guerler
33acc1f8a3
Merge branch 'admin_grid_groups' into admin_grid_toolversion
2017-08-10 14:46:28 -04:00
John Chilton
f97efa6f90
Remove unused dataset_info in parameters.grouping.
2017-08-10 14:01:29 -04:00
John Chilton
e49ba40d77
Generalize allow_library_path_paste to allow_path_paste.
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Enable pasting paths in the history upload GUI & general purpose tools API for admin users if enabled.
2017-08-10 14:01:29 -04:00
John Chilton
6353704e4b
Merge pull request #4039 from VJalili/patch-11
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Updated parameters check for OpenID
2017-08-10 13:42:02 -04:00
John Chilton
7dd3ddccaf
Require admin for new import_tools function in workflows API.
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Includes test case.
2017-08-10 13:29:44 -04:00
John Chilton
23db89ba3d
Merge remote-tracking branch 'jmchilton/dev' into install_workflow_and_tools
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Conflicts:
lib/galaxy/webapps/galaxy/api/workflows.py
2017-08-10 13:23:43 -04:00
John Chilton
98ca8ce7a6
Update config overhaul branch for introduction of galaxy.web.stack package.
2017-08-10 13:15:31 -04:00
John Chilton
539a62f642
Fix ORM scripts for #3179 .
2017-08-10 13:15:31 -04:00
John Chilton
1ce93ccfdf
Pin version of uWSGI to freshly released 2.0.15 available on wheels.galaxyproject.org.
2017-08-10 13:15:31 -04:00
John Chilton
8191fd4928
Add pykwalify as dependency for the new config validation stuff.
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xref https://github.com/galaxyproject/starforge/pull/110
2017-08-10 13:15:31 -04:00
John Chilton
ef46a60a82
Add required dependency on uwsgi.
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Required for the new out-of-the-box configuration of tool shed and reports.
2017-08-10 13:15:31 -04:00
John Chilton
102566dd5e
Update Galaxy Reports to use newer configuration schema.
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- Implement kwalify schema to validate/define the schema.
- Replace ini configuration with YAML (completely backward compatible).
- Rebuild a sample configuration from the schema (config/reports.yml.sample).
2017-08-10 13:15:30 -04:00
John Chilton
90e899d68f
Update tool shed to use newer configuration schema.
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- Implement kwalify schema to validate/define the schema.
- Replace ini configuration with YAML (completely backward compatible).
- Rebuild a sample configuration from the schema (config/tool_shed.yml.sample).
2017-08-10 13:15:29 -04:00
John Chilton
7973a914e0
Add uwsgi_schema.yml.
2017-08-10 13:14:55 -04:00
John Chilton
8189a1f1e2
Scripts to manage configuration infrastructure.
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This has been rebased several times and includes a variety of fixes (some thanks to martenson).
2017-08-10 13:14:55 -04:00
John Chilton
1bdb99bbd7
Update galaxy.util.properties to allow YAML.
2017-08-10 13:14:55 -04:00
guerler
ad2f39c1e6
Fix lint
2017-08-10 13:04:19 -04:00
guerler
b38ccbc105
Merge branch 'admin_grid_roles' into admin_grid_groups
2017-08-10 12:56:50 -04:00
guerler
be19b36eca
Merge branch 'revise_grid_forms' into admin_grid_roles
2017-08-10 12:30:58 -04:00
guerler
583765c7c0
Merge branch 'dev' into revise_grid_forms
2017-08-10 12:17:22 -04:00
John Chilton
bcdf2c84f6
Merge pull request #4254 from ffinfo/vcf_gz_datatype
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Vcf gz datatype
2017-08-10 12:14:05 -04:00
John Chilton
e3de5e250d
Merge pull request #4329 from glormph/collection_list_sort
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Created alphabetic and numerical sort tool for collection operations
2017-08-10 12:11:10 -04:00
John Chilton
a2b02065eb
Remove unneeded messages.mako.
2017-08-10 17:53:21 +02:00
E Rasche
4c36b5a7a1
not a useful test in this location
2017-08-10 17:53:21 +02:00
E Rasche
00ee109ed4
fix css class
2017-08-10 17:53:21 +02:00
E Rasche
5563ecc3ff
fix import order
2017-08-10 17:53:21 +02:00
E Rasche
538ef006f3
Also load yaml sample files. cc @jmchilton, is this ok?
2017-08-10 17:53:21 +02:00
E Rasche
1e9c31241c
remove comment
2017-08-10 17:53:21 +02:00
E Rasche
a6aedc6953
address flaking
2017-08-10 17:53:21 +02:00
E Rasche
fcd94f0483
more renames
2017-08-10 17:53:02 +02:00
E Rasche
550cb7dfae
Requested renames, sink + yml
2017-08-10 17:53:02 +02:00
E Rasche
fd6c247398
Switch biostars to using HTML submission
2017-08-10 17:53:02 +02:00
E Rasche
5980bd91bb
Link in expected places
2017-08-10 17:53:02 +02:00
E Rasche
cdb82dd8e6
Change invocation to pass user information
2017-08-10 17:53:02 +02:00
E Rasche
6f8f38170c
refactor into an API
2017-08-10 17:53:01 +02:00
E Rasche
98ac186618
change report code
2017-08-10 17:53:01 +02:00
E Rasche
2f8347d5bc
add clientside route
2017-08-10 17:53:01 +02:00
E Rasche
d7e400c96d
Per @jmchilton comment, rewrite as yml
2017-08-10 17:53:00 +02:00
E Rasche
46b621708a
Allow sentry to be verbose
2017-08-10 17:53:00 +02:00
E Rasche
181a72a6f3
flake8 import
2017-08-10 17:53:00 +02:00
E Rasche
9dd27dcc3d
flake8
2017-08-10 17:53:00 +02:00
E Rasche
70a64b304e
Refactor bug reporting into plugins
2017-08-10 17:53:00 +02:00
guerler
938bf525f4
Merge branch 'revise_grid_forms' into admin_grid_roles
2017-08-10 11:40:59 -04:00
guerler
e477cce9b6
Merge branch 'revise_page' into revise_grid_forms
2017-08-10 11:38:32 -04:00
guerler
cfa3220d9f
Merge branch 'dev' into revise_page
2017-08-09 17:33:28 -04:00
Martin Cech
d52ac533da
fix indentation
2017-08-09 16:51:25 -04:00
Martin Cech
cff21d350d
Merge branch 'dev' into library_tags
2017-08-09 16:03:29 -04:00
guerler
d32a3a58a5
Merge branch 'revise_page' into admin_grid_roles
2017-08-09 12:51:33 -04:00
guerler
c01023b5ad
Fix indention
2017-08-09 12:48:55 -04:00
guerler
8f056c2bbc
Merge branch 'dev' into revise_page
2017-08-09 12:32:30 -04:00
guerler