Mercurial > repos > iuc > package_r_3_1_1
comparison tool_dependencies.xml @ 0:31c9c5014965 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_r_3_1_1 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
| author | iuc |
|---|---|
| date | Tue, 19 May 2015 15:01:15 -0400 |
| parents | |
| children | 6bac9a13b6b0 |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:31c9c5014965 |
|---|---|
| 1 <?xml version="1.0"?> | |
| 2 <tool_dependency> | |
| 3 <package name="R" version="3.1.1"> | |
| 4 <install version="1.0"> | |
| 5 <actions_group> | |
| 6 <actions architecture="x86_64" os="darwin"> | |
| 7 <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/R/R-3.1.1-Darwin-x86_64.tgz</action> | |
| 8 <action type="move_directory_files"> | |
| 9 <source_directory>.</source_directory> | |
| 10 <destination_directory>$INSTALL_DIR</destination_directory> | |
| 11 </action> | |
| 12 <action type="shell_command">sh $INSTALL_DIR/darwin_post_install.sh $INSTALL_DIR</action> | |
| 13 </actions> | |
| 14 <actions architecture="x86_64" os="linux"> | |
| 15 <action type="download_by_url">http://cran.rstudio.com/src/base/R-3/R-3.1.1.tar.gz</action> | |
| 16 <package name="readline" version="6.2"> | |
| 17 <repository name="package_readline_6_2" owner="iuc" prior_installation_required="True" /> | |
| 18 </package> | |
| 19 <package name="libpng" version="1.6.7"> | |
| 20 <repository name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" /> | |
| 21 </package> | |
| 22 <package name="cairo" version="1.12.14"> | |
| 23 <repository name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" /> | |
| 24 </package> | |
| 25 <package name="pixman" version="0.32.4"> | |
| 26 <repository name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" /> | |
| 27 </package> | |
| 28 <package name="freetype" version="2.5.2"> | |
| 29 <repository name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" /> | |
| 30 </package> | |
| 31 <action type="set_environment"> | |
| 32 <environment_variable action="set_to" name="TCL_LIBRARY">$INSTALL_DIR/lib/libtcl8.4.so</environment_variable> | |
| 33 <environment_variable action="set_to" name="TK_LIBRARY">$INSTALL_DIR/lib/libtk8.4.so</environment_variable> | |
| 34 </action> | |
| 35 <action type="set_environment_for_install"> | |
| 36 <repository name="package_readline_6_2" owner="iuc" prior_installation_required="True" > | |
| 37 <package name="readline" version="6.2" /> | |
| 38 </repository> | |
| 39 <repository name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" > | |
| 40 <package name="libpng" version="1.6.7" /> | |
| 41 </repository> | |
| 42 <repository name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" > | |
| 43 <package name="cairo" version="1.12.14" /> | |
| 44 </repository> | |
| 45 <repository name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" > | |
| 46 <package name="pixman" version="0.32.4" /> | |
| 47 </repository> | |
| 48 <repository name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" > | |
| 49 <package name="freetype" version="2.5.2" /> | |
| 50 </repository> | |
| 51 </action> | |
| 52 <action type="shell_command"> | |
| 53 export LDFLAGS="-L$PNG_LIBS -L$READLINE_LIB_PATH" && | |
| 54 export LDFLAGS="$LDFLAGS -Wl,-rpath,$READLINE_LIB_PATH" && | |
| 55 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PIXMAN_LIB_PATH" && | |
| 56 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PNG_LIB_PATH" && | |
| 57 export LDFLAGS="$LDFLAGS -Wl,-rpath,$FREETYPE_LIB_PATH" && | |
| 58 export CFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 59 export CXXFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 60 export CPPFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 61 ./configure --with-tcltk \ | |
| 62 --with-blas \ | |
| 63 --with-lapack \ | |
| 64 --with-readline \ | |
| 65 --with-cairo \ | |
| 66 --with-libpng \ | |
| 67 --without-x \ | |
| 68 --enable-R-shlib \ | |
| 69 --disable-R-framework \ | |
| 70 --libdir=$INSTALL_DIR/lib \ | |
| 71 --prefix=$INSTALL_DIR | |
| 72 </action> | |
| 73 <action type="make_install" /> | |
| 74 <action type="shell_command">sed -i.bak -e 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/bin/R</action> | |
| 75 <action type="shell_command">sed -i.bak -e 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/lib/R/bin/R</action> | |
| 76 </actions> | |
| 77 <action type="set_environment"> | |
| 78 <environment_variable action="set_to" name="R_DOC_DIR">$INSTALL_DIR/lib/R/doc</environment_variable> | |
| 79 <environment_variable action="set_to" name="R_HOME_DIR">$INSTALL_DIR/lib/R</environment_variable> | |
| 80 <environment_variable action="set_to" name="R_INCLUDE_DIR">$INSTALL_DIR/lib/R/include</environment_variable> | |
| 81 <environment_variable action="set_to" name="R_SHARE_DIR">$INSTALL_DIR/lib/R/share</environment_variable> | |
| 82 <environment_variable action="set_to" name="R_ROOT_DIR">$INSTALL_DIR</environment_variable> | |
| 83 <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR/lib/R</environment_variable> | |
| 84 <environment_variable action="set_to" name="RHOME">$INSTALL_DIR/lib/R</environment_variable> | |
| 85 <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable> | |
| 86 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | |
| 87 </action> | |
| 88 </actions_group> | |
| 89 </install> | |
| 90 <readme> | |
| 91 Using Rstudio cran which seems to be properly versioned. | |
| 92 darwin needs work - I have no mac access... | |
| 93 R is a free software environment for statistical computing and graphics. | |
| 94 NOTE: See custom compilation options above. | |
| 95 </readme> | |
| 96 </package> | |
| 97 </tool_dependency> |