Mercurial > repos > devteam > blast_datatypes
annotate README.rst @ 6:a04cf51612f1 draft
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
author | peterjc |
---|---|
date | Mon, 23 Sep 2013 09:56:10 -0400 |
parents | |
children | 5ec5dece43cb |
rev | line source |
---|---|
6
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
1 Galaxy datatypes for NCBI BLAST+ suite |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
2 ====================================== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
3 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
4 These Galaxy datatypes are copyright 2010-2013 by Peter Cock, The James Hutton |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
5 Institute (formerly SCRI, Scottish Crop Research Institute), UK. All rights reserved. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
6 Contributions/revisions copyright 2012 Edward Kirton. All rights reserved. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
7 Contributions/revisions copyright 2013 Nicola Soranzo. All rights reserved. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
8 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
9 See the licence text below. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
10 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
11 Note that these files (and the associated BLAST+ wrappers) were originally |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
12 distributed as part of the main Galaxy repository, but as of August 2012 moved |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
13 to the Galaxy Tool Shed as 'blast_datatypes' (and 'ncbi_blast_plus' for the |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
14 wrappers). My thanks to Dannon Baker from the Galaxy development team for his |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
15 assistance with this. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
16 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
17 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
18 History |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
19 ======= |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
20 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
21 These versions numbers initially matched those for 'ncbi_blast_plus', but are |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
22 not used explicitly in the datatypes themselves. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
23 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
24 ======= ====================================================================== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
25 Version Changes |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
26 ------- ---------------------------------------------------------------------- |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
27 v0.0.11 - Final revision as part of the Galaxy main repository, and the |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
28 first release via the Tool Shed |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
29 v0.0.13 - Uses blast.py instead of xml.py to define the datatypes |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
30 v0.0.14 - Includes datatypes for protein and nucleotide BLAST databases |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
31 (based on work by Edward Kirton) |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
32 v0.0.15 - Fixes a MetadataElement bug and includes more of the optional |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
33 BLAST database files (contribution from Nicola Soranzo) |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
34 v0.0.16 - Adopt standard MIT License. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
35 - Development moved to GitHub, https://github.com/peterjc/galaxy_blast |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
36 - Nucleotide database definition aware of MegaBLAST index superheader |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
37 ======= ====================================================================== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
38 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
39 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
40 Installation |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
41 ============ |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
42 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
43 Doing this automatically via the Galaxy Tool Shed is probably simplest. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
44 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
45 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
46 Manual Installation |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
47 =================== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
48 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
49 Normally you would install this via the Galaxy ToolShed, which would move |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
50 the provided blast.py file into a suitable location and process the |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
51 datatypes_conf.xml entry to be combined with your local configuration. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
52 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
53 However, if you really want to this should work for a manual install. Add |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
54 the following lines to the datatypes_conf.xml file in the Galaxy main folder:: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
55 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
56 <datatype extension="blastxml" type="galaxy.datatypes.blast:BlastXml" mimetype="application/xml" display_in_upload="true"/> |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
57 <datatype extension="blastdbn" type="galaxy.datatypes.blast:BlastNucDb" mimetype="text/html" display_in_upload="false"/> |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
58 <datatype extension="blastdbp" type="galaxy.datatypes.blast:BlastProtDb" mimetype="text/html" display_in_upload="false"/> |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
59 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
60 and later in the sniffer section:: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
61 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
62 <sniffer type="galaxy.datatypes.blast:BlastXml"/> |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
63 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
64 Also create the file lib/galaxy/datatypes/blast.py by moving, copying or linking |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
65 the blast.py file provided in this tar-ball. Finally add 'import blast' near |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
66 the start of file lib/galaxy/datatypes/registry.py (after the other import |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
67 lines). |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
68 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
69 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
70 Bug Reports |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
71 =========== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
72 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
73 You can file an issue here https://github.com/peterjc/galaxy_blast/issues or ask |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
74 us on the Galaxy development list http://lists.bx.psu.edu/listinfo/galaxy-dev |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
75 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
76 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
77 Developers |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
78 ========== |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
79 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
80 BLAST+ datatypes and wrappers, and other tools were originally developed on the |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
81 following hg branch: http://bitbucket.org/peterjc/galaxy-central/src/tools |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
82 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
83 As of July 2013, development is continuing on a dedicated GitHub repository: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
84 https://github.com/peterjc/galaxy_blast |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
85 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
86 For making the "Galaxy Tool Shed" http://toolshed.g2.bx.psu.edu/ tarball I use |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
87 the following command from the blast_datatypes folder:: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
88 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
89 $ tar -czf blast_datatypes.tar.gz README.rst datatypes_conf.xml blast.py |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
90 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
91 Check this worked:: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
92 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
93 $ tar -tzf blast_datatypes.tar.gz |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
94 README.rst |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
95 datatypes_conf.xml |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
96 blast.py |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
97 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
98 For development, rather than having a local ToolShed running, I currently |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
99 use a symlink from lib/galaxy/datatypes/blast.py to the actual file as |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
100 described above. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
101 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
102 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
103 Licence (MIT) |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
104 ============= |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
105 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
106 Permission is hereby granted, free of charge, to any person obtaining a copy |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
107 of this software and associated documentation files (the "Software"), to deal |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
108 in the Software without restriction, including without limitation the rights |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
109 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
110 copies of the Software, and to permit persons to whom the Software is |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
111 furnished to do so, subject to the following conditions: |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
112 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
113 The above copyright notice and this permission notice shall be included in |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
114 all copies or substantial portions of the Software. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
115 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
116 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
117 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
118 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
119 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
120 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
121 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
122 THE SOFTWARE. |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
123 |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
124 NOTE: This is the licence for the Galaxy BLAST datatypes **only**. BLAST+ |
a04cf51612f1
Uploaded v0.0.16, MIT License, development moved to GitHub, nucleotide database definition aware of MegaBLAST index superheader
peterjc
parents:
diff
changeset
|
125 and associated data files are available and licenced separately. |