0
|
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$XPROTO_INCLUDES" && \
|
|
58 ./configure --prefix=$INSTALL_DIR \
|
|
59 --x-includes=$X11_INCLUDE_DIR \
|
|
60 --x-libraries=$X11_LIB_DIR \
|
|
61 --with-pngdriver=$GD_ROOT
|
|
62 </action>
|
|
63 <action type="shell_command">make && make install</action>
|
|
64 <action extract="true" type="download_file">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/PHYLIP-3.6b.tar.gz</action>
|
|
65 <action type="change_directory">PHYLIP-3.6b</action>
|
|
66 <action type="shell_command">
|
|
67 export LDFLAGS="-L$XCB_LIBS -lm"
|
|
68 export CFLAGS="-I$XPROTO_INCLUDES" && \
|
|
69 ./configure --prefix=$INSTALL_DIR \
|
|
70 --x-includes=$X11_INCLUDE_DIR \
|
|
71 --x-libraries=$X11_LIB_DIR \
|
|
72 --with-pngdriver=$GD_ROOT
|
|
73 </action>
|
|
74 <action type="shell_command">make && make install</action>
|
|
75 </actions>
|
|
76 <action type="set_environment">
|
|
77 <environment_variable action="prepend_to" name="PATH">$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>
|