Mercurial > repos > iuc > package_r_3_0_3
annotate tool_dependencies.xml @ 8:963e18191af1 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_r_3_0_3 commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
| author | iuc |
|---|---|
| date | Tue, 22 Dec 2015 19:34:16 -0500 |
| parents | 6ce19fda3a9a |
| children | 6f4eaf9dab65 |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 <package name="R" version="3.0.3"> | |
| 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-3.0.3-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> | |
| 2 | 12 <action type="shell_command">sh $INSTALL_DIR/darwin_post_install.sh $INSTALL_DIR</action> |
| 0 | 13 </actions> |
| 14 <actions architecture="x86_64" os="linux"> | |
| 15 <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/R/R-3.0.3-Linux-x86_64.tgz</action> | |
| 16 <action type="move_directory_files"> | |
| 17 <source_directory>.</source_directory> | |
| 18 <destination_directory>$INSTALL_DIR</destination_directory> | |
| 19 </action> | |
| 20 <action type="set_environment"> | |
| 21 <environment_variable action="set_to" name="TCL_LIBRARY">$INSTALL_DIR/lib/libtcl8.4.so</environment_variable> | |
| 22 <environment_variable action="set_to" name="TK_LIBRARY">$INSTALL_DIR/lib/libtk8.4.so</environment_variable> | |
| 23 </action> | |
| 24 </actions> | |
| 25 <actions> | |
| 26 <package name="readline" version="6.2"> | |
|
8
963e18191af1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_r_3_0_3 commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
7
diff
changeset
|
27 <repository changeset_revision="618c94461551" name="package_readline_6_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 28 </package> |
| 29 <package name="libpng" version="1.6.7"> | |
| 2 | 30 <repository changeset_revision="833849e0ddfc" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 31 </package> |
| 32 <package name="cairo" version="1.12.14"> | |
| 2 | 33 <repository changeset_revision="8f011e7388e1" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 34 </package> |
| 35 <package name="pixman" version="0.32.4"> | |
| 2 | 36 <repository changeset_revision="bcf53d429118" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 37 </package> |
| 38 <package name="freetype" version="2.5.2"> | |
| 2 | 39 <repository changeset_revision="34ebf47e4941" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 0 | 40 </package> |
| 41 <action type="download_by_url">http://cran.rstudio.com/src/base/R-3/R-3.0.3.tar.gz</action> | |
| 42 <action type="set_environment_for_install"> | |
|
8
963e18191af1
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_r_3_0_3 commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
iuc
parents:
7
diff
changeset
|
43 <repository changeset_revision="618c94461551" name="package_readline_6_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 44 <package name="readline" version="6.2" /> |
| 45 </repository> | |
| 2 | 46 <repository changeset_revision="833849e0ddfc" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 47 <package name="libpng" version="1.6.7" /> |
| 48 </repository> | |
| 2 | 49 <repository changeset_revision="8f011e7388e1" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 50 <package name="cairo" version="1.12.14" /> |
| 51 </repository> | |
| 2 | 52 <repository changeset_revision="bcf53d429118" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 53 <package name="pixman" version="0.32.4" /> |
| 54 </repository> | |
| 2 | 55 <repository changeset_revision="34ebf47e4941" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu"> |
| 0 | 56 <package name="freetype" version="2.5.2" /> |
| 57 </repository> | |
| 58 </action> | |
| 59 <action type="shell_command"> | |
| 60 export LDFLAGS="-L$PNG_LIBS -L$READLINE_LIB_PATH" && | |
| 61 export LDFLAGS="$LDFLAGS -Wl,-rpath,$READLINE_LIB_PATH" && | |
| 62 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PIXMAN_LIB_PATH" && | |
| 63 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PNG_LIB_PATH" && | |
| 64 export LDFLAGS="$LDFLAGS -Wl,-rpath,$FREETYPE_LIB_PATH" && | |
| 65 export CFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 66 export CXXFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 67 export CPPFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDE_PATH" && | |
| 68 ./configure --with-tcltk \ | |
| 69 --with-blas \ | |
| 70 --with-lapack \ | |
| 71 --with-readline \ | |
| 72 --with-cairo \ | |
| 73 --with-libpng \ | |
| 74 --without-x \ | |
| 75 --enable-R-shlib \ | |
| 76 --disable-R-framework \ | |
| 77 --libdir=$INSTALL_DIR/lib \ | |
| 3 | 78 --prefix=$INSTALL_DIR |
| 0 | 79 </action> |
| 80 <action type="make_install" /> | |
| 3 | 81 <action type="shell_command">sed -i.bak -e 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/bin/R</action> |
| 82 <action type="shell_command">sed -i.bak -e 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/lib/R/bin/R</action> | |
| 0 | 83 </actions> |
| 84 <action type="set_environment"> | |
| 1 | 85 <environment_variable action="set_to" name="R_DOC_DIR">$INSTALL_DIR/lib/R/doc</environment_variable> |
| 86 <environment_variable action="set_to" name="R_HOME_DIR">$INSTALL_DIR/lib/R</environment_variable> | |
| 87 <environment_variable action="set_to" name="R_INCLUDE_DIR">$INSTALL_DIR/lib/R/include</environment_variable> | |
| 88 <environment_variable action="set_to" name="R_SHARE_DIR">$INSTALL_DIR/lib/R/share</environment_variable> | |
| 0 | 89 <environment_variable action="set_to" name="R_ROOT_DIR">$INSTALL_DIR</environment_variable> |
| 3 | 90 <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR</environment_variable> |
| 1 | 91 <environment_variable action="set_to" name="RHOME">$INSTALL_DIR/lib/R</environment_variable> |
| 0 | 92 <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable> |
| 93 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | |
| 3 | 94 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/R/lib</environment_variable> |
| 0 | 95 </action> |
| 96 </actions_group> | |
| 97 </install> | |
| 98 <readme> | |
| 99 The precompiled versions of this package were built 2014-03-07. | |
| 100 R is a free software environment for statistical computing and graphics. | |
| 101 NOTE: See custom compilation options above. | |
| 102 </readme> | |
| 103 </package> | |
| 104 </tool_dependency> |