Mercurial > repos > peterjc > effectivet3

comparison tools/effectiveT3/README.rst @ 10:a46d7861c32c draft

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"Update all the pico_galaxy tools on main Tool Shed"
author peterjc
date Fri, 16 Apr 2021 22:34:56 +0000
parents 512530020360
children ed8c1babc166
comparison
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9:512530020360 10:a46d7861c32c
8 This is a wrapper for the command line Java tool EffectiveT3, v1.0.1, 8 This is a wrapper for the command line Java tool EffectiveT3, v1.0.1,
9 9
10 Jehl, Arnold and Rattei. 10 Jehl, Arnold and Rattei.
11 Effective - a database of predicted secreted bacterial proteins 11 Effective - a database of predicted secreted bacterial proteins
12 Nucleic Acids Research, 39(Database issue), D591-5, 2011. 12 Nucleic Acids Research, 39(Database issue), D591-5, 2011.
13 http://dx.doi.org/10.1093/nar/gkq1154 13 https://doi.org/10.1093/nar/gkq1154
14 14
15 Arnold, Brandmaier, Kleine, Tischler, Heinz, Behrens, Niinikoski, Mewes, Horn and Rattei. 15 Arnold, Brandmaier, Kleine, Tischler, Heinz, Behrens, Niinikoski, Mewes, Horn and Rattei.
16 Sequence-based prediction of type III secreted proteins. 16 Sequence-based prediction of type III secreted proteins.
17 PLoS Pathog. 5(4):e1000376, 2009. 17 PLoS Pathog. 5(4):e1000376, 2009.
18 http://dx.doi.org/10.1371/journal.ppat.1000376 18 https://doi.org/10.1371/journal.ppat.1000376
19 19
20 http://effectors.org/ 20 http://effectors.org/
21 21
22 This wrapper is available from the Galaxy Tool Shed at: 22 This wrapper is available from the Galaxy Tool Shed at:
23 http://toolshed.g2.bx.psu.edu/view/peterjc/effectivet3 23 http://toolshed.g2.bx.psu.edu/view/peterjc/effectivet3
96 - Catch java exception, e.g. if Java too old for ``TTSS-STD-2.0.1.jar`` 96 - Catch java exception, e.g. if Java too old for ``TTSS-STD-2.0.1.jar``
97 v0.0.17 - Update tool dependency definition to use cached URL. 97 v0.0.17 - Update tool dependency definition to use cached URL.
98 - Minor internal changes to Python script for error reporting & style. 98 - Minor internal changes to Python script for error reporting & style.
99 v0.0.18 - Use ``<command detect_errors="aggressive">`` (internal change only). 99 v0.0.18 - Use ``<command detect_errors="aggressive">`` (internal change only).
100 - Single quote command line arguments (internal change only). 100 - Single quote command line arguments (internal change only).
101 v0.0.19 - Python 3 compatible exception handling.
102 v0.0.20 - Work with Effective T3 as installed by BioConda (which provides a
103 wrapper script which can be used to find the main JAR file folder).
101 ======= ====================================================================== 104 ======= ======================================================================
102 105
103 106
104 Developers 107 Developers
105 ========== 108 ==========