Mercurial > repos > peterjc > effectivet3

comparison tools/effectiveT3/README.rst @ 9:512530020360 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
v0.0.18 Internal changes to command line handling
author peterjc
date Tue, 16 May 2017 09:17:17 -0400
parents 60a9b3f760cc
children a46d7861c32c
comparison
equal deleted inserted replaced
8:60a9b3f760cc 9:512530020360
94 - Includes new standard classification model v2.0.2 (Sep 2015) 94 - Includes new standard classification model v2.0.2 (Sep 2015)
95 as the default entry in ``tool-data/effectiveT3.loc`` 95 as the default entry in ``tool-data/effectiveT3.loc``
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).
100 - Single quote command line arguments (internal change only).
99 ======= ====================================================================== 101 ======= ======================================================================
100 102
101 103
102 Developers 104 Developers
103 ========== 105 ==========
110 112
111 For pushing a release to the test or main "Galaxy Tool Shed", use the following 113 For pushing a release to the test or main "Galaxy Tool Shed", use the following
112 Planemo commands (which requires you have set your Tool Shed access details in 114 Planemo commands (which requires you have set your Tool Shed access details in
113 ``~/.planemo.yml`` and that you have access rights on the Tool Shed):: 115 ``~/.planemo.yml`` and that you have access rights on the Tool Shed)::
114 116
115 $ planemo shed_update -t testtoolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/ 117 $ planemo shed_update -t testtoolshed --check_diff tools/effectiveT3/
116 ... 118 ...
117 119
118 or:: 120 or::
119 121
120 $ planemo shed_update -t toolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/ 122 $ planemo shed_update -t toolshed --check_diff tools/effectiveT3/
121 ... 123 ...
122 124
123 To just build and check the tar ball, use:: 125 To just build and check the tar ball, use::
124 126
125 $ planemo shed_upload --tar_only ~/repositories/pico_galaxy/tools/effectiveT3/ 127 $ planemo shed_upload --tar_only tools/effectiveT3/
126 ... 128 ...
127 $ tar -tzf shed_upload.tar.gz 129 $ tar -tzf shed_upload.tar.gz
128 tool-data/effectiveT3.loc.sample 130 tool-data/effectiveT3.loc.sample
129 test-data/empty.fasta 131 test-data/empty.fasta
130 test-data/empty_effectiveT3.tabular 132 test-data/empty_effectiveT3.tabular