Mercurial > repos > galaxyp > mqppep_preproc
diff macros.xml @ 1:b76c75521d91 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit 43e7a43b545c24b2dc33d039198551c032aa79be
| author | galaxyp |
|---|---|
| date | Fri, 28 Oct 2022 18:26:42 +0000 |
| parents | 8dfd5d2b5903 |
| children | a5e7469dfdfa |
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--- a/macros.xml Mon Jul 11 19:22:54 2022 +0000 +++ b/macros.xml Fri Oct 28 18:26:42 2022 +0000 @@ -1,89 +1,47 @@ <macros> - <token name="@TOOL_VERSION@">0.1.13</token> + <token name="@TOOL_VERSION@">0.1.15</token> <token name="@VERSION_SUFFIX@">0</token> <xml name="requirements"> <requirements> <requirement type="package" version="1.56.0" >bioconductor-preprocesscore</requirement> - <requirement type="package" version="1.22.2" >numpy</requirement> + <requirement type="package" version="6.2.1" >gmp</requirement> + <requirement type="package" version="1.23.4" >numpy</requirement> <requirement type="package" version="0.3.3" >openblas</requirement> - <requirement type="package" version="1.4.1" >pandas</requirement> - <requirement type="package" version="1.64" >perl-dbd-sqlite</requirement> - <requirement type="package" version="5.26.2" >perl</requirement> - <requirement type="package" version="1.4.0" >pyahocorasick</requirement> - <requirement type="package" version="3.9.10" >python</requirement> - <requirement type="package" version="1.14.2" >r-data.table</requirement> - <requirement type="package" version="1.1.2" >r-dbi</requirement> - <requirement type="package" version="3.3.5" >r-ggplot2</requirement> + <requirement type="package" version="1.5.1" >pandas</requirement> + <requirement type="package" version="1.70" >perl-dbd-sqlite</requirement> + <requirement type="package" version="5.32.1" >perl</requirement> + <requirement type="package" version="1.4.4" >pyahocorasick</requirement> + <requirement type="package" version="3.10.6" >python</requirement> + <requirement type="package" version="4.1.3" >r-base</requirement> + <requirement type="package" version="6.0_93" >r-caret</requirement> + <requirement type="package" version="1.14.4" >r-data.table</requirement> + <requirement type="package" version="1.1.3" >r-dbi</requirement> + <requirement type="package" version="3.3.6" >r-ggplot2</requirement> <requirement type="package" version="3.1.3" >r-gplots</requirement> - <requirement type="package" version="0.9.4" >r-latex2exp</requirement> - <requirement type="package" version="1.7.1" >r-optparse</requirement> + <requirement type="package" version="0.9.5" >r-latex2exp</requirement> + <requirement type="package" version="1.7.3" >r-optparse</requirement> <requirement type="package" version="1.4.4" >r-reshape2</requirement> - <requirement type="package" version="2.11" >r-rmarkdown</requirement> - <requirement type="package" version="2.2.8" >r-rsqlite</requirement> - <requirement type="package" version="0.4.0" >r-sass</requirement> + <requirement type="package" version="2.17" >r-rmarkdown</requirement> + <!-- + <requirement type="package" version="2.2.18" >r-rsqlite</requirement> + <requirement type="package" version="0.4.2" >r-sass</requirement> + --> + <requirement type="package" version="1.2.2" >r-sessioninfo</requirement> <requirement type="package" version="0.4_11" >r-sqldf</requirement> - <requirement type="package" version="1.4.0" >r-stringr</requirement> - <requirement type="package" version="0.37" >r-tinytex</requirement> + <requirement type="package" version="1.4.1" >r-stringr</requirement> + <requirement type="package" version="0.42" >r-tinytex</requirement> <requirement type="package" version="0.3.7" >r-vioplot</requirement> <!-- It would be nice to use conda-forge/texlive-core rather than r-tinytex because the - former installs texlive when the package is built, but issue 23 blocked PDF-creation. + former installs texlive when the package is built, but issue 19/61 blocked PDF-creation. Also, texlive-core also gave pango font errors (output had missing symbols replaced with boxes) unless I specified the build as well as the version when building a conda environment, e.g.: texlive-core=20210325=h97429d4_0 --> </requirements> - <!-- I specified the versions above because it takes a VERY long time to search for package versions when they are not omitted; also, version numbers should lead to reproducible behavior. Contrast execution times of this (about 18 seconds): - echo n | time conda create -n mqppep_ver -c conda-forge -c bioconda \ - bioconductor-preprocesscore=1.56.0 \ - numpy=1.22.2 \ - openblas=0.3.3 \ - pandas=1.4.1 \ - perl-dbd-sqlite=1.64 \ - perl-dbd-sqlite=1.64 \ - perl=5.26.2 \ - pyahocorasick=1.4.0 \ - python=3.9.10 \ - r-data.table=1.14.2 \ - r-dbi=1.1.2 \ - r-ggplot2=3.3.5 \ - r-gplots=3.1.3 \ - r-latex2exp=0.9.4 \ - r-optparse=1.7.1 \ - r-reshape2=1.4.4 \ - r-rmarkdown=2.11 \ - r-rsqlite=2.2.8 \ - r-sass=0.4.0 \ - r-sqldf=0.4_11 \ - r-stringr=1.4.0 \ - r-tinytex=0.37 \ - r-vioplot=0.3.7 - with this (42 or more seconds): - echo n | time conda create -n mqppep_nover -c conda-forge -c bioconda \ - bioconductor-preprocesscore= \ - numpy \ - openblas=0.3.3 \ - pandas \ - perl \ - perl-dbd-sqlite \ - perl-dbd-sqlite \ - pyahocorasick \ - python \ - r-data.table \ - r-dbi \ - r-ggplot2 \ - r-gplots \ - r-latex2exp \ - r-optparse \ - r-reshape2 \ - r-rmarkdown \ - r-rsqlite \ - r-sass \ - r-sqldf \ - r-stringr \ - r-tinytex \ - r-vioplot - + <!-- I specified the versions above because it takes a VERY long time + to search for package versions when they are not omitted; also, + locking version numbers might lead to more-reproducible behavior. --> </xml> </macros>