Mercurial > repos > devteam > package_r_2_11_0
view tool_dependencies.xml @ 2:5824d2b3bc8b draft default tip
Uploaded tool dependency definition that sets additional environment variables.
| author | devteam |
|---|---|
| date | Wed, 02 Apr 2014 10:44:50 -0400 |
| parents | 6e1b17857732 |
| children |
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<?xml version="1.0"?> <tool_dependency> <package name="R" version="2.11.0"> <install version="1.0"> <actions_group> <actions architecture="x86_64" os="darwin"> <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/R/R-2.11.0-Darwin-x86_64.tgz</action> <action type="move_directory_files"> <source_directory>.</source_directory> <destination_directory>$INSTALL_DIR</destination_directory> </action> </actions> <actions architecture="x86_64" os="linux"> <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/R/R-2.11.0-Linux-x86_64.tgz</action> <action type="move_directory_files"> <source_directory>.</source_directory> <destination_directory>$INSTALL_DIR</destination_directory> </action> <action type="set_environment"> <environment_variable action="set_to" name="TCL_LIBRARY">$INSTALL_DIR/lib/libtcl8.4.so</environment_variable> <environment_variable action="set_to" name="TK_LIBRARY">$INSTALL_DIR/lib/libtk8.4.so</environment_variable> </action> </actions> <actions> <package name="readline" version="6.2"> <repository changeset_revision="16fc64dad9ca" name="package_readline_6_2" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> <package name="libpng" version="1.6.7"> <repository changeset_revision="7c4a9189b712" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> <package name="cairo" version="1.12.14"> <repository changeset_revision="7f467a4010e0" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> <package name="pixman" version="0.32.4"> <repository changeset_revision="3d44a209a6b9" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> <package name="freetype" version="2.5.2"> <repository changeset_revision="92d1906a12e4" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> <action type="download_by_url">http://cran.rstudio.com/src/base/R-2/R-2.11.0.tar.gz</action> <action type="set_environment_for_install"> <repository changeset_revision="16fc64dad9ca" name="package_readline_6_2" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="readline" version="6.2" /> </repository> <repository changeset_revision="7c4a9189b712" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="libpng" version="1.6.7" /> </repository> <repository changeset_revision="7f467a4010e0" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="cairo" version="1.12.14" /> </repository> <repository changeset_revision="3d44a209a6b9" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="pixman" version="0.32.4" /> </repository> <repository changeset_revision="92d1906a12e4" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu"> <package name="freetype" version="2.5.2" /> </repository> </action> <action type="shell_command"> export LDFLAGS="-L$PNG_LIBS -L$READLINE_LIBS" && export LDFLAGS="$LDFLAGS -Wl,-rpath,$READLINE_LIBS" && export LDFLAGS="$LDFLAGS -Wl,-rpath,$PIXMAN_LIB_PATH" && export LDFLAGS="$LDFLAGS -Wl,-rpath,$PNG_LIB_PATH" && export LDFLAGS="$LDFLAGS -Wl,-rpath,$FREETYPE_LIB_PATH" && export CFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && export CXXFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && export CPPFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && ./configure --with-tcltk \ --with-blas \ --with-lapack \ --with-readline \ --with-cairo \ --with-libpng \ --without-x \ --enable-R-shlib \ --disable-R-framework \ --libdir=$INSTALL_DIR/lib \ --prefix=$INSTALL_DIR </action> <action type="make_install" /> <action type="shell_command">sed -i.bak 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/bin/R</action> <action type="shell_command">sed -i.bak 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/lib/R/bin/R</action> </actions> <action type="set_environment"> <environment_variable action="set_to" name="R_DOC_DIR">$INSTALL_DIR/lib/R/doc</environment_variable> <environment_variable action="set_to" name="R_HOME_DIR">$INSTALL_DIR/lib/R</environment_variable> <environment_variable action="set_to" name="R_INCLUDE_DIR">$INSTALL_DIR/lib/R/include</environment_variable> <environment_variable action="set_to" name="R_SHARE_DIR">$INSTALL_DIR/lib/R/share</environment_variable> <environment_variable action="set_to" name="R_ROOT_DIR">$INSTALL_DIR</environment_variable> <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR/lib/R</environment_variable> <environment_variable action="set_to" name="RHOME">$INSTALL_DIR/lib/R</environment_variable> <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> </action> </actions_group> </install> <readme> The precompiled Linux version of this package was built 2014-03-04. The precompiled OSX version of this package was built 2014-03-03. R is a free software environment for statistical computing and graphics. NOTE: See custom compilation options above. </readme> </package> </tool_dependency>