arvados.git
6 years ago12032: Database reset used by integration tests refreshes permission view.
Peter Amstutz [Mon, 11 Sep 2017 18:18:32 +0000 (14:18 -0400)]
12032: Database reset used by integration tests refreshes permission view.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Fix down migration.
Peter Amstutz [Mon, 11 Sep 2017 16:12:42 +0000 (12:12 -0400)]
12032: Fix down migration.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Restore create_permission_view.sql with note that it is only
Peter Amstutz [Fri, 8 Sep 2017 18:29:47 +0000 (14:29 -0400)]
12032: Restore create_permission_view.sql with note that it is only
present for migration reasons.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Update install guide to specify minimum Postgres version of 9.3
Peter Amstutz [Fri, 8 Sep 2017 17:59:16 +0000 (13:59 -0400)]
12032: Update install guide to specify minimum Postgres version of 9.3

Include instructions for using SCL to get a newer Postgres on CentOS7.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Add missing files.
Peter Amstutz [Fri, 8 Sep 2017 16:36:53 +0000 (12:36 -0400)]
12032: Add missing files.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Rename permission_view and remove Rails permission cache.
Peter Amstutz [Fri, 8 Sep 2017 16:33:28 +0000 (12:33 -0400)]
12032: Rename permission_view and remove Rails permission cache.

Always refresh permission view when permission graph changes.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Controller & integration test teardown invalidates permission view.
Peter Amstutz [Thu, 7 Sep 2017 21:44:10 +0000 (17:44 -0400)]
12032: Controller & integration test teardown invalidates permission view.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Add comments to migration. Also special case api_client_authorizations
Peter Amstutz [Thu, 7 Sep 2017 17:39:12 +0000 (13:39 -0400)]
12032: Add comments to migration.  Also special case api_client_authorizations
in readable_by.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Update structure.sql
Peter Amstutz [Thu, 7 Sep 2017 14:59:42 +0000 (10:59 -0400)]
12032: Update structure.sql

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Added migration for materialized view
Peter Amstutz [Thu, 7 Sep 2017 03:41:34 +0000 (23:41 -0400)]
12032: Added migration for materialized view

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Ensure that permission_view is invalidated & refreshed
Peter Amstutz [Thu, 7 Sep 2017 03:12:41 +0000 (23:12 -0400)]
12032: Ensure that permission_view is invalidated & refreshed

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Fix owner_check to include user_uuids and target_owner_uuid
Peter Amstutz [Wed, 6 Sep 2017 20:01:36 +0000 (16:01 -0400)]
12032: Fix owner_check to include user_uuids and target_owner_uuid

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Make queries to groups table a special case, streamlines permission logic.
Peter Amstutz [Wed, 6 Sep 2017 18:54:50 +0000 (14:54 -0400)]
12032: Make queries to groups table a special case, streamlines permission logic.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Add copyright notice
Peter Amstutz [Thu, 31 Aug 2017 18:58:43 +0000 (14:58 -0400)]
12032: Add copyright notice

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Bug fix so include_trash still respects permissions.
Peter Amstutz [Thu, 31 Aug 2017 18:50:29 +0000 (14:50 -0400)]
12032: Bug fix so include_trash still respects permissions.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Test for ensure_unique_name when untrashing groups.
Peter Amstutz [Thu, 31 Aug 2017 16:10:11 +0000 (12:10 -0400)]
12032: Test for ensure_unique_name when untrashing groups.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Refactor readable_by to minimize subqueries.
Peter Amstutz [Thu, 31 Aug 2017 14:37:13 +0000 (10:37 -0400)]
12032: Refactor readable_by to minimize subqueries.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Log.readable_by uses permission_view
Peter Amstutz [Wed, 30 Aug 2017 17:13:29 +0000 (13:13 -0400)]
12032: Log.readable_by uses permission_view

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Controller support for group trash.
Peter Amstutz [Tue, 29 Aug 2017 13:08:19 +0000 (09:08 -0400)]
12032: Controller support for group trash.

