mvdbeek
2e5bbad353
Clarify the last section
2017-09-03 19:47:29 +02:00
mvdbeek
634f7dcd39
Add a small howto on profiling galaxy code
2017-09-03 19:38:56 +02:00
E Rasche
326477d957
implement influxdb error reporter
2017-08-31 16:08:26 +02:00
Nicola Soranzo
4dd503046f
Update conda channel order to sync with Bioconda
2017-08-14 12:18:39 +01:00
John Chilton
50d426ed2b
Add reports documentation to `doc/`.
...
- Automatically generate RST docs from config schema.
- Describe older functionality as well as new YAML-based configuration.
- Replace https://wiki.galaxyproject.org/Admin/UsageReports .
2017-08-10 13:15:30 -04:00
E Rasche
46b621708a
Allow sentry to be verbose
2017-08-10 17:53:00 +02:00
E Rasche
437ab325da
document
2017-08-10 17:53:00 +02:00
E Rasche
89887689b4
correct some spelling errors
2017-08-07 11:46:24 +02:00
E Rasche
ddcddecb4a
rename scripts
2017-08-07 10:49:56 +02:00
E Rasche
1043ee5fd4
update docs to reflect new locations
2017-08-07 10:49:09 +02:00
E Rasche
70f4bc957e
update documentation and fix blacklisting bug
2017-08-04 13:45:01 +02:00
Anton Nekrutenko
dd0336e7d2
Merge pull request #4113 from erasche/security-policy
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[PROCEDURES] Security policy
2017-06-28 14:36:06 +02:00
Nicola Soranzo
fc9b3ad4a9
Generate api.rst and ts_api.rst during make
2017-06-02 16:47:30 +01:00
Nicola Soranzo
5ab560068d
Update lib documentation
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Also simplify updaterst target in doc/Makefile
Partially revert commit b4feb85f11
2017-06-02 15:09:44 +01:00
E Rasche
2f992d90ae
Rebase
2017-06-01 16:43:21 +00:00
E Rasche
f6f49bd020
Security policies will fall under procedures
2017-05-24 18:23:38 +00:00
Nicola Soranzo
4294663d53
Improve 17.05 release notes
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Also add 4 pull requests merged in the last few days.
2017-05-24 12:10:05 +01:00
Martin Cech
1bdd1620fe
listify new contributors
2017-05-22 14:37:02 -04:00
Martin Cech
f9f206ca45
polish release notes, add links to tutorials
2017-05-22 14:20:42 -04:00
Martin Cech
c459cd66ba
add new datatypes section to the announce
2017-05-17 15:26:10 -04:00
Martin Cech
f0570a20a8
link to proper release-bound sample config
2017-05-17 15:14:19 -04:00
Martin Cech
c8250ae68a
add new options from galaxy.ini diff
2017-05-17 14:56:23 -04:00
Martin Cech
56874e1630
rn improvements
2017-05-17 11:55:07 -04:00
Martin Cech
5aaf95e045
fix links to wiki/hub
2017-05-17 11:13:05 -04:00
Martin Cech
4cb13b2404
add 17.05 to the release list
2017-05-17 11:06:48 -04:00
Martin Cech
d1ce1a6237
initial version of RN
2017-05-17 10:59:39 -04:00
Eric Rasche
6dd145ed1a
Try and document a bit
2017-05-14 16:02:09 +00:00
Eric Rasche
88c0635ef7
Link has already rotted
2017-05-14 16:02:09 +00:00
Eric Rasche
388bb42ba0
Stats docs
2017-04-24 21:14:33 +00:00
Martin Cech
bdcf4807ce
add basic Reports documentation
2017-03-27 15:39:54 -04:00
Martin Cech
b4feb85f11
improve accessibility of API docs
...
for both Galaxy and TS
2017-03-27 15:21:37 -04:00
Martin Cech
e02e2cb09e
improve doc-build-urself docs
2017-03-16 15:55:22 -04:00
Martin Cech
85093dc13a
reword topic
2017-03-16 15:55:17 -04:00
Martin Cech
f174358b95
fix link to galaxy logo
2017-03-16 15:54:22 -04:00
Martin Cech
460d876fc4
Merge pull request #3751 from jmchilton/auth_docs
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New Authentication section of the docs.
2017-03-15 13:39:57 -04:00
Martin Cech
3d092d683e
Merge branch 'dev' into admin-docs-from-hub
2017-03-15 12:53:46 -04:00
John Chilton
d505fcf260
New Authentication section of the docs.
...
I pulled in this doc https://galaxyproject.org/develop/authentication/ which was very dated and somewhat incorrect and I filled it out with more details, updated configuration information, and a whole new section on the authentication framework. I also pulled in this doc https://galaxyproject.org/admin/user-accounts/ which was pretty good and I left it largely unchanged.
Rebased to fix index inclusion and with edits suggested by :eagle:👀 .
2017-03-14 14:35:35 -04:00
Martin Cech
4b6373f042
fix outdated links
2017-03-14 11:11:30 -04:00
Martin Cech
6f8deb6f4a
move webhooks images where they belong
2017-03-14 11:02:33 -04:00
Nate Coraor
08f66a924b
GIE container waiting and swarm management.
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1. Create a new API endpoint and client spin to wait for GIE containers to
become ready. IEs are not required to use it, but usage does require
a slight change to their `load_notebook()` functions.
2. Add a Docker swarm manager daemon that runs automatically
to add nodes when services are waiting, clean up exited services, and
remove idle nodes. Shuts down automatically when there's nothing to
do.
The format of the GIE proxy session database has changed, if GIEs are
running when you restart Galaxy, they will be interrupted. If you run
the GIE proxy separate from Galaxy, you should restart it after
upgrading.
2017-03-13 21:31:55 -04:00
Dannon Baker
33ff2754cc
Merge pull request #3708 from natefoo/dep-resolve-order
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Prefer versioned Conda dependencies to unversioned Galaxy ones
2017-03-10 16:26:52 -05:00
Nate Coraor
45971b29bd
Update dependency resolver docs for new default order
2017-03-10 16:08:57 -05:00
Martin Cech
817a9db1f7
move some admin docs to separate special topics section
2017-03-10 15:57:12 -05:00
Martin Cech
66a02b6af1
modify our docs in preparation for restructuring
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start moving admin content from old wiki
2017-03-10 12:06:24 -05:00
Nate Coraor
293726c579
Support Docker Engine swarm mode
2017-03-03 10:27:18 -05:00
Nicola Soranzo
0b4e52c8e9
Merge branch 'release_17.01' into dev
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Conflicts:
lib/galaxy/managers/workflows.py
Discarded all changes made to
lib/galaxy/managers/workflows.py
in https://github.com/galaxyproject/galaxy/pull/3681
2017-03-01 11:32:59 +00:00
Martin Cech
5a5dbb97f1
improve 17.01 get galaxy release notes
2017-02-25 10:49:42 -05:00
Dannon Baker
f6649f8904
Merge branch 'release_17.01' into dev
2017-02-16 16:18:34 -05:00
Martin Cech
0e9eb78636
deprecate repair repository feature
2017-02-14 15:25:24 -05:00
John Chilton
d066ae2223
Link fixes thanks to @nsoranzo.
2017-02-13 09:19:29 -05:00
mvdbeek