Björn Grüning
cd92be8802
Include a section about plugin dependencies.
2016-10-12 13:45:06 +02:00
Evgeny Anatskiy
5f9154a617
tiny fixes
2016-10-12 13:00:24 +02:00
Nicola Soranzo
1156006733
Merge branch 'release_16.07' into dev
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Conflicts:
lib/galaxy/tools/deps/__init__.py
2016-10-11 16:50:37 +01:00
John Chilton
7d642c063f
Merge pull request #3032 from martenson/link-mulled-docs
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add muled docs to admin index
2016-10-10 21:20:51 -04:00
Martin Cech
1a2d75fade
add muled docs to admin index
2016-10-10 20:54:26 -04:00
Martin Cech
bcabbd8707
minor changes to mulled admin docs
2016-10-10 19:26:36 -04:00
Björn Grüning
2cc133f325
Add initial docs
2016-10-09 21:32:08 +02:00
Björn Grüning
654b5e9322
Add initial documentation about the new mulled features.
2016-10-09 12:40:50 +02:00
John Chilton
89278b0ec7
Fix for bioconda recipes depending on conda-forge.
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Some bioconda recipes now depend on conda forge, this fix is needed for them to work properly.
2016-10-07 15:11:00 -04:00
Nicola Soranzo
a2ee8d10af
Merge branch 'release_16.07' into dev
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Conflicts:
doc/source/admin/conda_faq.rst
static/maps/mvc/ui/ui-modal.js.map
static/scripts/bundled/libs.bundled.js
static/scripts/bundled/libs.bundled.js.map
static/scripts/mvc/ui/ui-modal.js
2016-10-05 20:34:50 +01:00
Nicola Soranzo
2899372791
Update conda_faq.rst
2016-10-03 19:46:27 +01:00
Martin Cech
ba274e37f2
describe the conda installation behavior a bit better
2016-10-03 14:31:46 -04:00
Martin Cech
375ed8cc81
polish resolvers section in conda faq docs
2016-10-03 13:20:15 -04:00
Enis Afgan
97b748c73a
Shorten Conda environment naming as per https://github.com/galaxyproject/galaxy/commit/e9d81500caa3526200b204270aca175839f36f56
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Thanks @lparsons.
2016-09-02 10:34:56 -04:00
Enis Afgan
ecdbf4d0b5
Address PR #2891 comments
2016-09-01 17:01:56 -04:00
Enis Afgan
07cf96c260
Update Conda FAQ
2016-09-01 15:55:54 -04:00
Marius van den Beek
e645036973
Merge pull request #2871 from remimarenco/patch-8
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Add the <conda_prefix> in 12. and fix typo
2016-08-30 13:18:33 +02:00
Rémi Marenco
579ea41085
Update Marius advice
2016-08-30 05:08:26 -04:00
Rémi Marenco
040dd33980
Fix typo
2016-08-29 19:42:10 -04:00
Rémi Marenco
d86ee37060
Add the <conda_prefix> in 12. and fix typo
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I am adding the ``<conda_prefix>/envs`` to check for the package to have been properly installed (if people have brought their own Conda).
And fixing ``conda_prefix`` to stay consistent in the doc (``<conda_prefix>``).
2016-08-29 19:20:04 -04:00
Martin Cech
7326498335
improve conda doc to include TOC
2016-08-24 12:25:10 -04:00
Martin Cech
779c357dca
Merge branch 'docs_conda' of https://github.com/martenson/galaxy into docs_conda
2016-08-24 11:43:13 -04:00
Martin Cech
3d0bf645ab
fix tiny things in docs
2016-08-24 11:28:32 -04:00
Dannon Baker
e52dbde3e4
Conda/conda standardization
2016-08-23 17:45:56 -04:00
Martin Cech
aedfdffafe
add more literal includes
2016-08-23 17:41:07 -04:00
Martin Cech
453c98d8ad
this one is even weirder than the ones before
2016-08-23 17:35:03 -04:00
Martin Cech
e33f8fe5b6
replace apostrophes
2016-08-23 17:33:25 -04:00
Martin Cech
04f22b70a4
fix plural, split lines to prevent indentation
2016-08-23 17:14:27 -04:00
Martin Cech
01a24f6560
rst problems
2016-08-23 15:53:37 -04:00
Martin Cech
4d19755c13
add conda docs converted and modified from IUC googledoc
2016-08-23 15:44:46 -04:00
Eric Rasche
c6c646ead4
Document the Chat Server
2016-08-23 18:18:30 +00:00
John Chilton
8dbf987e10
Merge pull request #2455 from erasche/grt
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Galactic Radio Telescope
2016-07-21 20:06:12 -04:00
Peter van Heusden
cd0932600f
Modified Apache/nginx settings suggestions
2016-06-25 23:26:24 +02:00
Peter van Heusden
63abe20ab8
Replace single with `
2016-06-25 22:57:36 +02:00
Peter van Heusden
e73a8071f5
Addressed @erasche's comments
2016-06-25 21:42:25 +02:00
Peter van Heusden
d02f1f1d6a
* Update docs on Interactive Environments
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* Move docs on writing IEs to developer docs
2016-06-25 20:54:37 +02:00
Eric Rasche
bf8f8e2d08
Document GRT
2016-06-04 16:19:26 +00:00
Dannon Baker
a7b1ce7670
Update doc
2016-03-09 09:09:52 -05:00
Nate Coraor
9c7c75b766
Typo
2016-02-05 09:45:30 -05:00
Nate Coraor
4b24d95f6f
Improve documentation about binary-compatibility.cfg. Resolves #1672 .
2016-02-04 11:07:31 -05:00
Nate Coraor
33ba1face9
Link from the 16.01 announcement to the Admin wheels documentation,
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document the process of adding new wheels.
2016-01-28 13:13:09 -05:00
Nate Coraor
168f453094
Suggest installing virtualenv from brew
2016-01-26 16:49:39 -05:00
Nate Coraor
9827f32775
conda-requirements.txt renamed to conda-environment.txt
2016-01-26 16:48:38 -05:00
Nate Coraor
dc801dc1f6
Add admin documentation for framework dependencies (wheels) for the
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16.01 release.
2016-01-26 16:17:49 -05:00
John Chilton
1148081435
Implement a conda dependency resolver.
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Much more information on planemo PR that I used to build a test bed for this:
https://github.com/galaxyproject/planemo/pull/392
Also syncs galaxy with planemo shared library changed.
2015-12-26 22:46:28 +00:00
John Chilton
6580d51293
Merge pull request #1296 from pvanheus/env-modules-resolve
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Documentation for dependency resolvers
2015-12-11 15:00:19 -05:00
Peter van Heusden
73b6fb23db
* Replaced all references to "version number" with "version string"
2015-12-11 20:53:00 +02:00
Peter van Heusden
035f1b5d66
* Incorporate documentation fixes from nsoranzo
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* Replace {} and .format with %s and % to preserve Python 2.6 compatibility
* Add a modulepath= paranter to the fake resolver (Bunch object) used to test the modules dependency resolver
2015-12-11 20:43:03 +02:00
Peter van Heusden
584d886b5e
* Mention modulepath attribute in dependency resolver docs
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* Use modulepath in both environment modules resolvers
* Export MODULEPATH in generated shell command
* Add logging for operation of dependency resolvers
2015-12-11 20:06:13 +02:00
Peter van Heusden
e40fbe5374
* Add comment about base_path in sample config
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* Add documentation on dependency resolvers
2015-12-11 07:31:10 +02:00
Björn Grüning