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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="blat" version="35">
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4 <!-- <repository name="package_blat_35x1" owner="iuc" /> This may be used instead of everything inside <install> when a stable Galaxy release will support the 'download_binary' action type -->
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5 <install version="1.0">
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6 <actions>
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7 <action type="download_by_url" target_filename="blatSrc.zip">http://hgwdev.cse.ucsc.edu/~kent/src/blatSrc35.zip</action>
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8 <action type="shell_command">export MACHTYPE=`uname -m` && export HOME=$INSTALL_DIR && mkdir -p $HOME/bin/$MACHTYPE && make</action>
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9 <action type="set_environment">
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10 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin/`uname -m`</environment_variable>
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11 </action>
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12 </actions>
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13 </install>
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14 <readme>
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15 BLAT sequence aligner from the UCSC: http://genome.ucsc.edu/FAQ/FAQblat.html
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16 Git development repository: http://genome-source.cse.ucsc.edu/gitweb/?p=kent.git
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17
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18 Please note that the BLAT source and executables are freely available for
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19 academic, nonprofit and personal use. Commercial licensing information is
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20 available on the Kent Informatics website (http://www.kentinformatics.com/).
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21 </readme>
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22 </package>
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23 </tool_dependency>
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