Mercurial > repos > s-kaufmann > synteny_mapper
diff tool_dependencies.xml @ 17:98c0153c737a draft
Uploaded
author | s-kaufmann |
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date | Fri, 15 Aug 2014 10:31:26 -0400 |
parents | a6af076506eb |
children | cc66a156025d |
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--- a/tool_dependencies.xml Fri Aug 15 10:26:37 2014 -0400 +++ b/tool_dependencies.xml Fri Aug 15 10:31:26 2014 -0400 @@ -31,8 +31,48 @@ <environment_variable name="R_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable> </set_environment> - <package name="package_r_3_0_2" version="3.0.2"> - <repository changeset_revision="50f7e1e71271" name="package_r_3_0_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> - </package> + <package name="readline" version="6.2"> + <repository changeset_revision="052e8df231ac" name="package_readline_6_2" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="ncurses" version="5.9"> + <repository changeset_revision="9ed7af129bd3" name="package_ncurses_5_9" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="libpng" version="1.6.7"> + <repository changeset_revision="51f77dcf27bd" name="package_libpng_1_6_7" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + <package name="R_3_0_2" version="3.0.2"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://cran.ms.unimelb.edu.au/src/base/R-3/R-3.0.2.tar.gz</action> + <action type="set_environment_for_install"> + <repository changeset_revision="052e8df231ac" name="package_readline_6_2" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> + <package name="readline" version="6.2" /> + </repository> + <repository changeset_revision="9ed7af129bd3" name="package_ncurses_5_9" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> + <package name="ncurses" version="5.9" /> + </repository> + <repository changeset_revision="51f77dcf27bd" name="package_libpng_1_6_7" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu"> + <package name="libpng" version="1.6.7" /> + </repository> +</action> + + <action type="shell_command"> + ./configure CPPFLAGS="-I$READLINE_INCLUDE_PATH -I${LIBPNG_ROOT}/include" LDFLAGS="-L$READLINE_LIB_PATH -L$NCURSES_LIB_PATH -L${LIBPNG_ROOT}/lib -lreadline -lncurses" --with-libpng --enable-R-shlib --with-x=no --libdir=$INSTALL_DIR/lib/ --bindir=$INSTALL_DIR --datarootdir=$INSTALL_DIR/share/ + </action> + + <action type="shell_command">make</action> + <action type="shell_command">make install</action> + <action type="set_environment"> + <environment_variable action="set_to" name="R_HOME">$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/lib/R/bin</environment_variable> + <environment_variable action="append_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/R/lib</environment_variable> + <environment_variable action="set_to" name="RHOME">$INSTALL_DIR/lib/R</environment_variable> + <environment_variable action="set_to" name="R_PATH">$INSTALL_DIR/lib/R/bin</environment_variable> + </action> + </actions> + </install> + <readme>R is a free software environment for statistical computing and graphics. http://www.r-project.org/</readme> + </package> </tool_dependency>