Conttroller support and testing for contents, index, show, trash, untrash,
containers.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Adding controller tests
Peter Amstutz [Mon, 28 Aug 2017 13:57:05 +0000 (09:57 -0400)]
12032: Adding controller tests

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Add test fixtures
Peter Amstutz [Fri, 25 Aug 2017 18:23:30 +0000 (14:23 -0400)]
12032: Add test fixtures

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Fix hiding trashed groups directly owned by user.
Peter Amstutz [Fri, 25 Aug 2017 01:58:38 +0000 (21:58 -0400)]
12032: Fix hiding trashed groups directly owned by user.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Tests for group delete behavior.
Peter Amstutz [Thu, 24 Aug 2017 21:09:49 +0000 (17:09 -0400)]
12032: Tests for group delete behavior.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Additional refactoring of readable_by. Refactor "trashable" into module.
Peter Amstutz [Thu, 24 Aug 2017 20:22:12 +0000 (16:22 -0400)]
12032: Additional refactoring of readable_by.  Refactor "trashable" into module.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Use permission_view in subquery to filter objects readable by user.
Peter Amstutz [Thu, 24 Aug 2017 16:03:09 +0000 (12:03 -0400)]
12032: Use permission_view in subquery to filter objects readable by user.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12032: Benchmark for group permissions.
Peter Amstutz [Wed, 6 Sep 2017 15:35:55 +0000 (11:35 -0400)]
12032: Benchmark for group permissions.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '12248-crunch2-reversemap' closes #12248
Peter Amstutz [Thu, 14 Sep 2017 16:18:40 +0000 (12:18 -0400)]
Merge branch '12248-crunch2-reversemap' closes #12248

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '12236-libcloud-blob-storage-regression'
Lucas Di Pentima [Thu, 14 Sep 2017 15:20:15 +0000 (12:20 -0300)]
Merge branch '12236-libcloud-blob-storage-regression'
Refs #12236

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12236: Bumped libcloud version dependency to 2.2.1.dev2
Lucas Di Pentima [Thu, 14 Sep 2017 15:03:28 +0000 (12:03 -0300)]
12236: Bumped libcloud version dependency to 2.2.1.dev2

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years agoMerge branch '12194-search-always-valid'
Tom Clegg [Wed, 13 Sep 2017 21:07:41 +0000 (17:07 -0400)]
Merge branch '12194-search-always-valid'

closes #12194

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12248: Bugfix reversemap.
Peter Amstutz [Tue, 12 Sep 2017 20:58:33 +0000 (16:58 -0400)]
12248: Bugfix reversemap.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '12236-libcloud-blob-storage-regression'
Lucas Di Pentima [Wed, 13 Sep 2017 14:54:05 +0000 (11:54 -0300)]
Merge branch '12236-libcloud-blob-storage-regression'
Refs #12236

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12236: Bumped libcloud to 2.2.1.dev2 that fixes a regression
Lucas Di Pentima [Wed, 13 Sep 2017 14:47:26 +0000 (11:47 -0300)]
12236: Bumped libcloud to 2.2.1.dev2 that fixes a regression
related to alternate cloud environments.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years agoFix arvbox-demo (2nd try) refs #12234
Peter Amstutz [Tue, 12 Sep 2017 16:06:53 +0000 (12:06 -0400)]
Fix arvbox-demo (2nd try) refs #12234

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '12186-cwl-no-nameroot' closes #12186
Peter Amstutz [Tue, 12 Sep 2017 15:44:26 +0000 (11:44 -0400)]
Merge branch '12186-cwl-no-nameroot' closes #12186

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '10349-cookbook' closes #10349
Peter Amstutz [Tue, 12 Sep 2017 15:17:55 +0000 (11:17 -0400)]
Merge branch '10349-cookbook' closes #10349

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Add support for syntax highlighting inline code blocks.
Peter Amstutz [Tue, 12 Sep 2017 15:15:24 +0000 (11:15 -0400)]
10349: Add support for syntax highlighting inline code blocks.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Add code snippet for combining collections.
Peter Amstutz [Tue, 12 Sep 2017 13:47:59 +0000 (09:47 -0400)]
10349: Add code snippet for combining collections.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoFix arvbox-demo refs #12234
Peter Amstutz [Mon, 11 Sep 2017 18:04:05 +0000 (14:04 -0400)]
Fix arvbox-demo refs #12234

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '12234-arvbox-stretch' refs #12234
Peter Amstutz [Mon, 11 Sep 2017 17:21:31 +0000 (13:21 -0400)]
Merge branch '12234-arvbox-stretch' refs #12234

