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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="2.15.1">
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4 <install version="1.0">
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5 <actions>
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6 <action type="download_by_url">http://CRAN.R-project.org/src/base/R-2/R-2.15.1.tar.gz</action>
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7 <action type="shell_command">./configure --prefix=$INSTALL_DIR</action>
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8 <action type="shell_command">make</action>
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9 <action type="set_environment">
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10 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
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11 </action>
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12 <action type="setup_r_environment">
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13 <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/BiocGenerics_0.8.0.tar.gz</package>
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14 <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/Biobase_2.22.0.tar.gz</package>
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15 <package>http://bioinformatics.mdanderson.org/OOMPA/2.15/src/contrib/oompaBase_3.0.1.tar.gz</package>
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16 <package>http://bioinformatics.mdanderson.org/OOMPA/2.15/src/contrib/ClassComparison_3.0.0.tar.gz</package>
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17 <package>http://cran.r-project.org/src/contrib/glmnet_1.9-5.tar.gz</package>
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18 </action>
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19 </actions>
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20 </install>
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21 <readme>You need a FORTRAN compiler or perhaps f2c in addition to a C compiler to build R.</readme>
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22 </package>
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23 </tool_dependency> |
