Mercurial > repos > yhoogstrate > package_featurecounts_1_4_6

annotate tool_dependencies.xml @ 0:a4c247fdd71b draft

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planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
author yhoogstrate
date Mon, 01 Jun 2015 07:17:56 -0400
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children 42796f06052f
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a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
yhoogstrate
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1 <?xml version="1.0"?>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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2 <tool_dependency>
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3 <package name="featurecounts" version="1.4.6.p1">
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yhoogstrate
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4 <install version="1.0">
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
yhoogstrate
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5 <actions>
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6 <action type="shell_command">
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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7 wget http://garr.dl.sourceforge.net/project/subread/subread-1.4.6-p1/subread-1.4.6-p1-source.tar.gz &amp;&amp;
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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8 tar -zxvf subread-1.4.6-p1-source.tar.gz &amp;&amp;
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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9 cd subread-1.4.6-p1-source/src/ &amp;&amp;
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
yhoogstrate
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10 make -f Makefile.Linux &amp;&amp;
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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11 cd ../../
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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12 </action>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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13 <action type="move_file">
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14 <source>../subread-1.4.6-p1-source/bin/featureCounts</source>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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15 <destination>$INSTALL_DIR/bin/</destination>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
yhoogstrate
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16 </action>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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17 <action type="set_environment">
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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18 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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19 <!--<environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>-->
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20 </action>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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21 </actions>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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22 </install>
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23 <readme>
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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24 Downloads and installs featureCounts.
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25
a4c247fdd71b planemo upload for repository https://bitbucket.org/EMCbioinf/galaxy-tool-shed-tools/raw/master/package_featurecounts_1_4_6 commit 0eac9a776e7bc33275b8ef5e76a4f17b7b5c1259-dirty
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26 Prerequisites:
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27 - wget
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28 - gnu-autotools (make)
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29 - tar
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30 </readme>
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31 </package>
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32 </tool_dependency>