Mercurial > repos > devteam > package_emboss_5_0_0

comparison tool_dependencies.xml @ 0:cf998ddc0542 draft default tip

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Uploaded tool dependency definition.
author devteam
date Wed, 11 Dec 2013 16:23:37 -0500
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-1:000000000000 0:cf998ddc0542
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="emboss" version="5.0.0">
4 <install version="1.0">
5 <actions_group>
6 <actions architecture="i386" os="linux">
7 <action type="download_by_url">http://depot.galaxyproject.org/package/linux/i386/emboss/emboss-5.0.0-Linux-i686.tgz</action>
8 <action type="move_directory_files">
9 <source_directory>.</source_directory>
10 <destination_directory>$INSTALL_DIR</destination_directory>
11 </action>
12 </actions>
13 <actions architecture="x86_64" os="linux">
14 <action type="download_by_url">http://depot.galaxyproject.org/package/linux/x86_64/emboss/emboss-5.0.0-Linux-x86_64.tgz</action>
15 <action type="move_directory_files">
16 <source_directory>.</source_directory>
17 <destination_directory>$INSTALL_DIR</destination_directory>
18 </action>
19 </actions>
20 <actions architecture="x86_64" os="darwin">
21 <action type="download_by_url">http://depot.galaxyproject.org/package/darwin/x86_64/emboss/emboss-5.0.0-Darwin-x86_64.tgz</action>
22 <action type="move_directory_files">
23 <source_directory>.</source_directory>
24 <destination_directory>$INSTALL_DIR</destination_directory>
25 </action>
26 </actions>
27 <actions>
28 <package name="libx11" version="1.5.0">
29 <repository changeset_revision="bfb1f66b1402" name="package_libx11_1_5_0" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
30 </package>
31 <package name="libgd" version="2.1.0">
32 <repository changeset_revision="3918b86c4f1f" name="package_libgd_2_1_0" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
33 </package>
34 <package name="libxproto" version="7.0.23">
35 <repository changeset_revision="6a512bc84b0d" name="package_libxproto_7_0_23" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
36 </package>
37 <package name="libxcb" version="1.9.1">
38 <repository changeset_revision="283d04f807f7" name="package_libxcb_1_9_1" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
39 </package>
40 <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/EMBOSS-5.0.0.tar.gz</action>
41 <action type="set_environment_for_install">
42 <repository changeset_revision="3918b86c4f1f" name="package_libgd_2_1_0" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
43 <package name="libgd" version="2.1.0" />
44 </repository>
45 <repository changeset_revision="bfb1f66b1402" name="package_libx11_1_5_0" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
46 <package name="libx11" version="1.5.0" />
47 </repository>
48 <repository changeset_revision="6a512bc84b0d" name="package_libxproto_7_0_23" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
49 <package name="libxproto" version="7.0.23" />
50 </repository>
51 <repository changeset_revision="283d04f807f7" name="package_libxcb_1_9_1" owner="devteam" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
52 <package name="libxcb" version="1.9.1" />
53 </repository>
54 </action>
55 <action type="shell_command">
56 export LDFLAGS="-L$XCB_LIBS -lm"
57 export CFLAGS="-I$XPROTO_INCLUDES" &amp;&amp; \
58 ./configure --prefix=$INSTALL_DIR \
59 --x-includes=$X11_INCLUDE_DIR \
60 --x-libraries=$X11_LIB_DIR \
61 --with-pngdriver=$GD_ROOT
62 </action>
63 <action type="shell_command">make &amp;&amp; make install</action>
64 <action extract="true" type="download_file">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/PHYLIP-3.6b.tar.gz</action>
65 <action type="change_directory">PHYLIP-3.6b</action>
66 <action type="shell_command">
67 export LDFLAGS="-L$XCB_LIBS -lm"
68 export CFLAGS="-I$XPROTO_INCLUDES" &amp;&amp; \
69 ./configure --prefix=$INSTALL_DIR \
70 --x-includes=$X11_INCLUDE_DIR \
71 --x-libraries=$X11_LIB_DIR \
72 --with-pngdriver=$GD_ROOT
73 </action>
74 <action type="shell_command">make &amp;&amp; make install</action>
75 </actions>
76 <action type="set_environment">
77 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
78 <environment_variable action="set_to" name="EMBOSS_ACDROOT">$INSTALL_DIR/share/EMBOSS/acd</environment_variable>
79 <environment_variable action="set_to" name="EMBOSS_DATA">$INSTALL_DIR/share/EMBOSS/data</environment_variable>
80 <environment_variable action="set_to" name="PLPLOT_LIB">$INSTALL_DIR/share/EMBOSS</environment_variable>
81 </action>
82 </actions_group>
83 </install>
84 <readme>
85 These links provide information for building the Emboss package in most environments.
86
87 System requirements
88 http://emboss.sourceforge.net/download/#Requirements
89
90 Platform-dependent notes
91 http://emboss.sourceforge.net/download/#Platforms
92 </readme>
93 </package>
94 </tool_dependency>