Mercurial > repos > iuc > package_python_2_7_bcbiogff_0_6_2

annotate tool_dependencies.xml @ 4:b584674413b1 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit e0f819a2fd56eb5ee30a7fd772780693e1f085fa
author iuc
date Wed, 02 Dec 2015 17:36:26 -0500
parents f0de4bc3fb42
children 8ee2210f6074
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
1 <?xml version="1.0"?>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
2 <tool_dependency>
2
26264af17cbc planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit d094788c200e3ecf24f2a429000c888e82131ed1
iuc
parents: 1
diff changeset
3 <package name="python" version="2.7.10">
4
b584674413b1 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit e0f819a2fd56eb5ee30a7fd772780693e1f085fa
iuc
parents: 3
diff changeset
4 <repository changeset_revision="80931fb5f433" name="package_python_2_7_10" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
0
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
5 </package>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
6 <package name="bcbiogff" version="0.6.2">
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
7 <install version="1.0">
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
8 <actions>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
9 <action type="setup_python_environment">
4
b584674413b1 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit e0f819a2fd56eb5ee30a7fd772780693e1f085fa
iuc
parents: 3
diff changeset
10 <repository changeset_revision="80931fb5f433" name="package_python_2_7_10" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
2
26264af17cbc planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit d094788c200e3ecf24f2a429000c888e82131ed1
iuc
parents: 1
diff changeset
11 <package name="python" version="2.7.10" />
0
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
12 </repository>
1
8adfe232049d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit e10d6e2c4435771dc6f44d940359c1a31c0d6742-dirty
iuc
parents: 0
diff changeset
13 <package>https://pypi.python.org/packages/source/s/six/six-1.9.0.tar.gz#md5#476881ef4012262dfc8adc645ee786c4</package>
8adfe232049d planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit e10d6e2c4435771dc6f44d940359c1a31c0d6742-dirty
iuc
parents: 0
diff changeset
14 <package>https://pypi.python.org/packages/source/b/bcbio-gff/bcbio-gff-0.6.2.tar.gz#md5#d5aae8b125cdad4291f15bec20cfb0ef</package>
0
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
15 </action>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
16 <action type="set_environment">
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
17 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
18 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
19 </action>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
20 </actions>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
21 </install>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
22 <readme>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
23 bcbio-gff
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
24 ---------
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
25
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
26 A python library to read and write Generic Feature Format (`GFF`_).
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
27 See the `wiki documentation`_ for details on usage. The goal is to
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
28 integrate this code in `gffutils`_ and `Biopython`_.
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
29
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
30 Installation from `bcbio-gff in pypi`_::
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
31
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
32 pip install bcbio-gff
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
33
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
34 This code is freely available for use under the `Biopython license &lt;https://github.com/biopython/biopython/blob/master/LICENSE&gt;`_.
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
35
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
36 .. _GFF: http://www.sequenceontology.org/gff3.shtml
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
37 .. _wiki documentation: http://biopython.org/wiki/GFF_Parsing
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
38 .. _gffutils: https://github.com/daler/gffutils
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
39 .. _Biopython: http://biopython.org
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
40 .. _bcbio-gff in pypi: https://pypi.python.org/pypi/bcbio-gff
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
41
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
42
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
43 </readme>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
44 </package>
be87f48b0104 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_bcbiogff_0_6_2 commit 30d4cb2e85b56355004ad2a0a068787d72796a8e
iuc
parents:
diff changeset
45 </tool_dependency>