Mercurial > repos > fubar > differential_count_models
comparison tool_dependencies.xml @ 97:395197c30bf7 draft
Uploaded
| author | fubar |
|---|---|
| date | Sun, 02 Mar 2014 23:07:37 -0500 |
| parents | e7d02e6b253c |
| children | 4b0d2cfb458f |
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| 96:e7d02e6b253c | 97:395197c30bf7 |
|---|---|
| 18 <action type="set_environment_for_install"> | 18 <action type="set_environment_for_install"> |
| 19 <repository changeset_revision="4c934f6b342e" name="package_r303" owner="fubar" toolshed="http://testtoolshed.g2.bx.psu.edu/"> | 19 <repository changeset_revision="4c934f6b342e" name="package_r303" owner="fubar" toolshed="http://testtoolshed.g2.bx.psu.edu/"> |
| 20 <package name="r303" version="3.0.3" /> | 20 <package name="r303" version="3.0.3" /> |
| 21 </repository> | 21 </repository> |
| 22 </action> | 22 </action> |
| 23 <action type="make_directory">$INSTALL_DIR</action> | 23 <action type="make_directory">$INSTALL_DIR</action> |
| 24 <action type="shell_command">ls -l</action> | 24 <action type="move_file"> |
| 25 <action type="shell_command">export PATH=$PATH && R CMD BATCH $RUNME_PATH/runme.R </action> | 25 <source>">$REPOSITORY_INSTALL_DIR/runme.R</source> |
| 26 <destination>$INSTALL_DIR</destination> | |
| 27 </action> | |
| 28 <action type="shell_command">export PATH=$PATH && R CMD BATCH $INSTALL_DIR/runme.R </action> | |
| 26 </actions> | 29 </actions> |
| 27 </install> | 30 </install> |
| 28 <readme>Installs some basic bioc packages for the edgeR wrapper and dependencies graphicsmagick (replaces imagemagick) and ghostscript for compressing R's bloated pdfs | 31 <readme>Installs some basic bioc packages for the edgeR wrapper and dependencies graphicsmagick (replaces imagemagick) and ghostscript for compressing R's bloated pdfs |
| 29 It's clunky but this is the most convenient way I could get anything installed into the package_r3 | 32 It's clunky but this is the most convenient way I could get anything installed into the package_r3 |
| 30 Note we use cran at fred hutch since no fastest mirror thingy | 33 Note we use cran at fred hutch since no fastest mirror thingy |