Mercurial > repos > big-tiandm > sirna_plant
changeset 9:e885b3d4444e draft
Uploaded
author | big-tiandm |
---|---|
date | Wed, 29 Oct 2014 04:18:03 -0400 |
parents | d317cee86d4b |
children | b20345ef3995 |
files | tool_dependencies.xml |
diffstat | 1 files changed, 83 insertions(+), 0 deletions(-) [+] |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Oct 29 04:18:03 2014 -0400 @@ -0,0 +1,83 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="fastx_toolkit" version="0.0.13"> + <repository changeset_revision="ec66ae4c269b" name="package_fastx_toolkit_0_0_13" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> + <package name="bowtie" version="0.12.7"> + <repository changeset_revision="9f9f38617a98" name="package_bowtie_0_12_7" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> + </package> + <set_environment version="1.0"> + <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable> + </set_environment> + <package name="R" version="2.11.0"> + <repository changeset_revision="8d0a55bf7aaf" name="package_r_2_11_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> + <install version="1.0"> + <actions> + <action type="shell_command">R CMD BATCH $REPOSITORY_INSTALL_DIR/install_DEG.R </action> + </actions> + </install> + </package> + + <package name="libx11" version="1.5.0"> + <repositoty name="package_libx11_1_5_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> + + + <package name="threads" version="1.96"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://www.cpan.org/authors/id/J/JD/JDHEDDEN/threads-1.96.tar.gz</action> + <action type="shell_command">perl Makefile.PL PREFIX=$INSTALL_DIR </action> + <action type="shell_command">make</action> + <action type="shell_command">make install</action> + <action type="set_environment"> + <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib</environment_variable> + </action> + </actions> + </install> + </package> + + + <package name="Parallel-ForkManager" version="1.06"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://www.cpan.org/authors/id/S/SZ/SZABGAB/Parallel-ForkManager-1.06.tar.gz</action> + <action type="shell_command">perl Makefile.PL PREFIX=$INSTALL_DIR </action> + <action type="shell_command">make</action> + <action type="shell_command">make install</action> + <action type="set_environment"> + <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib</environment_variable> + </action> + </actions> + </install> + </package> + + <package name="SVG" version="2.59"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://www.cpan.org/authors/id/S/SZ/SZABGAB/SVG-2.59.tar.gz</action> + <action type="shell_command">perl Makefile.PL PREFIX=$INSTALL_DIR </action> + <action type="shell_command">make</action> + <action type="shell_command">make install</action> + <action type="set_environment"> + <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib</environment_variable> + </action> + </actions> + </install> + </package> + + <package name="Boost-Graph" version="1.4"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://www.cpan.org/authors/id/D/DB/DBURDICK/BoostGraph/Boost-Graph-1.4.tar.gz</action> + <action type="shell_command">perl Makefile.PL PREFIX=$INSTALL_DIR </action> + <action type="shell_command">make</action> + <action type="shell_command">make install</action> + <action type="set_environment"> + <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib</environment_variable> + </action> + </actions> + </install> + </package> + +</tool_dependency>