Tom Clegg [Tue, 9 May 2017 20:33:31 +0000 (16:33 -0400)]
Merge branch '11629-groups-contents-memory'
closes #11629
Peter Amstutz [Tue, 9 May 2017 20:00:39 +0000 (16:00 -0400)]
Add libgnutls28-dev and python3-dev to install package list to satisfy
run-tests.sh dependencies. refs #11308
Tom Clegg [Tue, 9 May 2017 19:49:41 +0000 (15:49 -0400)]
Merge branch '11308-collection-keys'
refs #11308
Tom Clegg [Tue, 9 May 2017 19:31:44 +0000 (15:31 -0400)]
11308: Fix modes not tested in test case.
Tom Clegg [Tue, 9 May 2017 19:30:19 +0000 (15:30 -0400)]
11308: collection.keys() supports indexing for python2 callers.
radhika [Tue, 9 May 2017 14:31:06 +0000 (10:31 -0400)]
refs #10645
Merge branch '10645-cr-mounts-display'
radhika [Tue, 9 May 2017 14:28:23 +0000 (10:28 -0400)]
10645: added comment
radhika [Tue, 9 May 2017 11:35:16 +0000 (07:35 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
radhika [Tue, 9 May 2017 11:33:51 +0000 (07:33 -0400)]
10645: refactor the display of text with locators into a partial
radhika [Tue, 9 May 2017 01:58:07 +0000 (21:58 -0400)]
10645: collection links in command
radhika [Tue, 9 May 2017 01:21:02 +0000 (21:21 -0400)]
10645: regexp for keep_locator_in_json format
radhika [Mon, 8 May 2017 22:56:53 +0000 (18:56 -0400)]
10645: test update
radhika [Mon, 8 May 2017 22:43:54 +0000 (18:43 -0400)]
10645: display PDHs in command as clickable collections.
radhika [Mon, 8 May 2017 21:34:01 +0000 (17:34 -0400)]
10645: display keep locator in mounts as pdh/file_name
Tom Clegg [Mon, 8 May 2017 20:04:59 +0000 (16:04 -0400)]
Merge branch '11638-limit-conns'
closes #11638
Tom Clegg [Mon, 8 May 2017 20:04:01 +0000 (16:04 -0400)]
11638: Log a warning if Postgres pool size is unlimited.
Peter Amstutz [Mon, 8 May 2017 19:14:58 +0000 (15:14 -0400)]
10645: Tweak so that left column is col-md-6 (instead of col-md-5). Also tweak
full width part to be col-md-12. Move "priority" back to right hand column.
Tom Clegg [Mon, 8 May 2017 19:02:54 +0000 (15:02 -0400)]
11638: Add PostgresPool config option, and default application_name
Tom Clegg [Mon, 8 May 2017 18:17:46 +0000 (14:17 -0400)]
11629: Apply memory limits to job/pipeline "components" fields.
Tom Clegg [Mon, 8 May 2017 18:17:16 +0000 (14:17 -0400)]
11629: Fix items_available in groups#contents response.
radhika [Mon, 8 May 2017 17:59:35 +0000 (13:59 -0400)]
10645: L&F improvements
radhika [Mon, 8 May 2017 16:42:10 +0000 (12:42 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
Tom Clegg [Mon, 8 May 2017 16:06:00 +0000 (12:06 -0400)]
Merge branch '11308-python3'
refs #11308
Tom Clegg [Mon, 8 May 2017 16:05:31 +0000 (12:05 -0400)]
11308: Merge branch 'master' into 11308-python3
radhika [Mon, 8 May 2017 13:18:19 +0000 (09:18 -0400)]
10645: improve location regex usage
radhika [Fri, 5 May 2017 19:35:32 +0000 (15:35 -0400)]
10645: table width 100%
Tom Clegg [Fri, 5 May 2017 18:09:54 +0000 (14:09 -0400)]
11629: Limit database reads for all list responses, not just index.
radhika [Fri, 5 May 2017 17:30:38 +0000 (13:30 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
radhika [Fri, 5 May 2017 17:29:59 +0000 (13:29 -0400)]
10645: corrections to test fixture
radhika [Fri, 5 May 2017 16:05:11 +0000 (12:05 -0400)]
closes #8019
Merge branch '8019-crunchrun-log-throttle'
radhika [Fri, 5 May 2017 16:02:36 +0000 (12:02 -0400)]
Merge branch 'master' into 8019-crunchrun-log-throttle
Peter Amstutz [Fri, 5 May 2017 15:54:13 +0000 (11:54 -0400)]
8019: Make flush channel buffered again (because we want to be able to do back-to-back flushes).