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Fix formatting. Add link from user guide to improve discoverability.
Peter Amstutz [Mon, 11 Sep 2017 15:57:54 +0000 (11:57 -0400)]
10349: Fix formatting.  Add link from user guide to improve discoverability.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12234: Need --system so pip installs SDK packages globally.
Peter Amstutz [Mon, 11 Sep 2017 15:51:21 +0000 (11:51 -0400)]
12234: Need --system so pip installs SDK packages globally.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Add snippts for listing inputs/outputs of containers, failed child
Peter Amstutz [Mon, 11 Sep 2017 14:59:02 +0000 (10:59 -0400)]
10349: Add snippts for listing inputs/outputs of containers, failed child
requests, list logs of request.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Add "Create a collection sharing link"
Peter Amstutz [Wed, 30 Aug 2017 21:33:13 +0000 (17:33 -0400)]
10349: Add "Create a collection sharing link"

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago10349: Working on Python code snippits for manipulating container requests.
Peter Amstutz [Mon, 14 Aug 2017 13:33:00 +0000 (09:33 -0400)]
10349: Working on Python code snippits for manipulating container requests.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12186: Filter nameroot from runner-submitted input object.
Peter Amstutz [Tue, 29 Aug 2017 16:56:55 +0000 (12:56 -0400)]
12186: Filter nameroot from runner-submitted input object.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12186: Filter nameroot/nameext from RunInSingleContainer and update test.
Peter Amstutz [Tue, 29 Aug 2017 16:48:59 +0000 (12:48 -0400)]
12186: Filter nameroot/nameext from RunInSingleContainer and update test.

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12234: Update arvbox to Debian stretch, Docker 17, Postgres 9.6
Peter Amstutz [Fri, 8 Sep 2017 16:58:43 +0000 (12:58 -0400)]
12234: Update arvbox to Debian stretch, Docker 17, Postgres 9.6

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years agoMerge branch '10472-csummary-cwl-pipeline'
Tom Clegg [Fri, 8 Sep 2017 16:22:49 +0000 (12:22 -0400)]
Merge branch '10472-csummary-cwl-pipeline'

closes #10472
closes #12221

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Fix npm sanity-check recipe.
Tom Clegg [Fri, 8 Sep 2017 16:20:26 +0000 (12:20 -0400)]
12033: Fix npm sanity-check recipe.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Use itervalues() instead of iteritems() if key is not used.
Tom Clegg [Fri, 8 Sep 2017 16:17:29 +0000 (12:17 -0400)]
10472: Use itervalues() instead of iteritems() if key is not used.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Fix logging format.
Tom Clegg [Fri, 8 Sep 2017 14:05:34 +0000 (10:05 -0400)]
10472: Fix logging format.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12221: Merge branch '12221-crunchstat-summary-valueerror'
Tom Clegg [Fri, 8 Sep 2017 13:52:32 +0000 (09:52 -0400)]
12221: Merge branch '12221-crunchstat-summary-valueerror'

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12194: Update comment.
Tom Clegg [Fri, 8 Sep 2017 13:50:26 +0000 (09:50 -0400)]
12194: Update comment.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12194: Handle to_tsquery(null).
Tom Clegg [Fri, 8 Sep 2017 02:17:39 +0000 (22:17 -0400)]
12194: Handle to_tsquery(null).

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12194: Fix empty search case.
Tom Clegg [Fri, 8 Sep 2017 01:45:23 +0000 (21:45 -0400)]
12194: Fix empty search case.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12194: Fix accidentally mutated argument.
Tom Clegg [Fri, 8 Sep 2017 01:08:57 +0000 (21:08 -0400)]
12194: Fix accidentally mutated argument.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12194: Construct @@ operands more carefully to avoid bad API munge.
Tom Clegg [Fri, 8 Sep 2017 01:03:38 +0000 (21:03 -0400)]
12194: Construct @@ operands more carefully to avoid bad API munge.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Merge branch 'master' into 10472-csummary-cwl-pipeline
Tom Clegg [Thu, 7 Sep 2017 21:04:58 +0000 (17:04 -0400)]
10472: Merge branch 'master' into 10472-csummary-cwl-pipeline

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Add test for arvados-cwl-runner job tree.
Tom Clegg [Thu, 7 Sep 2017 21:03:04 +0000 (17:03 -0400)]
10472: Add test for arvados-cwl-runner job tree.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Fix tests.
Tom Clegg [Thu, 7 Sep 2017 13:05:39 +0000 (09:05 -0400)]
12033: Fix tests.

refs #12033

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: browserify is needed in production env, for package-building.
Tom Clegg [Thu, 7 Sep 2017 02:57:27 +0000 (22:57 -0400)]
12033: browserify is needed in production env, for package-building.

refs #12033

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Fix tests.
Tom Clegg [Wed, 6 Sep 2017 22:54:44 +0000 (18:54 -0400)]
12033: Fix tests.

refs #12033

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Fix tests.
Tom Clegg [Wed, 6 Sep 2017 22:33:13 +0000 (18:33 -0400)]
12033: Fix tests.

refs #12033

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Un-bork text reports.
Tom Clegg [Wed, 6 Sep 2017 21:06:23 +0000 (17:06 -0400)]
10472: Un-bork text reports.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Follow job trees made by arvados-cwl-runner jobs.
Tom Clegg [Wed, 6 Sep 2017 20:12:20 +0000 (16:12 -0400)]
10472: Follow job trees made by arvados-cwl-runner jobs.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago10472: Conserve FDs by not opening collections until ready to read.
Tom Clegg [Wed, 6 Sep 2017 20:06:39 +0000 (16:06 -0400)]
10472: Conserve FDs by not opening collections until ready to read.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '12033-multisite-search'
Tom Clegg [Wed, 6 Sep 2017 19:02:35 +0000 (15:02 -0400)]
Merge branch '12033-multisite-search'

refs #12033

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoFix typo in python documentation.
Ward Vandewege [Wed, 6 Sep 2017 15:24:12 +0000 (11:24 -0400)]
Fix typo in python documentation.

closes #12222

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

6 years ago12033: Document one-SaveUIState-per-page limitation.
Tom Clegg [Wed, 6 Sep 2017 15:09:27 +0000 (11:09 -0400)]
12033: Document one-SaveUIState-per-page limitation.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Document SaveUIState.
Tom Clegg [Wed, 6 Sep 2017 15:06:07 +0000 (11:06 -0400)]
12033: Document SaveUIState.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoApply a few gofmt -s fixes.
Ward Vandewege [Wed, 6 Sep 2017 14:49:51 +0000 (10:49 -0400)]
Apply a few gofmt -s fixes.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

6 years agoAdd Running to excluded non-categories. Improve error
Tom Morris [Tue, 5 Sep 2017 21:23:23 +0000 (17:23 -0400)]
Add Running to excluded non-categories. Improve error

6 years agoMerge branch '12212-aws-instance-profile'
Lucas Di Pentima [Tue, 5 Sep 2017 21:02:04 +0000 (18:02 -0300)]
Merge branch '12212-aws-instance-profile'
refs #12212

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12033: Skip "show" btn if guessed workbench link is obviously wrong.
Tom Clegg [Tue, 5 Sep 2017 20:29:55 +0000 (16:29 -0400)]
12033: Skip "show" btn if guessed workbench link is obviously wrong.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Merge branch 'master' into 12033-multisite-search
Tom Clegg [Tue, 5 Sep 2017 20:27:44 +0000 (16:27 -0400)]
12033: Merge branch 'master' into 12033-multisite-search

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12212: Added example on web documentation
Lucas Di Pentima [Tue, 5 Sep 2017 19:45:59 +0000 (16:45 -0300)]
12212: Added example on web documentation

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years agoMerge branch '12190-s3-read-after-write'
Tom Clegg [Tue, 5 Sep 2017 19:39:57 +0000 (15:39 -0400)]
Merge branch '12190-s3-read-after-write'

refs #12190

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12190: Don't test block existence before first write.
Tom Clegg [Mon, 4 Sep 2017 20:42:08 +0000 (16:42 -0400)]
12190: Don't test block existence before first write.

"Amazon S3 provides read-after-write consistency for PUTS of new
objects in your S3 bucket in all regions with one caveat. The caveat
is that if you make a HEAD or GET request to the key name (to find if
the object exists) before creating the object, Amazon S3 provides
eventual consistency for read-after-write."

