Mercurial > repos > peterjc > seq_primer_clip

comparison tools/seq_primer_clip/README.rst @ 5:530c8d6fedd8 draft

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v0.0.15 - internal changes
author peterjc
date Wed, 10 May 2017 13:09:52 -0400
parents 9b074c1db68e
children b9dc7c967ee6
comparison
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4:9b074c1db68e 5:530c8d6fedd8
67 - Tool definition now embeds citation information. 67 - Tool definition now embeds citation information.
68 v0.0.13 - Use ``format_source=...`` tag. 68 v0.0.13 - Use ``format_source=...`` tag.
69 - Reorder XML elements (internal change only). 69 - Reorder XML elements (internal change only).
70 - Planemo for Tool Shed upload (``.shed.yml``, internal change only). 70 - Planemo for Tool Shed upload (``.shed.yml``, internal change only).
71 - Fixed input file help text. 71 - Fixed input file help text.
72 v0.0.14 - Updated to point at Biopython 1.67 (latest version in Tool Shed). 72 v0.0.14 - Depends on Biopython 1.67 via legacy Tool Shed package or bioconda.
73 - Explicit dependency on ``galaxy_sequence_utils``. 73 - Explicit dependency on ``galaxy_sequence_utils``.
74 v0.0.15 - Use ``<command detect_errors="aggressive">`` (internal change only).
75 - Single quote command line arguments (internal change only)
74 ======= ====================================================================== 76 ======= ======================================================================
75 77
76 78
77 Developers 79 Developers
78 ========== 80 ==========
87 89
88 For pushing a release to the test or main "Galaxy Tool Shed", use the following 90 For pushing a release to the test or main "Galaxy Tool Shed", use the following
89 Planemo commands (which requires you have set your Tool Shed access details in 91 Planemo commands (which requires you have set your Tool Shed access details in
90 ``~/.planemo.yml`` and that you have access rights on the Tool Shed):: 92 ``~/.planemo.yml`` and that you have access rights on the Tool Shed)::
91 93
92 $ planemo shed_update -t testtoolshed --check_diff ~/repositories/pico_galaxy/tools/seq_primer_clip/ 94 $ planemo shed_update -t testtoolshed --check_diff tools/seq_primer_clip/
93 ... 95 ...
94 96
95 or:: 97 or::
96 98
97 $ planemo shed_update -t toolshed --check_diff ~/repositories/pico_galaxy/tools/seq_primer_clip/ 99 $ planemo shed_update -t toolshed --check_diff tools/seq_primer_clip/
98 ... 100 ...
99 101
100 To just build and check the tar ball, use:: 102 To just build and check the tar ball, use::
101 103
102 $ planemo shed_upload --tar_only ~/repositories/pico_galaxy/tools/seq_primer_clip/ 104 $ planemo shed_upload --tar_only tools/seq_primer_clip/
103 ... 105 ...
104 $ tar -tzf shed_upload.tar.gz 106 $ tar -tzf shed_upload.tar.gz
105 test-data/MID4_GLZRM4E04_rnd30.fasta 107 test-data/MID4_GLZRM4E04_rnd30.fasta
106 test-data/MID4_GLZRM4E04_rnd30.fastqsanger 108 test-data/MID4_GLZRM4E04_rnd30.fastqsanger
107 test-data/MID4_GLZRM4E04_rnd30_fclip.fasta 109 test-data/MID4_GLZRM4E04_rnd30_fclip.fasta