John Chilton
5f23f5da72
Merge pull request #5625 from bernt-matthias/topic/memperslot
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added GALAXY_MEMORY_MB_PER_SLOT variable
2018-03-20 09:34:59 -04:00
Nicola Soranzo
0cf88623ee
Merge branch 'release_18.01' into dev
2018-03-19 17:52:05 +00:00
mvdbeek
d5d1e4b80d
Clarfify that nginx-extras needs to be install for the upload_store directive to work
2018-03-19 11:41:48 +01:00
Dannon Baker
c6993caabf
Merge branch 'chunk_uploads' into dev
2018-03-14 09:10:42 -04:00
guerler
8d1e0fccc2
Add chunk size config option to schema
2018-03-13 17:25:51 -04:00
Marius van den Beek
7bcd16d4cc
Merge pull request #5685 from martenson/security-rn
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[18.01] add security announcement to the release notes
2018-03-13 18:08:42 +01:00
Nicola Soranzo
b92a5e1b47
Small doc fixes
2018-03-13 16:51:17 +00:00
Martin Cech
73e61f5fdc
add security announcement to the rn
2018-03-13 12:38:23 -04:00
Matthias Bernt
4a59f30209
added cluster admin docs for the new variables
2018-03-13 17:22:05 +01:00
Nate Coraor
4fc6380708
Merge remote-tracking branch 'origin/release_18.01' into dev
2018-03-12 16:51:30 -04:00
John Chilton
9c0c8ee679
Mention self.current_pr in release notes.
2018-03-12 12:47:18 -04:00
John Chilton
2db95b4d1d
Rename datatype extension 'bam_native' to 'unsorted.bam'.
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We handle other bam types this way and other more specific variants of an extension (e.g. thermo.raw) so this feels like the more consistent thing to do.
2018-03-12 12:29:57 -04:00
Martin Cech
df03a59c53
move some sections deeper in the document
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to make the highlights more focused
2018-03-09 16:57:08 -05:00
Nicola Soranzo
c5ead795b5
Add #5643 to release notes
2018-03-09 12:22:59 +00:00
Nicola Soranzo
235d6c3269
Condense some entries
2018-03-09 11:58:27 +00:00
Nicola Soranzo
804f815eee
Fix bullet list indentation
2018-03-09 11:43:28 +00:00
Nicola Soranzo
e68ac4a3c8
Highlights fixes
2018-03-09 11:39:04 +00:00
John Chilton
9e274278f1
Small language tweaks.
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Including fixes from :eagle:👀 .
2018-03-08 22:33:21 -05:00
John Chilton
6d4b83990f
Spell check 18.01 release notes and small tweaks.
2018-03-08 22:30:46 -05:00
John Chilton
b964722acc
More release 18.01 release note tweaks.
2018-03-08 22:20:23 -05:00
John Chilton
1923786a65
Condense many 18.01 release bullets, expand a few - part 3 of 1003.
2018-03-08 22:02:06 -05:00
John Chilton
1a68096cfa
Condense many 18.01 release bullets, expand a few - part 2 of 1003.
2018-03-08 20:53:24 -05:00
John Chilton
cb477ddcf0
Condense many 18.01 release bullets, expand a few.
2018-03-08 20:35:24 -05:00
John Chilton
e923c61a07
More progress on release notes, still very rough.
2018-03-08 20:24:43 -05:00
John Chilton
3515d60405
Another couple sentences of release docs.
2018-03-08 17:29:48 -05:00
John Chilton
02bf18f33b
Some initial work on release highlights, still completely broken.
2018-03-08 17:07:17 -05:00
Martin Cech
63292de10a
add trackster fix to RN
2018-03-08 15:56:04 -05:00
Martin Cech
0229bf5329
announce removal of planttribe datatypes
2018-03-08 14:41:02 -05:00
Martin Cech
9c9c69ca29
iniital work on RN
2018-03-08 14:07:51 -05:00
John Chilton
e7f7759cc2
Better default configuration of Galaxy test data directory.
