Mercurial > repos > eschen42 > mqppep_anova

diff macros.xml @ 22:61adb8801b73 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit 0c7ca054e77e042c8a584c9903073da064df7d8b
author eschen42
date Thu, 30 Jun 2022 16:16:32 +0000
parents f3deca1a3c84
children f9cd87ac8006
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--- a/macros.xml	Wed Apr 13 19:48:32 2022 +0000
+++ b/macros.xml	Thu Jun 30 16:16:32 2022 +0000
@@ -1,17 +1,30 @@
 <macros>
-    <token name="@TOOL_VERSION@">0.1.12</token>
+    <token name="@TOOL_VERSION@">0.1.13</token>
     <token name="@VERSION_SUFFIX@">0</token>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="0.4.0"   >r-sass</requirement>
-            <requirement type="package" version="1.14.2"  >r-data.table</requirement>
             <requirement type="package" version="1.56.0"  >bioconductor-preprocesscore</requirement>
-            <requirement type="package" version="5.26.2"  >perl</requirement>
+            <requirement type="package" version="1.22.2"  >numpy</requirement>
             <requirement type="package" version="0.3.3"   >openblas</requirement>
-            <requirement type="package" version="1.22.2"  >numpy</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>
-            <requirement type="package" version="0.37"    >r-tinytex</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.
@@ -19,14 +32,58 @@
             with boxes) unless I specified the build as well as the version when building a
             conda environment, e.g.:  texlive-core=20210325=h97429d4_0
             -->
-            <requirement type="package" version="3.9.10"  >python</requirement>
-            <requirement type="package" version="0.9.4"   >r-latex2exp</requirement>
-            <requirement type="package" version="1.4.0"   >r-stringr</requirement>
-            <requirement type="package" version="1.64"    >perl-dbd-sqlite</requirement>
-            <requirement type="package" version="1.4.0"   >pyahocorasick</requirement>
-            <requirement type="package" version="2.11"    >r-rmarkdown</requirement>
-            <requirement type="package" version="1.4.1"   >pandas</requirement>
-            <requirement type="package" version="1.7.1"   >r-optparse</requirement>
         </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>