Mercurial > repos > matt-shirley > sra_tools
view tool_dependencies.xml @ 43:20f463033f80 draft
conditional output for sam dump
author | Matt Shirley <mdshw5@gmail.com> |
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date | Mon, 05 Aug 2013 10:53:43 -0400 |
parents | 7803126704c6 |
children | 88a13a2fd23f |
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<?xml version="1.0"?> <tool_dependency> <package name="sra_toolkit" version="2.3.2-4"> <install version="1.0"> <actions> <action type="download_by_url">http://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/2.3.2-4/sra_sdk-2.3.2-4.tar.gz</action> <action type="shell_command">make release</action> <action type="shell_command">make static</action> <action type="shell_command">make</action> <action type="make_directory">$INSTALL_DIR/bin</action> <action type="make_directory">$INSTALL_DIR/ncbi</action> <action type="make_directory">$INSTALL_DIR/ncbi/public</action> <action type="shell_command">sed -i -e "s|\$(HOME)|$INSTALL_DIR|g" bin64/ncbi/default.kfg</action> <action type="shell_command">cp --recursive --dereference bin64/* $INSTALL_DIR/bin</action> <action type="set_environment"><environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable></action> </actions> </install> <readme>Tools from NCBI SRA Toolkit for extracting FASTQ and SAM format reads from SRA format archives. Various tools for working with SRA from NCBI. This software release was designed to run under Linux, MacOSX operating systems on Intel x86-compatible 64 bit architectures. Build Requirements: ar bash make gcc, g++ libxml2 libcurl4 zlib </readme> </package> </tool_dependency>