Mercurial > repos > devteam > package_r_2_11_0
annotate tool_dependencies.xml @ 6:497dd02b0fe2 default tip
Added $RHOME environment variable
| author | devteam <devteam@galaxyproject.org> |
|---|---|
| date | Wed, 30 Apr 2014 12:51:55 -0400 |
| parents | 2c0a13200a73 |
| children |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 <package name="R" version="2.11.0"> | |
| 4 <install version="1.0"> | |
| 2 | 5 <actions_group> |
| 6 <actions architecture="x86_64" os="darwin"> | |
| 7 <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/R/R-2.11.0-Darwin-x86_64.tgz</action> | |
| 8 <action type="move_directory_files"> | |
| 9 <source_directory>.</source_directory> | |
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ec964438bb46
Uploaded tool dependency definition with corrected paths.
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diff
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10 <destination_directory>$INSTALL_DIR</destination_directory> |
| 2 | 11 </action> |
| 12 </actions> | |
| 13 <actions architecture="x86_64" os="linux"> | |
| 14 <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/R/R-2.11.0-Linux-x86_64.tgz</action> | |
| 15 <action type="move_directory_files"> | |
| 16 <source_directory>.</source_directory> | |
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ec964438bb46
Uploaded tool dependency definition with corrected paths.
devteam
parents:
2
diff
changeset
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17 <destination_directory>$INSTALL_DIR</destination_directory> |
| 2 | 18 </action> |
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bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
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19 <action type="set_environment"> |
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bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
20 <environment_variable action="set_to" name="TCL_LIBRARY">$INSTALL_DIR/lib/libtcl8.4.so</environment_variable> |
|
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
21 <environment_variable action="set_to" name="TK_LIBRARY">$INSTALL_DIR/lib/libtk8.4.so</environment_variable> |
|
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
22 </action> |
| 2 | 23 </actions> |
| 24 <actions> | |
| 25 <package name="readline" version="6.2"> | |
| 26 <repository changeset_revision="f4201ff5aa66" name="package_readline_6_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 27 </package> | |
| 28 <package name="libpng" version="1.6.7"> | |
| 29 <repository changeset_revision="a0b0e0281cc4" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 30 </package> | |
| 31 <package name="cairo" version="1.12.14"> | |
| 32 <repository changeset_revision="4f7c800b1050" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 33 </package> | |
| 34 <package name="pixman" version="0.32.4"> | |
| 35 <repository changeset_revision="bcf53d429118" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 36 </package> | |
| 37 <package name="freetype" version="2.5.2"> | |
| 38 <repository changeset_revision="86bbb06ec11b" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 39 </package> | |
| 5 | 40 <action type="download_by_url">http://cran.rstudio.com/src/base/R-2/R-2.11.0.tar.gz</action> |
| 2 | 41 <action type="set_environment_for_install"> |
| 42 <repository changeset_revision="f4201ff5aa66" name="package_readline_6_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu"> | |
| 43 <package name="readline" version="6.2" /> | |
| 44 </repository> | |
| 45 <repository changeset_revision="a0b0e0281cc4" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu"> | |
| 46 <package name="libpng" version="1.6.7" /> | |
| 47 </repository> | |
| 48 <repository changeset_revision="4f7c800b1050" name="package_cairo_1_12_14" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu"> | |
| 49 <package name="cairo" version="1.12.14" /> | |
| 50 </repository> | |
| 51 <repository changeset_revision="bcf53d429118" name="package_pixman_0_32_4" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu"> | |
| 52 <package name="pixman" version="0.32.4" /> | |
| 53 </repository> | |
| 54 <repository changeset_revision="86bbb06ec11b" name="package_freetype_2_5_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu"> | |
| 55 <package name="freetype" version="2.5.2" /> | |
| 56 </repository> | |
| 57 </action> | |
| 58 <action type="shell_command"> | |
| 59 export LDFLAGS="-L$PNG_LIBS -L$READLINE_LIBS" && | |
| 60 export LDFLAGS="$LDFLAGS -Wl,-rpath,$READLINE_LIBS" && | |
| 61 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PIXMAN_LIB_PATH" && | |
| 62 export LDFLAGS="$LDFLAGS -Wl,-rpath,$PNG_LIB_PATH" && | |
| 63 export LDFLAGS="$LDFLAGS -Wl,-rpath,$FREETYPE_LIB_PATH" && | |
| 64 export CFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && | |
| 65 export CXXFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && | |
| 66 export CPPFLAGS="-I$PNG_INCLUDES -I$READLINE_INCLUDES" && | |
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4
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
67 ./configure --with-tcltk \ |
|
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
68 --with-blas \ |
| 2 | 69 --with-lapack \ |
| 70 --with-readline \ | |
| 71 --with-cairo \ | |
| 72 --with-libpng \ | |
| 73 --without-x \ | |
| 74 --enable-R-shlib \ | |
| 75 --disable-R-framework \ | |
| 76 --libdir=$INSTALL_DIR/lib \ | |
| 77 --prefix=$INSTALL_DIR | |
| 78 </action> | |
| 79 <action type="make_install" /> | |
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4
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
80 <action type="shell_command">sed -i.bak 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/bin/R</action> |
|
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
81 <action type="shell_command">sed -i.bak 's;$INSTALL_DIR;\${R_ROOT_DIR};g' $INSTALL_DIR/lib/R/bin/R</action> |
| 2 | 82 </actions> |
| 0 | 83 <action type="set_environment"> |
| 2 | 84 <environment_variable action="set_to" name="R_ROOT_DIR">$INSTALL_DIR</environment_variable> |
| 0 | 85 <environment_variable action="set_to" name="R_HOME">$INSTALL_DIR/lib/R</environment_variable> |
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6
497dd02b0fe2
Added $RHOME environment variable
devteam <devteam@galaxyproject.org>
parents:
5
diff
changeset
|
86 <environment_variable action="set_to" name="RHOME">$INSTALL_DIR/lib/R</environment_variable> |
| 0 | 87 <environment_variable action="set_to" name="R_LIBS">$INSTALL_DIR/lib/R/library</environment_variable> |
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3
ec964438bb46
Uploaded tool dependency definition with corrected paths.
devteam
parents:
2
diff
changeset
|
88 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> |
| 0 | 89 </action> |
| 2 | 90 </actions_group> |
| 0 | 91 </install> |
| 92 <readme> | |
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4
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
93 The precompiled Linux version of this package was built 2014-03-04. |
| 2 | 94 The precompiled OSX version of this package was built 2014-03-03. |
| 0 | 95 R is a free software environment for statistical computing and graphics. |
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4
bd5df464b764
Uploaded tool dependency definition that enables tck/tk for the precompiled linux version.
devteam
parents:
3
diff
changeset
|
96 NOTE: See custom compilation options above. |
| 0 | 97 </readme> |
| 98 </package> | |
| 2 | 99 </tool_dependency> |