh.yaml @@ -272,8 +272,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_innerdistance" executable: "target/nextflow/rseqc/rseqc_innerdistance/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_innerdistance/main.nf b/target/nextflow/rseqc/rseqc_innerdistance/main.nf index 0d700be..7b60322 100644 --- a/target/nextflow/rseqc/rseqc_innerdistance/main.nf +++ b/target/nextflow/rseqc/rseqc_innerdistance/main.nf @@ -3137,8 +3137,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_innerdistance", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml index c678bce..ef3fb6e 100644 --- a/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_junctionannotation/.config.vsh.yaml @@ -260,8 +260,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_junctionannotation" executable: "target/nextflow/rseqc/rseqc_junctionannotation/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_junctionannotation/main.nf b/target/nextflow/rseqc/rseqc_junctionannotation/main.nf index 8d258db..36f202f 100644 --- a/target/nextflow/rseqc/rseqc_junctionannotation/main.nf +++ b/target/nextflow/rseqc/rseqc_junctionannotation/main.nf @@ -3128,8 +3128,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_junctionannotation", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml index 5cbd5c2..e8f029e 100644 --- a/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_junctionsaturation/.config.vsh.yaml @@ -249,8 +249,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_junctionsaturation" executable: "target/nextflow/rseqc/rseqc_junctionsaturation/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf b/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf index 11c88b3..c56975a 100644 --- a/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf +++ b/target/nextflow/rseqc/rseqc_junctionsaturation/main.nf @@ -3113,8 +3113,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_junctionsaturation", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml index c2fbea6..ac37cd1 100644 --- a/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_readdistribution/.config.vsh.yaml @@ -162,8 +162,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_readdistribution" executable: "target/nextflow/rseqc/rseqc_readdistribution/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_readdistribution/main.nf b/target/nextflow/rseqc/rseqc_readdistribution/main.nf index c28de07..7db0319 100644 --- a/target/nextflow/rseqc/rseqc_readdistribution/main.nf +++ b/target/nextflow/rseqc/rseqc_readdistribution/main.nf @@ -3017,8 +3017,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_readdistribution", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml index 0063bac..82f273e 100644 --- a/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_readduplication/.config.vsh.yaml @@ -211,8 +211,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_readduplication" executable: "target/nextflow/rseqc/rseqc_readduplication/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_readduplication/main.nf b/target/nextflow/rseqc/rseqc_readduplication/main.nf index b4225db..d5ce97f 100644 --- a/target/nextflow/rseqc/rseqc_readduplication/main.nf +++ b/target/nextflow/rseqc/rseqc_readduplication/main.nf @@ -3071,8 +3071,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_readduplication", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml b/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml index ee75fc1..6cc86bd 100644 --- a/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml +++ b/target/nextflow/rseqc/rseqc_tin/.config.vsh.yaml @@ -214,8 +214,8 @@ build_info: output: "target/nextflow/rseqc/rseqc_tin" executable: "target/nextflow/rseqc/rseqc_tin/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/rseqc/rseqc_tin/main.nf b/target/nextflow/rseqc/rseqc_tin/main.nf index e423cd5..1397138 100644 --- a/target/nextflow/rseqc/rseqc_tin/main.nf +++ b/target/nextflow/rseqc/rseqc_tin/main.nf @@ -3076,8 +3076,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/rseqc/rseqc_tin", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/sortmerna/.config.vsh.yaml b/target/nextflow/sortmerna/.config.vsh.yaml index 3f3f5cf..887c903 100644 --- a/target/nextflow/sortmerna/.config.vsh.yaml +++ b/target/nextflow/sortmerna/.config.vsh.yaml @@ -198,8 +198,8 @@ build_info: output: "target/nextflow/sortmerna" executable: "target/nextflow/sortmerna/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/sortmerna/main.nf b/target/nextflow/sortmerna/main.nf index 61ffd2e..2e3d7aa 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" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/stringtie/.config.vsh.yaml b/target/nextflow/stringtie/.config.vsh.yaml index 9c6a013..239d441 100644 --- a/target/nextflow/stringtie/.config.vsh.yaml +++ b/target/nextflow/stringtie/.config.vsh.yaml @@ -216,8 +216,8 @@ build_info: output: "target/nextflow/stringtie" executable: "target/nextflow/stringtie/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/stringtie/main.nf