From 3579c5f5dee80a8d5a5cf161105b801bb95250dc Mon Sep 17 00:00:00 2001 From: rl3328 Date: Mon, 16 Sep 2024 13:25:16 -0400 Subject: [PATCH 1/2] Update containers.csv After ensuring the pecotmr is updated in anaconda.org, I changed the version here. --- container/containers.csv | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/container/containers.csv b/container/containers.csv index f3174081..1a26dea8 100644 --- a/container/containers.csv +++ b/container/containers.csv @@ -73,7 +73,7 @@ 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,0.1.7,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-mvsusier, -r-pecotmr,https://github.com/cumc/pecotmr,R,0.1.67,N/A,dnachun,pecotmr,GPL-3.0-or-later,https://anaconda.org/dnachun/r-pecotmr, +r-pecotmr,https://github.com/cumc/pecotmr,R,0.1.69,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,1.48.1,N/A,bioconda,"pecotmr, quantqtl",Artistic-2.0,https://anaconda.org/bioconda/bioconductor-variantannotation, From 8f42adc13a9e23ef3da52befc3362fcd1e972fa3 Mon Sep 17 00:00:00 2001 From: rl3328 Date: Mon, 16 Sep 2024 17:27:03 +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 3fb83a51..1d49cfe2 100644 --- a/container/README.md +++ b/container/README.md @@ -97,7 +97,7 @@ 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 | 0.1.7 | dnachun | GPL‑3.0‑or‑later | -| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.66 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.69 | dnachun | GPL‑3.0‑or‑later | | r-susier | [Link](https://github.com/stephenslab/susieR) | [Link](https://anaconda.org/conda-forge/r-susier) | pecotmr, fastenloc | 0.14.7 | 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 | 1.48.1 | bioconda | Artistic‑2.0 | diff --git a/container/pecotmr/pecotmr.yml b/container/pecotmr/pecotmr.yml index 1c35bb36..a6b756b6 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=0.1.7 - - r-pecotmr=0.1.66 + - r-pecotmr=0.1.69 - r-susier=0.14.7 - r-udr=0.3.154 - altair diff --git a/container/readme/containers.md b/container/readme/containers.md index 0d97b329..02795705 100644 --- a/container/readme/containers.md +++ b/container/readme/containers.md @@ -47,7 +47,7 @@ | 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 | 0.1.7 | dnachun | GPL‑3.0‑or‑later | -| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.66 | dnachun | GPL‑3.0‑or‑later | +| r-pecotmr | [Link](https://github.com/cumc/pecotmr) | [Link](https://anaconda.org/dnachun/r-pecotmr) | pecotmr | 0.1.69 | dnachun | GPL‑3.0‑or‑later | | r-susier | [Link](https://github.com/stephenslab/susieR) | [Link](https://anaconda.org/conda-forge/r-susier) | pecotmr, fastenloc | 0.14.7 | 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 | 1.48.1 | bioconda | Artistic‑2.0 |