|
0
|
1 <?xml version="1.0"?>
|
|
|
2 <tool_dependency>
|
|
|
3 <package name="perl" version="5.18.1">
|
|
|
4 <repository changeset_revision="f6efd799dc70" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
|
|
|
5 </package>
|
|
2
|
6 <package name="legacy_blast" version="2.2.6">
|
|
|
7 <repository changeset_revision="f55a0c6d1484" name="package_legacy_blast_2_2_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
|
|
|
8 </package>
|
|
|
9
|
|
0
|
10 <package name="psort" version="3.0.3">
|
|
|
11 <install version="1.0">
|
|
|
12 <actions>
|
|
|
13 <action type="download_by_url">http://www.psort.org/download/libpsortb-1.0.tar.gz</action>
|
|
|
14 <action type="autoconf" />
|
|
|
15
|
|
|
16 <action type="download_by_url">ftp://lausanne.isb-sib.ch/pub/software/unix/pftools/pft2.3/pft2.3.5.d.tar.gz</action>
|
|
|
17 <action type="shell_command">make</action>
|
|
|
18 <action type="move_directory_files">
|
|
|
19 <source_directory>.</source_directory>
|
|
|
20 <destination_directory>$INSTALL_DIR/pft</destination_directory>
|
|
|
21 </action>
|
|
1
|
22 <!-- install blastall -->
|
|
2
|
23 <!-- populate the environment variables from the dependend repos -->
|
|
|
24 <action type="set_environment_for_install">
|
|
|
25 <repository changeset_revision="f55a0c6d1484" name="package_legacy_blast_2_2_6" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
|
|
|
26 <package name="legacy_blast" version="2.2.6" />
|
|
|
27 </repository>
|
|
1
|
28 </action>
|
|
0
|
29
|
|
|
30 <action type="set_environment">
|
|
|
31 <environment_variable action="set_to" name="LIBPSORTB_ROOT_PATH">$INSTALL_DIR</environment_variable>
|
|
|
32 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
|
|
|
33 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/pft</environment_variable>
|
|
|
34 <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable>
|
|
|
35 </action>
|
|
|
36
|
|
|
37 <action type="setup_perl_environment">
|
|
|
38 <repository changeset_revision="f6efd799dc70" name="package_perl_5_18" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
|
|
|
39 <package name="perl" version="5.18.1" />
|
|
|
40 </repository>
|
|
|
41 <!-- allow downloading and installing an Perl package from cpan.org-->
|
|
|
42 <package>http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz</package>
|
|
|
43 <package>http://www.psort.org/download/bio-tools-psort-all.3.0.3.tar.gz</package>
|
|
|
44 </action>
|
|
|
45 </actions>
|
|
|
46 </install>
|
|
|
47 <readme>
|
|
|
48 http://www.psort.org/downloads/index.html
|
|
|
49 </readme>
|
|
|
50 </package>
|
|
|
51 </tool_dependency>
|