Fix "> crunchLogBytesPerEvent" to ">= crunchLogBytesPerEvent" for consistency.
radhika [Fri, 5 May 2017 15:12:48 +0000 (11:12 -0400)]
10645: small style updates
radhika [Fri, 5 May 2017 13:44:53 +0000 (09:44 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
radhika [Fri, 5 May 2017 01:32:37 +0000 (21:32 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
radhika [Fri, 5 May 2017 01:31:18 +0000 (21:31 -0400)]
10645: mount inputs display
Lucas Di Pentima [Thu, 4 May 2017 18:30:52 +0000 (15:30 -0300)]
Merge branch '10111-cr-prov-regression-fixes'
Refs #10111
Lucas Di Pentima [Thu, 4 May 2017 18:26:48 +0000 (15:26 -0300)]
10111: Flipped arrow between the cr and its childs cr.
radhika [Thu, 4 May 2017 17:32:34 +0000 (13:32 -0400)]
8019: uncomment the test statement
Lucas Di Pentima [Thu, 4 May 2017 17:17:54 +0000 (14:17 -0300)]
10111: Only add cr input collections by PDH.
Tom Clegg [Thu, 4 May 2017 17:02:40 +0000 (13:02 -0400)]
8019: Use tl.stopping channel instead of tl.flush to signal Close. Use unbuffered channel to signal flush.
Lucas Di Pentima [Thu, 4 May 2017 15:42:19 +0000 (12:42 -0300)]
10111: Skip log outputs from the provenance graph.
Container request's outputs are now added to the graph by their PDHs so that they connect with the CR childs inputs.
Tom Clegg [Thu, 4 May 2017 15:16:42 +0000 (11:16 -0400)]
11308: Merge branch 'master' into 11308-python3
Tom Clegg [Thu, 4 May 2017 15:09:41 +0000 (11:09 -0400)]
11308: Fix bytes vs. strings from recent merge.
Ward Vandewege [Thu, 4 May 2017 01:01:05 +0000 (21:01 -0400)]
We stopped building packages for Ubuntu 12.04, it is now officially EOL.
No issue #
radhika [Wed, 3 May 2017 21:56:38 +0000 (17:56 -0400)]
closes #11522
Merge branch '11522-remove-user-storage-report-page'
radhika [Wed, 3 May 2017 20:55:40 +0000 (16:55 -0400)]
closes #11250
Merge branch '11250-container-state-display'
radhika [Wed, 3 May 2017 20:37:58 +0000 (16:37 -0400)]
11522: remove link to users storage page in users activity page.
radhika [Wed, 3 May 2017 20:20:08 +0000 (16:20 -0400)]
11250: when a container's priority is zero and in Queued state, show the state as "Cancelled"
radhika [Wed, 3 May 2017 18:37:38 +0000 (14:37 -0400)]
10645: rename file
radhika [Wed, 3 May 2017 18:24:28 +0000 (14:24 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
Peter Amstutz [Wed, 3 May 2017 18:20:08 +0000 (14:20 -0400)]
Merge branch '11369-log-sizes' refs #11369
Peter Amstutz [Wed, 3 May 2017 16:59:34 +0000 (12:59 -0400)]
Merge branch '11469-volume-tmp' refs #11469
Peter Amstutz [Wed, 3 May 2017 16:48:43 +0000 (12:48 -0400)]
Merge branch '11369-dispatch-mem' refs #11369
Peter Amstutz [Wed, 3 May 2017 16:48:03 +0000 (12:48 -0400)]
Merge branch '11369-cwl-crunch2-capacity' refs #11369
Peter Amstutz [Wed, 3 May 2017 14:49:04 +0000 (10:49 -0400)]
11469: Add test for changed tmp mounting behavior.