b/target/nextflow/stringtie/main.nf index 5598c69..81057a6 100644 --- a/target/nextflow/stringtie/main.nf +++ b/target/nextflow/stringtie/main.nf @@ -3073,8 +3073,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/stringtie", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/summarizedexperiment/.config.vsh.yaml b/target/nextflow/summarizedexperiment/.config.vsh.yaml index cc2a225..5c12a37 100644 --- a/target/nextflow/summarizedexperiment/.config.vsh.yaml +++ b/target/nextflow/summarizedexperiment/.config.vsh.yaml @@ -199,8 +199,8 @@ build_info: output: "target/nextflow/summarizedexperiment" executable: "target/nextflow/summarizedexperiment/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/summarizedexperiment/main.nf b/target/nextflow/summarizedexperiment/main.nf index e75b9b3..c361d6f 100644 --- a/target/nextflow/summarizedexperiment/main.nf +++ b/target/nextflow/summarizedexperiment/main.nf @@ -3054,8 +3054,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/summarizedexperiment", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/trimgalore/.config.vsh.yaml b/target/nextflow/trimgalore/.config.vsh.yaml index 3a5b6a7..1613f1e 100644 --- a/target/nextflow/trimgalore/.config.vsh.yaml +++ b/target/nextflow/trimgalore/.config.vsh.yaml @@ -788,8 +788,8 @@ build_info: output: "target/nextflow/trimgalore" executable: "target/nextflow/trimgalore/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/trimgalore/main.nf b/target/nextflow/trimgalore/main.nf index 84fcac7..d6670f2 100644 --- a/target/nextflow/trimgalore/main.nf +++ b/target/nextflow/trimgalore/main.nf @@ -3576,8 +3576,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/trimgalore", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/tx2gene/.config.vsh.yaml b/target/nextflow/tx2gene/.config.vsh.yaml index 0d57142..edf84df 100644 --- a/target/nextflow/tx2gene/.config.vsh.yaml +++ b/target/nextflow/tx2gene/.config.vsh.yaml @@ -192,8 +192,8 @@ build_info: output: "target/nextflow/tx2gene" executable: "target/nextflow/tx2gene/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/tx2gene/main.nf b/target/nextflow/tx2gene/main.nf index 5da80c1..6dc8ba0 100644 --- a/target/nextflow/tx2gene/main.nf +++ b/target/nextflow/tx2gene/main.nf @@ -3049,8 +3049,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/tx2gene", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/tximport/.config.vsh.yaml b/target/nextflow/tximport/.config.vsh.yaml index e4ee6d3..a0e0007 100644 --- a/target/nextflow/tximport/.config.vsh.yaml +++ b/target/nextflow/tximport/.config.vsh.yaml @@ -247,8 +247,8 @@ build_info: output: "target/nextflow/tximport" executable: "target/nextflow/tximport/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/tximport/main.nf b/target/nextflow/tximport/main.nf index 5ecff82..881029f 100644 --- a/target/nextflow/tximport/main.nf +++ b/target/nextflow/tximport/main.nf @@ -3114,8 +3114,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/tximport", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/ucsc/bedclip/.config.vsh.yaml b/target/nextflow/ucsc/bedclip/.config.vsh.yaml index 8e3e68e..d0cd992 100644 --- a/target/nextflow/ucsc/bedclip/.config.vsh.yaml +++ b/target/nextflow/ucsc/bedclip/.config.vsh.yaml @@ -164,8 +164,8 @@ build_info: output: "target/nextflow/ucsc/bedclip" executable: "target/nextflow/ucsc/bedclip/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/ucsc/bedclip/main.nf b/target/nextflow/ucsc/bedclip/main.nf index 0bdb0c6..e8cfee0 100644 --- a/target/nextflow/ucsc/bedclip/main.nf +++ b/target/nextflow/ucsc/bedclip/main.nf @@ -3018,8 +3018,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/ucsc/bedclip", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml b/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml index a008b93..d3aa312 100644 --- a/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml +++ b/target/nextflow/ucsc/bedgraphtobigwig/.config.vsh.yaml @@ -164,8 +164,8 @@ build_info: output: "target/nextflow/ucsc/bedgraphtobigwig" executable: "target/nextflow/ucsc/bedgraphtobigwig/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/ucsc/bedgraphtobigwig/main.nf b/target/nextflow/ucsc/bedgraphtobigwig/main.nf index c0aabec..a1e036a 100644 --- a/target/nextflow/ucsc/bedgraphtobigwig/main.nf +++ b/target/nextflow/ucsc/bedgraphtobigwig/main.nf @@ -3018,8 +3018,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/ucsc/bedgraphtobigwig", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/umitools/umitools_dedup/.config.vsh.yaml b/target/nextflow/umitools/umitools_dedup/.config.vsh.yaml index 3ef8f8b..879d724 100644 --- a/target/nextflow/umitools/umitools_dedup/.config.vsh.yaml +++ b/target/nextflow/umitools/umitools_dedup/.config.vsh.yaml @@ -195,8 +195,8 @@ build_info: output: "target/nextflow/umitools/umitools_dedup" executable: "target/nextflow/umitools/umitools_dedup/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/umitools/umitools_dedup/main.nf