Lucas Di Pentima [Wed, 3 Jan 2018 21:12:04 +0000 (18:12 -0300)]
12749: Several fixes and enhancements:
* Removed the "add new tag" button, a new empty row is added on demand
* Fixed widget auto-focus when adding new tag names and values
* Fixed conditional usages
* Simplified vocabulary definition format
* Renamed example vocabulary file
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 2 Jan 2018 20:19:06 +0000 (17:19 -0300)]
12479: Renamed 'overridable' property to 'strict'. Both toplevel
and type specific 'strict' properties are assumed false by default.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 2 Jan 2018 19:17:16 +0000 (14:17 -0500)]
Drop superfluous "node-info" prefix in node-info.txt log file.
No issue #
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 2 Jan 2018 17:47:18 +0000 (14:47 -0300)]
12479: Removed commented out test
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 2 Jan 2018 17:14:35 +0000 (14:14 -0300)]
12479: Removed tags related code on wb, not needed with the new
tag editor. Removed related tests.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 2 Jan 2018 16:19:07 +0000 (13:19 -0300)]
12479: Old tag editor files removal. Tests commented out.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 2 Jan 2018 05:47:04 +0000 (00:47 -0500)]
12876: Pass commands through to ruby/python programs.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 27 Dec 2017 07:19:17 +0000 (02:19 -0500)]
12876: Simplify legacy option parsing.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Sun, 24 Dec 2017 19:44:36 +0000 (14:44 -0500)]
12876: Fix up error/usage messages.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Sat, 23 Dec 2017 06:26:28 +0000 (01:26 -0500)]
12876: More compatibility with "arv get".
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Sat, 23 Dec 2017 06:14:11 +0000 (01:14 -0500)]
12876: Util to accept subcommand after initial args.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 22 Dec 2017 14:45:58 +0000 (09:45 -0500)]
12876: arvados-client get [-format=yaml] uuid
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 22 Dec 2017 19:32:24 +0000 (14:32 -0500)]
Merge branch '12755-python3-centos7'
fixes #12755
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 22 Dec 2017 19:31:36 +0000 (14:31 -0500)]
12755: Resume packaging arvados-docker-cleaner for centos7.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Fri, 22 Dec 2017 16:41:58 +0000 (13:41 -0300)]
12479: Syntax error fixed.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Fri, 22 Dec 2017 16:16:48 +0000 (11:16 -0500)]
12755: Revert
ce0a973 for python33 packages.
They started trying to claim directories like /opt/rh/python33 and
became uninstallable as a result.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Fernando Monserrat [Fri, 22 Dec 2017 15:18:01 +0000 (12:18 -0300)]
refs #12850 Merge branch '12850-docker-tag-version'
Arvados-DCO-1.1-Signed-off-by: Fernando Monserrat <fmonserrat@veritasgenetics.com>
Lucas Di Pentima [Fri, 22 Dec 2017 15:11:59 +0000 (12:11 -0300)]
12479: Avoid saving tags with name and/or value being empty string.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Fri, 22 Dec 2017 12:53:16 +0000 (09:53 -0300)]
12479: Add placeholder messages on selectize boxes. Filter keys/values
when being empty strings (ie: when adding new tags).
Fixed bug that made the Save button behave incorrectly.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Thu, 21 Dec 2017 18:48:54 +0000 (13:48 -0500)]
Note DCO requirement.
Fix some typos.
No issue #
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 21 Dec 2017 18:25:18 +0000 (13:25 -0500)]
Fix copyright header, and copyright header checker exit code.
No issue #
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 21 Dec 2017 17:41:19 +0000 (12:41 -0500)]
Merge branch '12844-webdav-move-into-self'
fixes #12844
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 21 Dec 2017 16:53:26 +0000 (11:53 -0500)]
Merge branch 'patch-2' of https://github.com/jrandall/arvados
fixes #11621
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Joshua C. Randall [Thu, 21 Dec 2017 14:54:13 +0000 (14:54 +0000)]
fix bwa-mem.cwl docker repo
Change from missing `biodckr/bwa` repo to minimal bwa docker image `lh3lh3/bwa`
The new docker image has `bwa` set as entrypoint, so also change `baseCommand` from `[bwa, mem]` to `[mem]`
Fixes 11621
Arvados-DCO-1.1-Signed-off-by: Joshua C. Randall <jcrandall@alum.mit.edu>
Tom Clegg [Thu, 21 Dec 2017 15:21:04 +0000 (10:21 -0500)]
12844: Refuse to unreference a directory by moving it into itself.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Fernando Monserrat [Thu, 21 Dec 2017 15:14:35 +0000 (12:14 -0300)]
#12850 trim whitespaces for lint
Arvados-DCO-1.1-Signed-off-by: Fernando Monserrat <fmonserrat@veritasgenetics.com>
Lucas Di Pentima [Wed, 20 Dec 2017 22:24:45 +0000 (19:24 -0300)]
Merge branch 'master' into 12479-wb-structured-vocabulary
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Fernando Monserrat [Wed, 20 Dec 2017 20:25:23 +0000 (17:25 -0300)]
#12850 add tag as input for docker tag
Arvados-DCO-1.1-Signed-off-by: Fernando Monserrat <fmonserrat@veritasgenetics.com>
Lucas Di Pentima [Wed, 20 Dec 2017 19:13:14 +0000 (16:13 -0300)]
12479: When requesting the collection, only ask the api server for the
properties.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Wed, 20 Dec 2017 18:38:04 +0000 (15:38 -0300)]
12479: Save button changes state when having changes to save and after
saving. When no tags, show a proper message.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Wed, 20 Dec 2017 16:13:14 +0000 (13:13 -0300)]
12479: Replacing isDirty flag with dirty stream
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Wed, 20 Dec 2017 16:00:21 +0000 (13:00 -0300)]
12479: WIP making the save objject show the save state
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 19 Dec 2017 22:04:10 +0000 (19:04 -0300)]
12479: Properties saving working. Remove tag button styling.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 19 Dec 2017 21:46:29 +0000 (16:46 -0500)]
Merge branch '12848-python-versions'
refs #12848
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 19 Dec 2017 21:41:52 +0000 (16:41 -0500)]
12848: Fix python builder ignoring --build-version.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 19 Dec 2017 18:45:30 +0000 (15:45 -0300)]
12479: Remove tag button working.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 19 Dec 2017 18:16:30 +0000 (15:16 -0300)]
12479: Refactoring to simplify the code.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 19 Dec 2017 16:19:00 +0000 (11:19 -0500)]
12755: Stop building arvados-docker-cleaner for centos7.
(until we make the package installable again)
refs #12755
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 19 Dec 2017 09:14:55 +0000 (04:14 -0500)]
12377: Update workbench test breaking since
484246ac0.
refs #12377
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 19 Dec 2017 03:21:39 +0000 (22:21 -0500)]
Merge branch '12715-slow-propfind'
fixes #12715
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 18 Dec 2017 22:12:04 +0000 (19:12 -0300)]
12479: Add Selectize via npm package
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 18 Dec 2017 22:04:36 +0000 (17:04 -0500)]
Merge branch '12822-keepproxy-token-scope'
refs #12822
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Mon, 18 Dec 2017 20:36:10 +0000 (15:36 -0500)]
Merge branch '12377-workbench-composer-link' refs #12377
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Lucas Di Pentima [Mon, 18 Dec 2017 19:42:19 +0000 (16:42 -0300)]
12479: Passing UUID & controller name data from data-mount-mithril element
instead of parsing URL.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 18 Dec 2017 17:52:09 +0000 (12:52 -0500)]
Merge branch '12821-sbatch-script-race'
refs #12821
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 18 Dec 2017 13:57:34 +0000 (10:57 -0300)]
12479: Assign default vocabulary on model instantiation
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 18 Dec 2017 13:06:03 +0000 (10:06 -0300)]
12479: Get remote vocabulary definition, use a fallback is it doesn't exist.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 18 Dec 2017 11:10:21 +0000 (08:10 -0300)]
12479: New tag editor for structured vocabulary. There are pending
issues to be solved.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Sat, 16 Dec 2017 00:13:24 +0000 (19:13 -0500)]
12821: Fix race in concurrent calls to submit().
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 20:21:26 +0000 (15:21 -0500)]
Merge branch '12721-build-test-version'
refs #12721
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 17:51:07 +0000 (12:51 -0500)]
12721: Add run-build-test-packages-one-target.sh --build-version arg
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 15:14:13 +0000 (10:14 -0500)]
12715: Rename flag !reading => alwaysReadEOF.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Fri, 15 Dec 2017 14:25:32 +0000 (09:25 -0500)]
Add composer_url to arvbox workbench config refs #12377
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 03:25:38 +0000 (22:25 -0500)]
12715: Fix slow PROPFIND by avoiding content probing.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 03:13:17 +0000 (22:13 -0500)]
12822: Allow reading from keepproxy with collection sharing tokens.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Thu, 14 Dec 2017 23:05:23 +0000 (18:05 -0500)]
12377: Add link to composer on workbench
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 21:52:50 +0000 (16:52 -0500)]
Merge branch '8311-mount-git'
closes #8311
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 21:22:08 +0000 (16:22 -0500)]
8311: Fix gitUrl discovery doc for config git_repo_https_base: true.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 21:14:00 +0000 (16:14 -0500)]
8311: Ensure git tree is readable even with umask 077.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 21:01:19 +0000 (16:01 -0500)]
8311: Remove support for writable git_tree mount.
Feature is of dubious value, and expected behavior isn't clear --
e.g., should all files be world-writable?
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 20:56:18 +0000 (15:56 -0500)]
8311: Ensure git tree tmpdir is readable by container.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Thu, 14 Dec 2017 20:22:24 +0000 (15:22 -0500)]
8311: Pass in container token to extractTree
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 20:22:18 +0000 (15:22 -0500)]
8311: Ensure gitUrl is always a string in the discovery doc.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 18:17:12 +0000 (13:17 -0500)]
8311: Fix API tests broken in
4343e1f.
* Restore arvados repo dropped from tarball.
* Fix git repo fixtures being removed in API test teardown.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 17:14:48 +0000 (12:14 -0500)]
8311: Tidy up integration test services.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 16:37:10 +0000 (11:37 -0500)]
8311: Update docs to describe current implementation.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 16:26:02 +0000 (11:26 -0500)]
8311: Reject invalid/unsupported git mounts. Default to path="/".
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 13 Dec 2017 22:13:42 +0000 (17:13 -0500)]
8311: Try some git_tree mounts in TestSetupMounts.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 12 Dec 2017 23:56:07 +0000 (18:56 -0500)]
8311: Add git_tree mount type.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 15:29:10 +0000 (10:29 -0500)]
8311: Add auth handler tests.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 12 Dec 2017 23:58:15 +0000 (18:58 -0500)]
8311: Access git repos by UUID.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 15:26:08 +0000 (10:26 -0500)]
8311: Fix "read" or "write" mistakenly appended to response data.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 14 Dec 2017 15:25:14 +0000 (10:25 -0500)]
8311: Remove debug printf.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Thu, 14 Dec 2017 14:41:03 +0000 (09:41 -0500)]
Fix Access-Control-Allow-Headers CORS header tests refs #12060
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 13 Dec 2017 21:17:43 +0000 (16:17 -0500)]
Add Content-Type to Access-Control-Allow-Headers CORS headers refs #12060
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 13 Dec 2017 16:12:56 +0000 (11:12 -0500)]
Merge branch '4019-query-properties' closes #4019
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 13 Dec 2017 15:01:38 +0000 (10:01 -0500)]
4019: More tests for error cases
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 13 Dec 2017 14:50:53 +0000 (09:50 -0500)]
4019: Improve error checking, add tests for some error cases
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 13 Dec 2017 14:12:42 +0000 (09:12 -0500)]
Merge branch '12614-node-states' refs #12614
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 21:19:37 +0000 (16:19 -0500)]
Tag arvados/jobs image with $cwl_runner_version instead of git hash refs #12811
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 20:39:30 +0000 (15:39 -0500)]
12614: Can shutdown failed nodes.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 18:58:16 +0000 (13:58 -0500)]
12614: Support daemon actor aware of 'fail' node state
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 18:35:21 +0000 (13:35 -0500)]
12614: Make node manager aware of "fail" node state.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Tue, 12 Dec 2017 16:51:44 +0000 (11:51 -0500)]
Merge branch '12803-unescaped-colon-filename'
fixes #12803
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 16:29:48 +0000 (11:29 -0500)]
Merge branch '12765-workbench-404-trashed' refs #12765
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Tue, 12 Dec 2017 16:29:37 +0000 (11:29 -0500)]
12803: Accept unescaped colons in filenames.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 15:40:40 +0000 (10:40 -0500)]
4019: Add index for efficient jsonb query on collection properties
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 12 Dec 2017 15:32:15 +0000 (10:32 -0500)]
4019: Add URI quoting option for keys. Update docs. Fix tests.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 11 Dec 2017 22:50:00 +0000 (17:50 -0500)]
4019: Update docs. Tweak syntax of 'exists' and add alternate form.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 22:00:40 +0000 (17:00 -0500)]
Merge branch '12550-crunch1-exit-race'
refs #12550
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Mon, 11 Dec 2017 21:34:37 +0000 (16:34 -0500)]
Merge branch '12511-is-trashed-query' refs #12511
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 11 Dec 2017 21:33:12 +0000 (16:33 -0500)]
4019: Expand testing. Make behavior consistent for != and "not in"
Rename "?" to "exists" and add "not exists".
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 21:16:13 +0000 (16:16 -0500)]
Merge branch '12167-python-request-id'
refs #12167
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 20:43:04 +0000 (15:43 -0500)]
12167: Allow --silent to be combined with -*-progress flags.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 19:32:01 +0000 (14:32 -0500)]
12167: Test arv-get and arv-put X-Request-Id logging.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Mon, 11 Dec 2017 16:54:52 +0000 (11:54 -0500)]
12511: readable_by filters on is_trashed directly
Fix performance problem in the negative join NOT EXISTS(...) used to filter out
trashed items for admin users. The clause
(uuid = target_uuid OR owner_uuid = target_uuid) doesn't use the index
efficiently and results in a very expensive seq scan.
However, the "OR" in the negative clause is not necessary. We only need
materialized_permission_view to know if "owner_uuid" is trashed (directly or
indirectly), not "uuid". If the record type has an is_trashed flag (currently
only collections and groups) then it is more efficient to filter on that
directly.
This commit refactors the readable_by query to only check owner_uuid, and
additionally filter on "is_trashed" for collections and groups.
As an additional cleanup, because "readable_by" now explicitly knows to filter
on "is_trashed" this makes the default_scope in Collections redundant. This
commit also removes default_scope & various uses of unscoped reduces complexity.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 17:42:57 +0000 (12:42 -0500)]
12550: Fix race: read buffered data from stderr after child exits.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 11 Dec 2017 02:52:41 +0000 (21:52 -0500)]
12721: Add missing _version.py, now part of source tree.
refs #12721
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Sat, 9 Dec 2017 18:59:23 +0000 (13:59 -0500)]
4019: Initial support for queries on jsonb subproperties.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Sat, 9 Dec 2017 16:37:22 +0000 (11:37 -0500)]
Merge branch '12765-permission-graph-trash' refs #12765
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
projects / arvados.git / log