Mercurial > repos > peterjc > mira_datatypes

annotate README.rst @ 31:f4d34bd3c633 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
author peterjc
date Wed, 09 Aug 2017 13:30:31 -0400
parents e4c43c2e20fc
children 62b373ff0d5b
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
31
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
1 Galaxy datatypes for MIRA Assembly Format (MAF)
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
2 ===============================================
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
3
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
4 These Galaxy datatypes are copyright 2013 by Peter Cock, The James Hutton
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
5 Institute (formerly SCRI, Scottish Crop Research Institute), UK. All rights reserved.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
6
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
7 See the licence text below (MIT licence).
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
8
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
9 This code defines a 'mira' datatype within Galaxy for the MIRA Assembly Format
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
10 (specifically v2 of the format introduced by MIRA 4.0 and the development
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
11 preview releases of MIRA v3.9). See http://chevreux.org/projects_mira.html
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
12 and https://sourceforge.net/projects/mira-assembler/ for background.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
13
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
14 This format is not to be confused with the existing 'maf' datatype within Galaxy
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
15 for the unrelated Multiple (sequence) Alignment Format (MAF).
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
16
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
17 It is available from the Galaxy Tool Shed at:
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
18 http://toolshed.g2.bx.psu.edu/view/peterjc/mira_datatypes
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
19
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
20
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
21 History
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
22 =======
0
29ff2a2b6eaa Uploaded v0.0.1
peterjc
parents:
diff changeset
23
31
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
24 ======= ======================================================================
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
25 Version Changes
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
26 ------- ----------------------------------------------------------------------
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
27 v0.0.1 - First public release
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
28 ======= ======================================================================
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
29
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
30
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
31 Installation
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
32 ============
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
33
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
34 Doing this automatically via the Galaxy Tool Shed is probably simplest, and will
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
35 happen automatically as a dependency of the Galaxy wrapper for MIRA v4.0.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
36
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
37
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
38 Manual Installation
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
39 ===================
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
40
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
41 Normally you would install this via the Galaxy ToolShed, which would move
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
42 the provided mira.py file into a suitable location and process the
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
43 ``datatypes_conf.xml`` entry to be combined with your local configuration.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
44
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
45 However, if you really want to this should work for a manual install. Add
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
46 the following lines to the ``datatypes_conf.xml`` file in the Galaxy main folder::
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
47
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
48 <datatype extension="mira" type="galaxy.datatypes.mira:MiraAssemblyFormat" mimetype="text/plain" display_in_upload="true"/>
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
49
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
50 and later in the sniffer section::
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
51
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
52 <sniffer type="galaxy.datatypes.mira:MiraAssemblyFormat"/>
0
29ff2a2b6eaa Uploaded v0.0.1
peterjc
parents:
diff changeset
53
31
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
54 Also create the file ``lib/galaxy/datatypes/mira.py`` by moving, copying or linking
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
55 the mira.py file provided in this tar-ball. Finally add ``import mira`` near
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
56 the start of file ``lib/galaxy/datatypes/registry.py`` (after the other import
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
57 lines).
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
58
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
59
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
60 Bug Reports
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
61 ===========
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
62
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
63 You can file an issue here https://github.com/peterjc/pico_galaxy/issues or ask
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
64 us on the Galaxy development list http://lists.bx.psu.edu/listinfo/galaxy-dev
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
65
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
66
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
67 Developers
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
68 ==========
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
69
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
70 Development is done on this GitHub repository:
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
71 https://github.com/peterjc/pico_galaxy
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
72
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
73 For making the "Galaxy Tool Shed" http://toolshed.g2.bx.psu.edu/ tarball I use
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
74 the following command from the ``mira_datatypes`` folder::
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
75
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
76 $ tar -czf mira_datatypes.tar.gz README.rst datatypes_conf.xml mira.py
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
77
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
78 Check this worked::
0
29ff2a2b6eaa Uploaded v0.0.1
peterjc
parents:
diff changeset
79
31
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
80 $ tar -tzf mira_datatypes.tar.gz
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
81 README.rst
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
82 datatypes_conf.xml
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
83 mira.py
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
84
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
85 For development, rather than having a local ToolShed running, I currently
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
86 use a symlink from ``lib/galaxy/datatypes/mira.py`` to the actual file as
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
87 described above.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
88
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
89
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
90 Licence (MIT)
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
91 =============
0
29ff2a2b6eaa Uploaded v0.0.1
peterjc
parents:
diff changeset
92
31
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
93 Permission is hereby granted, free of charge, to any person obtaining a copy
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
94 of this software and associated documentation files (the "Software"), to deal
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
95 in the Software without restriction, including without limitation the rights
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
96 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
97 copies of the Software, and to permit persons to whom the Software is
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
98 furnished to do so, subject to the following conditions:
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
99
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
100 The above copyright notice and this permission notice shall be included in
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
101 all copies or substantial portions of the Software.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
102
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
103 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
104 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
105 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
106 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
107 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
108 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
109 THE SOFTWARE.
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
110
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
111 NOTE: This is the licence for the Galaxy MIRA datatypes **only**. MIRA itself
f4d34bd3c633 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/datatypes/mira_datatypes commit e4c56df75150c82d3e9c4ac487c4209108e52412
peterjc
parents: 30
diff changeset
112 is available and licenced separately.