b/target/nextflow/umitools/umitools_dedup/main.nf index 70167c8..7a61bdb 100644 --- a/target/nextflow/umitools/umitools_dedup/main.nf +++ b/target/nextflow/umitools/umitools_dedup/main.nf @@ -3054,8 +3054,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/umitools/umitools_dedup", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/umitools/umitools_extract/.config.vsh.yaml b/target/nextflow/umitools/umitools_extract/.config.vsh.yaml index fecf15a..b5dc7b0 100644 --- a/target/nextflow/umitools/umitools_extract/.config.vsh.yaml +++ b/target/nextflow/umitools/umitools_extract/.config.vsh.yaml @@ -253,8 +253,8 @@ build_info: output: "target/nextflow/umitools/umitools_extract" executable: "target/nextflow/umitools/umitools_extract/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/umitools/umitools_extract/main.nf b/target/nextflow/umitools/umitools_extract/main.nf index 54d2af7..3c65a06 100644 --- a/target/nextflow/umitools/umitools_extract/main.nf +++ b/target/nextflow/umitools/umitools_extract/main.nf @@ -3119,8 +3119,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/umitools/umitools_extract", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/umitools_prepareforquant/.config.vsh.yaml b/target/nextflow/umitools_prepareforquant/.config.vsh.yaml index 93c36e5..f7d0a8b 100644 --- a/target/nextflow/umitools_prepareforquant/.config.vsh.yaml +++ b/target/nextflow/umitools_prepareforquant/.config.vsh.yaml @@ -156,8 +156,8 @@ build_info: output: "target/nextflow/umitools_prepareforquant" executable: "target/nextflow/umitools_prepareforquant/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" package_config: version: "multiple_fixes" info: diff --git a/target/nextflow/umitools_prepareforquant/main.nf b/target/nextflow/umitools_prepareforquant/main.nf index a8b7469..bbe71ca 100644 --- a/target/nextflow/umitools_prepareforquant/main.nf +++ b/target/nextflow/umitools_prepareforquant/main.nf @@ -3007,8 +3007,8 @@ meta = [ "engine" : "docker|native", "output" : "/workdir/root/repo/target/nextflow/umitools_prepareforquant", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", 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 581eb3b..1bf9a7a 100644 --- a/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml +++ b/target/nextflow/workflows/genome_alignment_and_quant/.config.vsh.yaml @@ -603,8 +603,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/star/star_align_reads" - "target/dependencies/vsh/vsh/biobox/v0.2.0/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 f937048..9052055 100644 --- a/target/nextflow/workflows/genome_alignment_and_quant/main.nf +++ b/target/nextflow/workflows/genome_alignment_and_quant/main.nf @@ -3531,8 +3531,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/genome_alignment_and_quant", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml b/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml index 5a058ed..1bbcd3b 100644 --- a/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml +++ b/target/nextflow/workflows/merge_quant_results/.config.vsh.yaml @@ -278,8 +278,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@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 32a9e9c..28672a3 100644 --- a/target/nextflow/workflows/merge_quant_results/main.nf +++ b/target/nextflow/workflows/merge_quant_results/main.nf @@ -3149,8 +3149,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/merge_quant_results", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/post_processing/.config.vsh.yaml b/target/nextflow/workflows/post_processing/.config.vsh.yaml index 76705da..41b27bd 100644 --- a/target/nextflow/workflows/post_processing/.config.vsh.yaml +++ b/target/nextflow/workflows/post_processing/.config.vsh.yaml @@ -486,8 +486,8 @@ build_info: output: "target/nextflow/workflows/post_processing" executable: "target/nextflow/workflows/post_processing/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/picard_markduplicates" - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/samtools/samtools_sort" diff --git a/target/nextflow/workflows/post_processing/main.nf b/target/nextflow/workflows/post_processing/main.nf index ccefee5..b9d3a27 100644 --- a/target/nextflow/workflows/post_processing/main.nf +++ b/target/nextflow/workflows/post_processing/main.nf @@ -3397,8 +3397,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/post_processing", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/pre_processing/.config.vsh.yaml b/target/nextflow/workflows/pre_processing/.config.vsh.yaml index 89277e3..f124660 100644 --- a/target/nextflow/workflows/pre_processing/.config.vsh.yaml +++ b/target/nextflow/workflows/pre_processing/.config.vsh.yaml @@ -673,8 +673,8 @@ build_info: output: "target/nextflow/workflows/pre_processing" executable: "target/nextflow/workflows/pre_processing/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/fastqc" - "target/nextflow/umitools/umitools_extract" diff --git