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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="R" version="3.2.0">
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4 <install version="1.0">
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5 <actions_group>
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6 <actions>
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7 <action type="download_by_url">http://cran.r-project.org/src/base/R-3/R-3.2.0.tar.gz</action>
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8 <action type="move_directory_files">
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9 <source_directory>R-3.2.0</source_directory>
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10 <destination_directory>$INSTALL_DIR</destination_directory>
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11 </action>
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12 <action type="shell_command">./configure --with-tcltk \
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13 --with-blas \
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14 --with-lapack \
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15 --with-readline \
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16 --with-cairo \
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17 --with-libpng \
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18 --without-x \
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19 --enable-R-shlib \
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20 --disable-R-framework \
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21 --libdir=$INSTALL_DIR/lib \
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22 --prefix=$INSTALL_DIR </action>
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23 <action type="shell_command">make</action>
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24 <action type="shell_command">make install</action>
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25
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26 <action type="set_environment">
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27 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
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28 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/R-3.2.0/bin</environment_variable>
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29 </action>
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30 </actions>
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31 </actions_group>
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32 </install>
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33 <readme>
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34 hdsj
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35 </readme>
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36 </package>
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37 <package name="limma" version="3.24.12">
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38 <install version="1.0">
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39 <actions>
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40 <action type="setup_r_environment">
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41 <package name="R" version="3.2.0" />
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42 <package>https://bioarchive.galaxyproject.org/limma_3.25.3.tar.gz</package>
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43 </action>
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44 </actions>
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45
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46 </install>
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47 <readme>
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48 limma_3.24.12 installed now try edgeR
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49 </readme>
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50 </package>
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51
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52 </tool_dependency>
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