From 6a5c5df3b87e410dd0741d7a566efba57e923825 Mon Sep 17 00:00:00 2001 From: Gao Wang Date: Mon, 4 Mar 2024 09:48:17 -0500 Subject: [PATCH 1/2] Update pecotmr image --- container/containers.csv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/container/containers.csv b/container/containers.csv index eebad1c4..1e3f0d59 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,0.1.38,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-pecotmr, +r-pecotmr,https://github.com/cumc/pecotmr,R,0.1.39,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 ff96b2d64cd4bb81f1a7f048004a0443c5414c28 Mon Sep 17 00:00:00 2001 From: gaow Date: Mon, 4 Mar 2024 14:50:50 +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 5ffa894e..622a9c19 100644 --- a/container/README.md +++ b/container/README.md @@ -93,7 +93,7 @@ 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 | 0.1.38 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.39 | dnachun | GPL‑3.0‑or‑later | | r-susier | [Link](https://github.com/stephenslab/susieR) | [Link](https://anaconda.org/conda-forge/r-susier) | pecotmr, fastenloc | 0.14.4 | conda‑forge | MIT | | 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 | diff --git a/container/pecotmr/pecotmr.yml b/container/pecotmr/pecotmr.yml index f8dc6e67..f302b7a3 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=0.1.38 + - r-pecotmr=0.1.39 - r-susier=0.14.4 - r-udr=0.3.154 - altair diff --git a/container/readme/containers.md b/container/readme/containers.md index 45176c67..8c0ddc42 100644 --- a/container/readme/containers.md +++ b/container/readme/containers.md @@ -43,7 +43,7 @@ | 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 | 0.1.38 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.39 | dnachun | GPL‑3.0‑or‑later | | r-susier | [Link](https://github.com/stephenslab/susieR) | [Link](https://anaconda.org/conda-forge/r-susier) | pecotmr, fastenloc | 0.14.4 | conda‑forge | MIT | | 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 |