Tom Clegg [Wed, 3 May 2017 14:20:52 +0000 (10:20 -0400)]
Merge branch '11606-rails4-no-munge'
closes #11606
Tom Clegg [Wed, 3 May 2017 14:20:35 +0000 (10:20 -0400)]
11308: Stop test suite if api etc. cannot be started.
Peter Amstutz [Wed, 3 May 2017 13:52:41 +0000 (09:52 -0400)]
11469: All {kind: tmp} mounts set up under host tempdir, don't try to use
Docker volumes.
Peter Amstutz [Wed, 3 May 2017 02:53:28 +0000 (22:53 -0400)]
11369: Fix tests. Tweak test fixture to include a mounts entry with capacity.
Peter Amstutz [Wed, 3 May 2017 01:26:55 +0000 (21:26 -0400)]
11369: Log node sizes at startup. Fix setting of scratch disk size.
radhika [Wed, 3 May 2017 04:24:41 +0000 (00:24 -0400)]
10645: add test for container_request display with input mounts
Peter Amstutz [Wed, 3 May 2017 03:06:28 +0000 (23:06 -0400)]
11369: Containers API: Add capacity to tmp and output mounts. Also support {outputDirType: keep_output_dir} of RuntimeConstraints.
Peter Amstutz [Wed, 3 May 2017 02:21:36 +0000 (22:21 -0400)]
11369: RAM request includes keep cache RAM. Add request for temp disk.
radhika [Wed, 3 May 2017 01:05:25 +0000 (21:05 -0400)]
Merge branch 'master' into 10645-cr-mounts-display
radhika [Tue, 2 May 2017 20:03:28 +0000 (16:03 -0400)]
8019: need to check and write log if things are closing down
Tom Clegg [Tue, 2 May 2017 17:02:32 +0000 (13:02 -0400)]
11308: Merge branch 'master' into 11308-python3
Conflicts:
sdk/python/arvados/arvfile.py
sdk/python/arvados/commands/put.py
sdk/python/tests/test_collections.py
Lucas Di Pentima [Tue, 2 May 2017 15:44:26 +0000 (12:44 -0300)]
Merge branch '11185-wb-disable-reuse'
Closes #11185
Tom Clegg [Tue, 2 May 2017 15:39:52 +0000 (11:39 -0400)]
11606: Disable deep_munge behavior. Rename test so it runs in test suite.
Lucas Di Pentima [Tue, 2 May 2017 15:24:14 +0000 (12:24 -0300)]
Merge branch '11579-arvput-follow-symlinks'
Closes #11579
Lucas Di Pentima [Tue, 2 May 2017 14:56:56 +0000 (11:56 -0300)]
11185: Merge branch 'master' into 11185-wb-disable-reuse
Lucas Di Pentima [Tue, 2 May 2017 14:55:02 +0000 (11:55 -0300)]
11579: Merge branch 'master' into 11579-arvput-follow-symlinks
Lucas Di Pentima [Tue, 2 May 2017 14:52:44 +0000 (11:52 -0300)]
11579: Added assertion on test to check for file symlinks to be copied by default.
Don't treat a PathDoesNotExist exception as an abnormal termination, just log the proper error message, and quit.
radhika [Tue, 2 May 2017 01:43:37 +0000 (21:43 -0400)]
10645: container request mounts display
Lucas Di Pentima [Mon, 1 May 2017 21:05:02 +0000 (18:05 -0300)]
11579: Removed feature about not uploading a symlinked dir twice.
When using --no-follow-links parameter, symlinked files will be also ignored.
Updated tests.
Lucas Di Pentima [Mon, 1 May 2017 19:58:48 +0000 (16:58 -0300)]
11185: Removed newly added completed-acr fixture and modified the already existing completed-older CR
to be able to use it on the tests.
Change the reset_form() JS function to something more specific to this usage, to avoid future
conflicts.
Tom Clegg [Mon, 1 May 2017 18:03:24 +0000 (14:03 -0400)]
Merge branch '10988-document-ubuntu1604-support'
closes #10988
Tom Clegg [Mon, 1 May 2017 17:57:43 +0000 (13:57 -0400)]
10988: Remove apt.arvados.org repo priority: we no longer publish/require the older packages.
Ward Vandewege [Thu, 26 Jan 2017 22:33:05 +0000 (17:33 -0500)]
10988: Document our Ubuntu 16.04 support.
Peter Amstutz [Mon, 1 May 2017 17:29:49 +0000 (13:29 -0400)]
Merge branch 'master' into origin-8019-crunchrun-log-throttle
Peter Amstutz [Mon, 1 May 2017 16:44:54 +0000 (12:44 -0400)]
Merge branch '11469-volume-tmp' refs #11469
Peter Amstutz [Mon, 1 May 2017 14:36:44 +0000 (10:36 -0400)]
Crunch script doesn't fail in file/directory literals that don't have a 'location'. refs #11549
Peter Amstutz [Mon, 1 May 2017 14:02:56 +0000 (10:02 -0400)]
11469: Docker-managed volumes go in "Volumes" not "Binds".
Lucas Di Pentima [Fri, 28 Apr 2017 19:18:56 +0000 (16:18 -0300)]
11185: Addressed several requests:
* Added '...' to 'Re-run' button's title to indicate it will show a dialog.
* Corrected comment.
* Added javascript code so that the 'Cancel' and 'x' buttons on the dialog reset the checkbox.
* Expanded test cases to cover CRs that both do and don't use arvados-cwl-runner command, with
and without container reuse.
Peter Amstutz [Fri, 28 Apr 2017 18:50:38 +0000 (14:50 -0400)]
8019: Rework partial line throttling. Fix sending flush when buffer is ready
so it does not block.
Tom Clegg [Fri, 28 Apr 2017 16:59:08 +0000 (12:59 -0400)]
Merge branch '11537-keepproxy-loop'
closes #11537
Lucas Di Pentima [Fri, 28 Apr 2017 15:25:01 +0000 (12:25 -0300)]
11579: Check if paths exist, raise meaningful exception if not.
Added test for this case.
Peter Amstutz [Fri, 28 Apr 2017 14:40:06 +0000 (10:40 -0400)]
Merge branch '11549-cwl-smarter-mounts' closes #11549
Tom Clegg [Thu, 27 Apr 2017 19:24:41 +0000 (15:24 -0400)]
11537: Add Via header to get/head/post/put responses.
Tom Clegg [Thu, 27 Apr 2017 14:51:49 +0000 (10:51 -0400)]
11537: Add Via header to proxied keepstore requests.
Propagate keepclient PUT error messages to caller.
Tom Clegg [Thu, 27 Apr 2017 20:55:45 +0000 (16:55 -0400)]
Merge branch '7709-rails-observers'
refs #7709
Tom Clegg [Thu, 27 Apr 2017 20:51:46 +0000 (16:51 -0400)]
7709: Add rails-observers gem so plugins can use it.
Lucas Di Pentima [Thu, 27 Apr 2017 20:15:53 +0000 (17:15 -0300)]
11579: Explicitly following links on test.
Lucas Di Pentima [Thu, 27 Apr 2017 20:12:56 +0000 (17:12 -0300)]
11579: Tests added.
Lucas Di Pentima [Thu, 27 Apr 2017 19:51:31 +0000 (16:51 -0300)]
11579: Added symlinked dir traversal as the default behavior.
Added flag to disable this and ignore symlinked dirs: --no-follow-links.
radhika [Thu, 27 Apr 2017 19:44:37 +0000 (15:44 -0400)]
8019: partial line throttling etc
Peter Amstutz [Thu, 27 Apr 2017 18:24:43 +0000 (14:24 -0400)]
11549: Fix container requests so it doesn't mount each file individually,
instead mount common collections/subdirectories.
Peter Amstutz [Thu, 27 Apr 2017 18:05:00 +0000 (14:05 -0400)]
11549: Test that containers don't mount each file individually, instead mount
common collections/subdirectories.
Tom Clegg [Thu, 27 Apr 2017 16:59:06 +0000 (12:59 -0400)]
Merge branch '7709-api-rails4'
closes #7709
Lucas Di Pentima [Thu, 27 Apr 2017 16:54:32 +0000 (13:54 -0300)]
11579: Test proving the bug: arv-put does not follow symlinks.
projects / arvados.git / log