Mercurial > repos > iuc > package_stringtie_1_1_0

comparison tool_dependencies.xml @ 0:5469f0f9e590 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_1_0 commit 65c9ce2fdc2b4ce892df8e456f18b859a85c410a
author iuc
date Wed, 21 Oct 2015 16:05:57 -0400
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1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="stringtie" version="1.1.0">
4 <install version="1.0">
5 <actions_group>
6 <actions architecture="x86_64" os="linux">
7 <action type="download_by_url" sha256sum="a457dbfee8f66204b17401ac1c4f3c67896ab77f142bad5ac555bfec0d59f613">
8 http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.1.0.Linux_x86_64.tar.gz
9 </action>
10 <action type="move_file">
11 <source>stringtie</source>
12 <destination>$INSTALL_DIR/bin</destination>
13 </action>
14 </actions>
15 <actions architecture="x86_64" os="darwin">
16 <action type="download_by_url" sha256sum="2ccd09274e9c5be1121e55950e6510d7c62a0994266ebfce784c1f493a6c5719">
17 http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.1.0.OSX_x86_64.tar.gz
18 </action>
19 <action type="move_file">
20 <source>stringtie</source>
21 <destination>$INSTALL_DIR/bin</destination>
22 </action>
23 </actions>
24 <actions>
25 <action type="download_by_url" sha256sum="75178e57620abec8e3e544f0430a5f1cdd7fc5faa484fadd8318b5dce90b4fb7">
26 http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.1.0.tar.gz
27 </action>
28 <action type="shell_command">make release</action>
29 <action type="move_file">
30 <source>stringtie</source>
31 <destination>$INSTALL_DIR/bin</destination>
32 </action>
33 </actions>
34 <action type="set_environment">
35 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
36 <environment_variable action="set_to" name="STRINGTIE_ROOT_PATH">$INSTALL_DIR</environment_variable>
37 </action>
38 </actions_group>
39 </install>
40 <readme>
41 StringTie is a fast and highly efficient assembler of RNA-Seq alignments into potential transcripts.
42 It uses a novel network flow algorithm as well as an optional de novo assembly step to assemble and
43 quantitate full-length transcripts representing multiple splice variants for each gene locus.
44 Its input can include not only the alignments of raw reads used by other transcript assemblers,
45 but also alignments longer sequences that have been assembled from those reads.
46 To identify differentially expressed genes between experiments, StringTie's
47 output can be processed either by the Cuffdiff or Ballgown programs.
48 </readme>
49 </package>
50 </tool_dependency>