annotate README.rst @ 14:7dfda218dca1 default tip

small fix
author pieter.lukasse@wur.nl
date Sat, 28 Mar 2015 21:33:55 +0100
parents 89264646e458
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
1 PRIMO-multi-omics toolset & Galaxy wrappers
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
2 ===========================================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
3
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
4 Multi-omics module of Plant Research International's Mass Spectrometry (PRIMO) toolsuite.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
5 This toolset consists of custom tools to facilitate post processing
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
6 and integration of different omics datasets.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
7
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
8 Can be used in combination with PRIMS-proteomics (prims_proteomics package) and
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
9 with PRIMS-metabolomics (prims_metabolomics package).
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
10
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
11 Copyright 2010-2014 by Pieter Lukasse, Plant Research International (PRI),
5
eb0b7889dd08 added more parameters/options and made Ontology observations file optional;
pieter.lukasse@wur.nl
parents: 0
diff changeset
12 Wageningen UR, The Netherlands. All rights reserved. See the license text below.
0
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
13
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
14 Galaxy wrappers and installation are available from the Galaxy Tool Shed at:
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
15 http://toolshed.g2.bx.psu.edu/view/pieterlukasse/primo_multiomics
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
16
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
17 History
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
18 =======
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
19
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
20 ============== ======================================================================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
21 Date Changes
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
22 -------------- ----------------------------------------------------------------------
9
89264646e458 improvements release
pieter.lukasse@wur.nl
parents: 7
diff changeset
23 March 2015 * improvements release, refactored TermMapperTool (made this more
89264646e458 improvements release
pieter.lukasse@wur.nl
parents: 7
diff changeset
24 generic / multi-purpose lookup / cross-reference tool); added
89264646e458 improvements release
pieter.lukasse@wur.nl
parents: 7
diff changeset
25 support for quantification method in OntologyVis circles plot;
7
ce9228263148 renamed to TermMapper
pieter.lukasse@wur.nl
parents: 5
diff changeset
26 August 2014 * improvements release
0
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
27 May 2014 * first release via Tool Shed
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
28 ============== ======================================================================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
29
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
30 Tool Versioning
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
31 ===============
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
32
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
33 PRIMO tools will have versions of the form X.Y.Z. Versions
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
34 differing only after the second decimal should be completely
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
35 compatible with each other. Breaking changes should result in an
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
36 increment of the number before and/or after the first decimal. All
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
37 tools of version less than 1.0.0 should be considered beta.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
38
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
39
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
40 Bug Reports & other questions
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
41 =============================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
42
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
43 For the time being issues can be reported via the contact form at:
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
44 http://www.wageningenur.nl/en/Persons/PNJ-Pieter-Lukasse.htm
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
45
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
46 Developers, Contributions & Collaborations
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
47 ==========================================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
48
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
49 If you wish to join forces and collaborate on some of the
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
50 tools do not hesitate to contact Pieter Lukasse via the contact form above.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
51
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
52
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
53 License (Apache, Version 2.0)
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
54 =============================
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
55
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
56 Copyright 2013 Pieter Lukasse, Plant Research International (PRI).
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
57
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
58 Licensed under the Apache License, Version 2.0 (the "License");
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
59 you may not use this software except in compliance with the License.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
60 You may obtain a copy of the License at
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
61
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
62 http://www.apache.org/licenses/LICENSE-2.0
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
63
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
64 Unless required by applicable law or agreed to in writing, software
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
65 distributed under the License is distributed on an "AS IS" BASIS,
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
66 WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
67 See the License for the specific language governing permissions and
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
68 limitations under the License.
5bc82cf5439b Initial commit
pieter.lukasse@wur.nl
parents:
diff changeset
69