From 32f0ac501f366d10a8ea4cd559fdc884b0dea755 Mon Sep 17 00:00:00 2001 From: rfeng2023 Date: Fri, 2 Feb 2024 15:29:00 -0500 Subject: [PATCH 1/2] update pecotmr container --- container/containers.csv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/container/containers.csv b/container/containers.csv index 5d429df5..d9d91641 100644 --- a/container/containers.csv +++ b/container/containers.csv @@ -72,7 +72,7 @@ trimmomatic,https://github.com/timflutre/trimmomatic,Java,0.39,N/A,bioconda,rna_ gtex-pipeline-qtl,https://github.com/broadinstitute/gtex-pipeline/tree/master/qtl,Python,gtex_v8,bed31e12a48b25db8b111252e2136b31c64c9e82,dnachun,rna_quantification,Other,https://anaconda.org/dnachun/gtex-pipeline-qtl, pandas,https://pypi.org/project/pandas/,Python,1.3.5,N/A,conda-forge,"rna_quantification, tensorqtl, quantqtl",BSD-3-Clause,https://anaconda.org/conda-forge/pandas, r-mvsusier,https://github.com/stephenslab/mvsusieR,R,0.1.0,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-mvsusier, -r-pecotmr,https://github.com/cumc/pecotmr,R,0.1.24,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-pecotmr, +r-pecotmr,https://github.com/cumc/pecotmr,R,0.1.26,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-pecotmr, r-fsusier,https://github.com/stephenslab/fsusier,R,0.2.0,dd4df3668d2ca59dd34a52b6c1b426054a998fbd,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-fsusier, backports.zoneinfo,https://pypi.org/project/backports.zoneinfo/,Python,0.2.1,N/A,conda-forge,"pecotmr, quantqtl",Apache-2.0,https://anaconda.org/conda-forge/backports.zoneinfo, bioconductor-variantannotation,https://bioconductor.org/packages/release/bioc/html/VariantAnnotation.html,R,1.44.0,N/A,bioconda,"pecotmr, quantqtl",Artistic-2.0,https://anaconda.org/bioconda/bioconductor-variantannotation, From 44d1bc91fa918e0dad068c33ebad62516e39a8c9 Mon Sep 17 00:00:00 2001 From: rfeng2023 Date: Fri, 2 Feb 2024 20:29:53 +0000 Subject: [PATCH 2/2] Update YAML files and Markdown table --- container/README.md | 2 +- container/pecotmr/pecotmr.yml | 2 +- container/readme/containers.md | 2 +- 3 files changed, 3 insertions(+), 3 deletions(-) diff --git a/container/README.md b/container/README.md index 4039c6bc..50ba4df6 100644 --- a/container/README.md +++ b/container/README.md @@ -94,7 +94,7 @@ On occasion, you may see errors that a download or upload has failed while build | r-rmtstat | [Link](https://cran.r-project.org/web/packages/RMTstat/index.html) | [Link](https://anaconda.org/conda-forge/r-rmtstat) | pcatools | 0.3.1 | conda‑forge | BSD‑3‑Clause | | r-fsusier | [Link](https://github.com/stephenslab/fsusier) | [Link](https://anaconda.org/dnachun/r-fsusier) | pecotmr | 0.2.0 | dnachun | GPL‑3.0‑or‑later | | r-mvsusier | [Link](https://github.com/stephenslab/mvsusieR) | [Link](https://anaconda.org/dnachun/r-mvsusier) | pecotmr | 0.1.0 | dnachun | GPL‑3.0‑or‑later | -| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.24 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.26 | dnachun | GPL‑3.0‑or‑later | | backports.zoneinfo | [Link](https://pypi.org/project/backports.zoneinfo/) | [Link](https://anaconda.org/conda-forge/backports.zoneinfo) | pecotmr, quantqtl | 0.2.1 | conda‑forge | Apache‑2.0 | | bioconductor-variantannotation | [Link](https://bioconductor.org/packages/release/bioc/html/VariantAnnotation.html) | [Link](https://anaconda.org/bioconda/bioconductor-variantannotation) | pecotmr, quantqtl | 1.44.0 | bioconda | Artistic‑2.0 | | python-ldstore | [Link](https://pypi.org/project/ldstore/) | [Link](https://anaconda.org/dnachun/python-ldstore) | pecotmr, quantqtl | 0.1.9 | dnachun | MIT | diff --git a/container/pecotmr/pecotmr.yml b/container/pecotmr/pecotmr.yml index 0e65644b..a718b987 100644 --- a/container/pecotmr/pecotmr.yml +++ b/container/pecotmr/pecotmr.yml @@ -15,7 +15,7 @@ dependencies: - r-genio=1.1.2 - r-gwasrapidd=0.99.14 - r-mvsusier=0.1.0 - - r-pecotmr=0.1.24 + - r-pecotmr=0.1.26 - r-udr=0.3.154 - altair - awscli diff --git a/container/readme/containers.md b/container/readme/containers.md index 14afc282..8af318b0 100644 --- a/container/readme/containers.md +++ b/container/readme/containers.md @@ -44,7 +44,7 @@ | r-rmtstat | [Link](https://cran.r-project.org/web/packages/RMTstat/index.html) | [Link](https://anaconda.org/conda-forge/r-rmtstat) | pcatools | 0.3.1 | conda‑forge | BSD‑3‑Clause | | r-fsusier | [Link](https://github.com/stephenslab/fsusier) | [Link](https://anaconda.org/dnachun/r-fsusier) | pecotmr | 0.2.0 | dnachun | GPL‑3.0‑or‑later | | r-mvsusier | [Link](https://github.com/stephenslab/mvsusieR) | [Link](https://anaconda.org/dnachun/r-mvsusier) | pecotmr | 0.1.0 | dnachun | GPL‑3.0‑or‑later | -| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.24 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.26 | dnachun | GPL‑3.0‑or‑later | | backports.zoneinfo | [Link](https://pypi.org/project/backports.zoneinfo/) | [Link](https://anaconda.org/conda-forge/backports.zoneinfo) | pecotmr, quantqtl | 0.2.1 | conda‑forge | Apache‑2.0 | | bioconductor-variantannotation | [Link](https://bioconductor.org/packages/release/bioc/html/VariantAnnotation.html) | [Link](https://anaconda.org/bioconda/bioconductor-variantannotation) | pecotmr, quantqtl | 1.44.0 | bioconda | Artistic‑2.0 | | python-ldstore | [Link](https://pypi.org/project/ldstore/) | [Link](https://anaconda.org/dnachun/python-ldstore) | pecotmr, quantqtl | 0.1.9 | dnachun | MIT |