2018-03-06 20:07:52 -05:00
Martin Cech
0c7dcc37c9
Merge pull request #5539 from jmchilton/per_request_sql_debugging
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Add middleware and instrumentation to allow per-request SQL debugging.
2018-02-19 15:26:16 -05:00
John Chilton
b84da7a07a
Allow per-request SQL debugging via URL parameter.
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This has been super helpful in debugging the SQL generated by Galaxy for recent PRs.
To use this simply enable the middleware, use your browser's network logger to find the URL of interest, copy the URL into the browser address bar and add ``?debug_sql=1`` to it. You will then see the sql in the logs only for that request and for every statement in that request.
Simply turning all logging on results in a deluge of logging I've never been able to grok and that is very hard to ping to particular request. Slow request logging is great but it doesn't make this kind of per-query full profile of the SQL generated as easy as this approach and isn't great at debugging performance problems when the result from a large number of small requests (you'd have to set a very low threshold to make sure you are logging every query and then it is no different from the full log).
2018-02-18 13:37:19 -05:00
Dannon Baker
a54681e8c6
Merge pull request #5334 from natefoo/doc-versioning
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Documentation version selection
2018-02-15 14:38:16 -05:00
Nicola Soranzo
6f2a0cceb0
Unify config-rebuild Makefile targets
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Rebuild reports sample and RST from schema with the new Makefile target.
2018-02-08 10:16:58 -05:00
Dannon Baker
8ce7f96353
Rebuild rst for new configuration options
2018-02-08 08:16:46 -05:00
Anthony Bretaudeau
4dbfd50f06
Merge branch 'dev' into i18n
2018-02-07 09:40:19 +01:00
Nicola Soranzo
245394acb6
Merge branch 'release_18.01' into dev
2018-02-02 22:19:02 +00:00
Martin Cech
f24043e8a7
Merge pull request #5441 from natefoo/framework-dependencies-doc-update-18.01
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[18.01] Admin doc corrections
2018-02-01 16:38:50 -05:00
Nate Coraor
6d8edce331
Admin doc corrections
2018-02-01 16:25:12 -05:00
Martin Cech
b4cdce925b
Merge branch 'release_18.01' into dev
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I removed the conflicted file that was modified
in dev after removal in 18.01
2018-02-01 15:57:38 -05:00
Martin Cech
ffaabe0a63
Merge pull request #5342 from dannon/integration.webhooks_improvements
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[18.01] Webhooks improvements
2018-02-01 15:14:47 -05:00
Martin Cech
a37b638491
Merge pull request #5390 from natefoo/framework-dependencies-doc-update
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[18.01] Update framework dependencies documentation
2018-02-01 15:00:15 -05:00
Evgeny Anatskiy
29c766167a
update webhooks docs
2018-02-01 12:22:21 -05:00
Nicola Soranzo
da002bdf44
Merge branch 'release_18.01' into dev
2018-01-31 11:46:53 +00:00
Nicola Soranzo
5b23c0e87d
Merge branch 'release_17.09' into release_18.01
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Conflicts:
client/galaxy/scripts/mvc/workflow/workflow-node.js
config/galaxy.ini.sample
static/maps/mvc/workflow/workflow-node.js.map
static/scripts/mvc/workflow/workflow-node.js
2018-01-31 10:38:53 +00:00
Nicola Soranzo
c0c95548a3
Merge branch 'release_17.05' into release_17.09
2018-01-31 10:16:33 +00:00
mvdbeek
a70f2875b3
Remove r channel from more locations
2018-01-29 18:07:29 +01:00
Nate Coraor
6333e83a65
Doc corrections from @nsoranzo
2018-01-26 10:18:53 -05:00
Nate Coraor
fd96864bd6
Finish updates to framework dependencies doc
2018-01-25 12:36:11 -05:00
Nate Coraor
6bdd755aaf
WIP framework dependencies doc update
2018-01-25 12:36:11 -05:00
John Chilton