Mercurial > repos > pieterlukasse > prims_metabolomics
changeset 7:504be42b4927
revert
| author | pieter.lukasse@wur.nl |
|---|---|
| date | Thu, 06 Nov 2014 11:32:16 +0100 |
| parents | dee3302c1ed0 |
| children | ddef5534c294 |
| files | INSTALL.r tool_dependencies.xml |
| diffstat | 2 files changed, 1 insertions(+), 25 deletions(-) [+] |
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--- a/INSTALL.r Thu Nov 06 10:50:02 2014 +0100 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,16 +0,0 @@ -# get R http://cran.r-project.org/src/base/R-3/R-3.0.3.tar.gz - -# installs Bioconductor -source("http://bioconductor.org/biocLite.R") -biocLite() - -# upgrage? Some packages are "old" and can be upgraded with: biocLite("BiocUpgrade") - - -# install metaMS and multtest for differential analysis tool (from xcms) -biocLite("metaMS") -biocLite("multtest") - -# for "multi-threading" (actually starts multiple R processes for parallel processing): -install.packages("snow", repos="http://cran.rstudio.com/") -
--- a/tool_dependencies.xml Thu Nov 06 10:50:02 2014 +0100 +++ b/tool_dependencies.xml Thu Nov 06 11:32:16 2014 +0100 @@ -3,15 +3,7 @@ <!-- see also http://wiki.galaxyproject.org/ToolShedToolFeatures for syntax help --> <package name="R_bioc_metams" version="3.1.1"> - <repository changeset_revision="0af753942e7b" name="prims_metabolomics_dependencies" owner="pieterlukasse" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> - <install version="1.0"> - <actions_group> - <!-- the Bioconductor and metaMS part --> - <action type="shell_command">wget -P $INSTALL_DIR http://testtoolshed.g2.bx.psu.edu/repos/pieterlukasse/prims_metabolomics/raw-file/tip/INSTALL.r</action> - <action type="shell_command">$R_ROOT_DIR/bin/Rscript $INSTALL_DIR/INSTALL.r</action> - </actions_group> - </install> - + <repository changeset_revision="81033deb458e" name="prims_metabolomics_dependencies" owner="pieterlukasse" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> </package> <readme> This dependency: