Lucas Di Pentima [Tue, 16 Jan 2018 21:36:27 +0000 (18:36 -0300)]
Merge branch '12479-wb-structured-vocabulary'
Closes #12479
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 21:21:14 +0000 (18:21 -0300)]
12479: Clear vocabulary.json cache every 5 minutes.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 21:07:22 +0000 (18:07 -0300)]
12479: Updated example vocabulary. Attempt to show all the items
on a given listing, using a scrolled list if necessary.
Also disabled sorting feature on awesomplete as it uses a default
sorting not suitable for our use case.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 16 Jan 2018 20:51:22 +0000 (15:51 -0500)]
Merge branch '12705-token-cache'
closes #12705
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 20:45:46 +0000 (17:45 -0300)]
12479: Accept tags with empty values
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 20:30:50 +0000 (17:30 -0300)]
12479: Merge branch '12479-wb-structured-vocabulary' of git.curoverse.com:arvados into 12479-wb-structured-vocabulary
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 16 Jan 2018 20:15:43 +0000 (15:15 -0500)]
12479: Set dirty flag on change even when clearing input.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 19:36:19 +0000 (16:36 -0300)]
12479: Merge branch '12479-wb-structured-vocabulary' of git.curoverse.com:arvados into 12479-wb-structured-vocabulary
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 16 Jan 2018 19:32:33 +0000 (14:32 -0500)]
12479: Fix per-tag strict mode.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 16 Jan 2018 19:18:44 +0000 (16:18 -0300)]
12479: Avoid tags tab reloading after saving.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 16 Jan 2018 19:18:40 +0000 (14:18 -0500)]
12479: Open autocomplete when focusing an empty field.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 16 Jan 2018 18:19:59 +0000 (13:19 -0500)]
12479: Use onupdate + stable vnode keys, let focus handle itself.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 15 Jan 2018 22:07:25 +0000 (17:07 -0500)]
12705: Note 5 minute cache effect during user migration.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 15 Jan 2018 21:55:56 +0000 (16:55 -0500)]
12705: Update authorized user when refreshing token cache.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 15 Jan 2018 21:16:23 +0000 (18:16 -0300)]
12479: Re-added 'key' to the tag key div, because the lack of it
produces an odd behavior when removing some existing tag using
the trash button and then trying to add a new tag.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 15 Jan 2018 20:46:31 +0000 (17:46 -0300)]
12479: Replaced selectize widget with awesomplete to solve some
issues when navigating fields with TAB key.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Fri, 12 Jan 2018 15:19:45 +0000 (10:19 -0500)]
Merge branch '12705-user-migrate-docs'
closes #12705
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 11 Jan 2018 19:53:14 +0000 (14:53 -0500)]
12705: Add "change account owner" and "merge remote account" pages.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 11 Jan 2018 19:04:04 +0000 (14:04 -0500)]
Merge branch '12933-log-node-properties'
refs #12933
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 11 Jan 2018 18:18:02 +0000 (13:18 -0500)]
12933: Add missing params arg, remove outdated comment.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 11 Jan 2018 16:50:13 +0000 (11:50 -0500)]
12933: Merge branch 'master' into 12933-log-node-properties
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 10 Jan 2018 15:37:14 +0000 (10:37 -0500)]
12933: Log node info in node.json, similar to container.json.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Wed, 10 Jan 2018 15:23:10 +0000 (10:23 -0500)]
Merge branch '12940-arvbox-runit' closes #12940
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 22:49:07 +0000 (17:49 -0500)]
12940: Fix fallback when overlay2 isn't available for docker-in-docker
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 22:02:49 +0000 (17:02 -0500)]
12940: Fix bundler issues
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 20:39:21 +0000 (15:39 -0500)]
12940: Use runit directly instead of runsvinit
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Wed, 10 Jan 2018 07:48:35 +0000 (02:48 -0500)]
12933: Include node properties in crunch2 logs.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 10 Jan 2018 07:02:11 +0000 (02:02 -0500)]
Merge branch 'govendor'
No issue #
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 9 Jan 2018 23:15:40 +0000 (18:15 -0500)]
Update tests to reflect gomux change.
If an unroutable request would have matched a route if the method had
been different, mux now responds 405 Method Not Allowed instead of
using NotFoundHandler.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 20:57:03 +0000 (15:57 -0500)]
Merge branch '12921-run-in-single-hints' closes #12921
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Tue, 9 Jan 2018 16:57:11 +0000 (11:57 -0500)]
Update go dependencies. Add check for missing dependencies.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 9 Jan 2018 15:55:25 +0000 (10:55 -0500)]
Fix duplicated auth_uuid in container test fixtures.
Fixes flaky test.
No issue #.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 9 Jan 2018 15:54:50 +0000 (10:54 -0500)]
Merge branch '12702-migrate-user'
closes #12702
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 15:20:14 +0000 (10:20 -0500)]
12921: Fix outputTTL to apply to RunInSingleContainer
Arvados extensions should not propagate to workflow inside the
container (which is run using cwltool), but do need to propagate to
RunInSingleContainer CommandLineTool.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 14:50:17 +0000 (09:50 -0500)]
Merge branch '12913-secondary-mounts' refs #12913
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 9 Jan 2018 14:31:39 +0000 (09:31 -0500)]
12913: Add integration test for fix
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 8 Jan 2018 21:39:15 +0000 (16:39 -0500)]
12913: Apply secondaryFiles to inputs to RunInSingleContainer
Fixes bug where mounts mismatch cwl.input.yml due to discovering
secondaryFiles during workflow execution.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 20:53:28 +0000 (15:53 -0500)]
12876: Update govendor bundle.
refs #12876
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 8 Jan 2018 20:52:50 +0000 (17:52 -0300)]
12479: Removed plugin. Fixed onFocus() behavior on strict listings.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 20:51:08 +0000 (15:51 -0500)]
Merge branch '12876-arvados-client'
refs #12876
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 18:30:55 +0000 (13:30 -0500)]
12702: Disallow updating sys/anon UUIDs. Test updating current user.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 8 Jan 2018 18:05:53 +0000 (15:05 -0300)]
12479: UX enhancements:
* When focusing a "strict" select list, open the dropdown list
* Placeholder messages customized for different strict/no-strict cases
* Added plugin to show a "no results found" message when the user
types something that doesn't match with the available options on a
strict list.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 8 Jan 2018 14:44:38 +0000 (11:44 -0300)]
12479: Merge branch 'master' into 12479-wb-structured-vocabulary
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 16:10:00 +0000 (11:10 -0500)]
Update govendor bundle.
No issue #
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 16:02:51 +0000 (11:02 -0500)]
Merge branch '12908-slurm-cons-res'
fixes #12908
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 16:01:55 +0000 (11:01 -0500)]
12908: Mention SelectType=select/cons_res in slurm config advice.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 15:34:01 +0000 (10:34 -0500)]
Merge branch '12720-systemd-compat'
fixes #12720
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 15 Dec 2017 19:08:16 +0000 (14:08 -0500)]
12720: Invoke StartLimitInterval three different ways.
Needed to convince various versions of systemd not to go into "leave
service down and wait for manual intervention" mode automatically.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Ward Vandewege [Mon, 8 Jan 2018 02:38:29 +0000 (21:38 -0500)]
Add systemd unit file for arvados-health.
refs #12260
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 01:40:32 +0000 (20:40 -0500)]
12876: Call attention to missing python and ruby dependencies.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 01:16:46 +0000 (20:16 -0500)]
12876: Recover from more symlink confusion.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 01:14:02 +0000 (20:14 -0500)]
12876: List subcommands like "arvados-client keep get" in main usage.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 8 Jan 2018 01:01:05 +0000 (20:01 -0500)]
12876: Merge branch 'master' into 12876-arvados-client
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 5 Jan 2018 22:13:39 +0000 (17:13 -0500)]
Merge branch '12870-fuse-binds-invalidate'
refs #12870
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Fri, 5 Jan 2018 20:13:25 +0000 (20:13 +0000)]
12870: Fix test
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Fri, 5 Jan 2018 20:07:25 +0000 (15:07 -0500)]
12702: Add API docs for users#update_uuid.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Fri, 5 Jan 2018 19:39:51 +0000 (19:39 +0000)]
12870: Don't send invalidation for inodes still referenced by kernel
When trying to flush cached inode contents, invalidating dentries
which are still referenced can race with lookups, causing the kernel to return
spurious "not found" errors.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Lucas Di Pentima [Fri, 5 Jan 2018 19:34:35 +0000 (16:34 -0300)]
12479: Allow the user to edit the currently accepted value on a
selectize field.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Fri, 5 Jan 2018 16:19:54 +0000 (13:19 -0300)]
12479: Selectize tweaks to enhance usability. Removed all table
borders. When no vocabulary is defined, switch to simple input fields
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Fri, 5 Jan 2018 15:38:04 +0000 (10:38 -0500)]
12702: Add /arvados/v1/users/{uuid}/update_uuid API.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Wed, 3 Jan 2018 21:38:34 +0000 (18:38 -0300)]
12479: Removed table border. Fixed indentation.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
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>
projects / arvados.git / log