Mercurial > repos > iuc > package_blat_35x1

annotate tool_dependencies.xml @ 1:fbcab0e6595f draft

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author bgruening
date Wed, 29 Jan 2014 16:12:38 -0500
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1 <tool_dependency>
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2 <package name="blat" version="35x1">
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3 <install version="1.0">
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4 <actions>
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6 <action type="download_binary">
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7 <url_template os="linux" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/blat/blat</url_template>
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8 <url_template os="darwin" architecture="i686">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/blat/blat</url_template>
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9 <url_template os="darwin" architecture="i386">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/blat/blat</url_template>
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10 <url_template os="darwin" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.x86_64/blat/blat</url_template>
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11 </action>
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13 <action type="move_file">
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14 <source>$INSTALL_DIR/blat</source>
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15 <destination>$INSTALL_DIR/blat</destination>
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16 </action>
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17 <action type="chmod">
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18 <file mode="755">$INSTALL_DIR/blat</file>
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19 </action>
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20 <action type="set_environment">
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21 <environment_variable name="PATH" action="append_to">$INSTALL_DIR</environment_variable>
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22 <environment_variable name="BLAT_PATH" action="append_to">$INSTALL_DIR</environment_variable>
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23 </action>
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25 <!--
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26 Alternative version from Nicola Soranzo.
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27 <action type="download_by_url" target_filename="blatSrc.zip">http://hgwdev.cse.ucsc.edu/~kent/src/blatSrc35.zip</action>
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28 <action type="shell_command">export MACHTYPE=`uname -m` &amp;&amp; export HOME=$INSTALL_DIR &amp;&amp; mkdir -p $HOME/bin/$MACHTYPE &amp;&amp; make</action>
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29 <action type="set_environment">
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30 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin/`uname -m`</environment_variable>
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31 </action>
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32 -->
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34 </actions>
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35 </install>
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36 <readme>
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37 BLAT sequence aligner from the UCSC: http://genome.ucsc.edu/FAQ/FAQblat.html
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38 Git development repository: http://genome-source.cse.ucsc.edu/gitweb/?p=kent.git
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39
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40 Please note that the BLAT source and executables are freely available for
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41 academic, nonprofit and personal use. Commercial licensing information is
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42 available on the Kent Informatics website (http://www.kentinformatics.com/).
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43 </readme>
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44 </package>
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45 </tool_dependency>