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use r-flashier 1.0.21 (cumc#914)
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* use r-flashier 1.0.21

* Update YAML files and Markdown table

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Co-authored-by: danielnachun <danielnachun@users.noreply.github.com>
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@danielnachun @rfeng2023
2 people authored and rfeng2023 committed Mar 15, 2024
1 parent f6fad00 commit b842774
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2 changes: 1 addition & 1 deletion container/README.md
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Expand Up @@ -114,7 +114,7 @@ On occasion, you may see errors that a download or upload has failed while build
| r-qrank | [Link](https://CRAN.R-project.org/package=QRank) | [Link](https://anaconda.org/dnachun/r-qrank) | quantqtl | 1 | dnachun | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-quantreg | [Link](https://cran.r-project.org/web/packages/quantreg/index.html) | [Link](https://anaconda.org/conda-forge/r-quantreg) | quantqtl | 5.97 | conda&#x2011;forge | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-rfast | [Link](https://cran.r-project.org/web/packages/Rfast/index.html) | [Link](https://anaconda.org/conda-forge/r-rfast) | quantqtl | 2.0.8 | conda&#x2011;forge | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-flashier | [Link](https://github.com/willwerscheid/flashier) | [Link](https://anaconda.org/dnachun/r-flashier) | quantqtl, factor_analysis | 0.2.51 | dnachun | GPL&#x2011;3.0&#x2011;or&#x2011;later |
| r-flashier | [Link](https://github.com/willwerscheid/flashier) | [Link](https://anaconda.org/dnachun/r-flashier) | quantqtl, factor_analysis | 1.0.21 | dnachun | GPL&#x2011;3.0&#x2011;or&#x2011;later |
| ensembl-vep | [Link](https://github.com/Ensembl/ensembl-vep) | [Link](https://anaconda.org/bioconda/ensembl-vep) | rare_variation | 110.1 | dnachun | Apache&#x2011;2.0 |
| r-watershedr | [Link](https://github.com/nicolerg/WatershedR) | [Link](https://anaconda.org/dnachun/r-watershedr) | rare_variation | 1.0.0 | dnachun | MIT |
| bamtools | [Link](https://github.com/pezmaster31/bamtools) | [Link](https://anaconda.org/bioconda/bamtools) | rna_quantification | 2.5.2 | bioconda | MIT |
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2 changes: 1 addition & 1 deletion container/containers.csv
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Expand Up @@ -42,7 +42,7 @@ ldstore,http://christianbenner.com,C/C++,2,N/A,dnachun,polyfun,Other,https://ana
polyfun,https://github.com/omerwe/polyfun,Python,1,de889bde9ce3d46326fc5ea568b623450f349569,dnachun,polyfun,MIT,https://anaconda.org/dnachun/polyfun,
bioconductor-psichomics,https://bioconductor.org/packages/release/bioc/html/psichomics.html,R,1.26.0,N/A,bioconda,psichomics,MIT AND Other,https://anaconda.org/bioconda/bioconductor-psichomics,
suppa,https://pypi.org/project/SUPPA/,Python,2.3,N/A,bioconda,psichomics,MIT,https://anaconda.org/bioconda/suppa,
r-flashier,https://github.com/willwerscheid/flashier,R,0.2.51,N/A,dnachun,"quantqtl, factor_analysis",GPL-3.0-or-later,https://anaconda.org/dnachun/r-flashier,This does not have a valid license on GitHub
r-flashier,https://github.com/willwerscheid/flashier,R,1.0.21,N/A,dnachun,"quantqtl, factor_analysis",GPL-3.0-or-later,https://anaconda.org/dnachun/r-flashier,This does not have a valid license on GitHub
r-mashr,https://github.com/stephenslab/mashr,R,0.2.73,N/A,dnachun,quantqtl,BSD-3-Clause,https://anaconda.org/dnachun/r-mashr,
r-plink2r,https://github.com/gabraham/plink2R,R,1.1,d74be015e8f54d662b96c6c2a52a614746f9030d,dnachun,quantqtl,Other,https://anaconda.org/dnachun/r-plink2r,Fix license info
r-quantreg,https://cran.r-project.org/web/packages/quantreg/index.html,R,5.97,N/A,conda-forge,quantqtl,GPL-2.0-or-later,https://anaconda.org/conda-forge/r-quantreg,
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2 changes: 1 addition & 1 deletion container/factor_analysis/factor_analysis.yml
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Expand Up @@ -10,7 +10,7 @@ dependencies:
- bioconductor-mofa2=1.10.0
- htslib
- mofapy2=0.7.0
- r-flashier=0.2.51
- r-flashier=1.0.21
- r-missforest=1.5
- r-rcppeigen=0.3.3.9.3
- r-rlang=1.1.1
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2 changes: 1 addition & 1 deletion container/quantqtl/quantqtl.yml
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Expand Up @@ -13,7 +13,7 @@ dependencies:
- r-complexupset=1.3.3
- r-cowplot=1.1.1
- r-data.table=1.14.8
- r-flashier=0.2.51
- r-flashier=1.0.21
- r-genio=1.1.2
- r-gwasrapidd=0.99.14
- r-mashr=0.2.73
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2 changes: 1 addition & 1 deletion container/readme/containers.md
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Expand Up @@ -64,7 +64,7 @@
| r-qrank | [Link](https://CRAN.R-project.org/package=QRank) | [Link](https://anaconda.org/dnachun/r-qrank) | quantqtl | 1 | dnachun | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-quantreg | [Link](https://cran.r-project.org/web/packages/quantreg/index.html) | [Link](https://anaconda.org/conda-forge/r-quantreg) | quantqtl | 5.97 | conda&#x2011;forge | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-rfast | [Link](https://cran.r-project.org/web/packages/Rfast/index.html) | [Link](https://anaconda.org/conda-forge/r-rfast) | quantqtl | 2.0.8 | conda&#x2011;forge | GPL&#x2011;2.0&#x2011;or&#x2011;later |
| r-flashier | [Link](https://github.com/willwerscheid/flashier) | [Link](https://anaconda.org/dnachun/r-flashier) | quantqtl, factor_analysis | 0.2.51 | dnachun | GPL&#x2011;3.0&#x2011;or&#x2011;later |
| r-flashier | [Link](https://github.com/willwerscheid/flashier) | [Link](https://anaconda.org/dnachun/r-flashier) | quantqtl, factor_analysis | 1.0.21 | dnachun | GPL&#x2011;3.0&#x2011;or&#x2011;later |
| ensembl-vep | [Link](https://github.com/Ensembl/ensembl-vep) | [Link](https://anaconda.org/bioconda/ensembl-vep) | rare_variation | 110.1 | dnachun | Apache&#x2011;2.0 |
| r-watershedr | [Link](https://github.com/nicolerg/WatershedR) | [Link](https://anaconda.org/dnachun/r-watershedr) | rare_variation | 1.0.0 | dnachun | MIT |
| bamtools | [Link](https://github.com/pezmaster31/bamtools) | [Link](https://anaconda.org/bioconda/bamtools) | rna_quantification | 2.5.2 | bioconda | MIT |
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