a/target/nextflow/workflows/pre_processing/main.nf b/target/nextflow/workflows/pre_processing/main.nf index 105e3d9..189ab50 100644 --- a/target/nextflow/workflows/pre_processing/main.nf +++ b/target/nextflow/workflows/pre_processing/main.nf @@ -3626,8 +3626,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/pre_processing", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/prepare_genome/.config.vsh.yaml b/target/nextflow/workflows/prepare_genome/.config.vsh.yaml index 0c2bdc3..f47ad1c 100644 --- a/target/nextflow/workflows/prepare_genome/.config.vsh.yaml +++ b/target/nextflow/workflows/prepare_genome/.config.vsh.yaml @@ -496,8 +496,8 @@ build_info: output: "target/nextflow/workflows/prepare_genome" executable: "target/nextflow/workflows/prepare_genome/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/gunzip" - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/gffread" diff --git a/target/nextflow/workflows/prepare_genome/main.nf b/target/nextflow/workflows/prepare_genome/main.nf index 70d5f6e..20ed238 100644 --- a/target/nextflow/workflows/prepare_genome/main.nf +++ b/target/nextflow/workflows/prepare_genome/main.nf @@ -3407,8 +3407,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/prepare_genome", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", 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 61b22e8..13b7930 100644 --- a/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml +++ b/target/nextflow/workflows/pseudo_alignment_and_quant/.config.vsh.yaml @@ -283,8 +283,8 @@ 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: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/salmon/salmon_quant" - "target/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 ec4ae64..4151e28 100644 --- a/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf +++ b/target/nextflow/workflows/pseudo_alignment_and_quant/main.nf @@ -3143,8 +3143,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/pseudo_alignment_and_quant", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/quality_control/.config.vsh.yaml b/target/nextflow/workflows/quality_control/.config.vsh.yaml index 3f9e7c3..b86a624 100644 --- a/target/nextflow/workflows/quality_control/.config.vsh.yaml +++ b/target/nextflow/workflows/quality_control/.config.vsh.yaml @@ -1596,8 +1596,8 @@ build_info: output: "target/nextflow/workflows/quality_control" executable: "target/nextflow/workflows/quality_control/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" dependencies: - "target/nextflow/rseqc/rseqc_bamstat" - "target/nextflow/rseqc/rseqc_inferexperiment" diff --git a/target/nextflow/workflows/quality_control/main.nf b/target/nextflow/workflows/quality_control/main.nf index 443f2bf..dcbd5f8 100644 --- a/target/nextflow/workflows/quality_control/main.nf +++ b/target/nextflow/workflows/quality_control/main.nf @@ -4676,8 +4676,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/quality_control", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", diff --git a/target/nextflow/workflows/rnaseq/.config.vsh.yaml b/target/nextflow/workflows/rnaseq/.config.vsh.yaml index 272a5af..08981ec 100644 --- a/target/nextflow/workflows/rnaseq/.config.vsh.yaml +++ b/target/nextflow/workflows/rnaseq/.config.vsh.yaml @@ -2117,8 +2117,8 @@ build_info: output: "target/nextflow/workflows/rnaseq" executable: "target/nextflow/workflows/rnaseq/main.nf" viash_version: "0.9.0" - git_commit: "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d" - git_remote: "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + git_commit: "dc43230e43731e5733fffba429a1190f08dbc742" + git_remote: "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@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 75ff6ee..e004628 100644 --- a/target/nextflow/workflows/rnaseq/main.nf +++ b/target/nextflow/workflows/rnaseq/main.nf @@ -5283,8 +5283,8 @@ meta = [ "engine" : "native", "output" : "/workdir/root/repo/target/nextflow/workflows/rnaseq", "viash_version" : "0.9.0", - "git_commit" : "7a7ce42c4dcd4a79b03823641bb8a4408ba9404d", - "git_remote" : "https://x-access-token:ghs_ltJPjPqiv1bdiWEoMNLoIT9NWntapQ0mtFGy@github.com/viash-hub/rnaseq" + "git_commit" : "dc43230e43731e5733fffba429a1190f08dbc742", + "git_remote" : "https://x-access-token:ghs_J7vR9Ei9mLzQE8wOHrqImUJTsJPYcG4YNnNe@github.com/viash-hub/rnaseq" }, "package_config" : { "version" : "multiple_fixes", @@ -5805,9 +5805,9 @@ workflow run_wf { "star_alignment": "star_alignment", "genome_bam_sorted": "genome_bam_sorted", "genome_bam_index": "genome_bam_index", - "genome_bam_stats": "samtools_stats", - "genome_bam_flagstat": "samtools_flagstat", - "genome_bam_idxstats": "samtools_idxstats", + "genome_bam_stats": "genome_bam_stats", + "genome_bam_flagstat": "genome_bam_flagstat", + "genome_bam_idxstats": "genome_bam_idxstats", "transcriptome_bam": "transcriptome_bam", "transcriptome_bam_index": "transcriptome_bam_index", "transcriptome_bam_stats": "transcriptome_bam_stats",