annotate macros.xml @ 0:8dfd5d2b5903 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit 3a7b3609d6e514c9e8f980ecb684960c6b2252fe

<macros>
    <token name="@TOOL_VERSION@">0.1.13</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="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="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="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="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="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.
            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

        -->
    </xml>
</macros>