Mercurial > repos > charles > bismark_upgrade_proposition
changeset 2:2492ef09c164 draft default tip
Deleted selected files
author | charles |
---|---|
date | Mon, 07 Nov 2016 03:47:43 -0500 |
parents | 76faf71cc0b8 |
children | |
files | bismark/tool_dependencies.xml |
diffstat | 1 files changed, 0 insertions(+), 61 deletions(-) [+] |
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--- a/bismark/tool_dependencies.xml Mon Nov 07 03:35:59 2016 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,61 +0,0 @@ -<?xml version="1.0"?> -<tool_dependency> - <package name="samtools" version="0.1.19"> - <repository changeset_revision="923adc89c666" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" /> - </package> - <set_environment version="1.0"> - <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable> - </set_environment> - <package name="bowtie2" version="2.1.0"> - <install version="1.0"> - <actions> - <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.1.0/bowtie2-2.1.0-source.zip</action> - <action type="shell_command">make</action> - <action type="move_file"> - <source>bowtie2</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="move_file"> - <source>bowtie2-align</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="move_file"> - <source>bowtie2-build</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="shell_command">chmod +x $INSTALL_DIR/bin/bowtie2</action> - <action type="set_environment"> - <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> - </action> - </actions> - </install> - <readme> -Compiling bowtie2 requires zlib and libpthread to be present on your system. - </readme> - </package> - <package name="bowtie" version="0.12.8"> - <install version="1.0"> - <actions> - <action type="download_by_url">http://downloads.sourceforge.net/project/bowtie-bio/bowtie/0.12.8/bowtie-0.12.8-src.zip</action> - <action type="shell_command">make</action> - <action type="move_file"> - <source>bowtie</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="move_file"> - <source>bowtie-inspect</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="move_file"> - <source>bowtie-build</source> - <destination>$INSTALL_DIR/bin</destination> - </action> - <action type="set_environment"> - <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> - </action> - </actions> - </install> - <readme> - </readme> - </package> -</tool_dependency>