-- http://docs.aws.amazon.com/AmazonS3/latest/dev/Introduction.html#ConsistencyModel

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12212: Adding configuration example for apllying instance profiles to created
Lucas Di Pentima [Mon, 4 Sep 2017 15:43:58 +0000 (12:43 -0300)]
12212: Adding configuration example for apllying instance profiles to created
computed nodes.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12055: Merge branch '12055-nodemanager-ec2-tags'
Lucas Di Pentima [Fri, 1 Sep 2017 22:03:51 +0000 (19:03 -0300)]
12055: Merge branch '12055-nodemanager-ec2-tags'
Closes #12055

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12055: Avoid RAM exhaustion on bootup by asking AWS only the AMI
Lucas Di Pentima [Fri, 1 Sep 2017 20:06:54 +0000 (17:06 -0300)]
12055: Avoid RAM exhaustion on bootup by asking AWS only the AMI
list owned by 'self'. refs #9223 #12163

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years agoMerge branch '12134-llfuse-patch'
Tom Clegg [Fri, 1 Sep 2017 15:29:46 +0000 (11:29 -0400)]
Merge branch '12134-llfuse-patch'

refs #12134

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12055: Merge branch 'master' into 12055-nodemanager-ec2-tags
Lucas Di Pentima [Thu, 31 Aug 2017 20:16:02 +0000 (17:16 -0300)]
12055: Merge branch 'master' into 12055-nodemanager-ec2-tags

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago12055: Updated dev version number & dependency scripts
Lucas Di Pentima [Thu, 31 Aug 2017 20:15:16 +0000 (17:15 -0300)]
12055: Updated dev version number & dependency scripts

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years ago10472: Ignore "Running [command]" log message from crunchstat.
Tom Clegg [Thu, 31 Aug 2017 14:18:34 +0000 (10:18 -0400)]
10472: Ignore "Running [command]" log message from crunchstat.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago4878: Fix whitespace and missing </p> tag.
Tom Clegg [Wed, 30 Aug 2017 15:27:02 +0000 (11:27 -0400)]
4878: Fix whitespace and missing </p> tag.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Avoid startsWith(), unsupported in test suite.
Tom Clegg [Wed, 30 Aug 2017 15:19:26 +0000 (11:19 -0400)]
12033: Avoid startsWith(), unsupported in test suite.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Disable/hide multi-site search by default.
Tom Clegg [Wed, 30 Aug 2017 15:15:16 +0000 (11:15 -0400)]
12033: Disable/hide multi-site search by default.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Add Object.assign polyfill for test suite.
Tom Clegg [Wed, 30 Aug 2017 15:14:33 +0000 (11:14 -0400)]
12033: Add Object.assign polyfill for test suite.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoMerge branch '11898-no-distinct'
Tom Clegg [Wed, 30 Aug 2017 13:30:57 +0000 (09:30 -0400)]
Merge branch '11898-no-distinct'

refs #11898

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12055: Changed nodemanager's libcloud dependency to use our v2.2
Lucas Di Pentima [Wed, 30 Aug 2017 11:10:47 +0000 (08:10 -0300)]
12055: Changed nodemanager's libcloud dependency to use our v2.2
fork.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>

6 years agoWorkbench: when showing the detail for script_parameters in the pipeline
Ward Vandewege [Wed, 30 Aug 2017 01:09:04 +0000 (21:09 -0400)]
Workbench: when showing the detail for script_parameters in the pipeline
instance or work unit view, do not limit that field to half the screen
for no reason.

No issue #

Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>

6 years ago12033: Add config to link multi-site search to a remote site.
Tom Clegg [Tue, 29 Aug 2017 14:45:26 +0000 (10:45 -0400)]
12033: Add config to link multi-site search to a remote site.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12134: Minimize multiprocessing worker startups.
Tom Clegg [Fri, 18 Aug 2017 19:43:49 +0000 (15:43 -0400)]
12134: Minimize multiprocessing worker startups.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12134: Use fixed/unreleased llfuse in test suite.
Tom Clegg [Thu, 17 Aug 2017 15:41:07 +0000 (11:41 -0400)]
12134: Use fixed/unreleased llfuse in test suite.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curoverse.com>

6 years agoMerge branch 'master' into 11898-no-distinct
Tom Clegg [Tue, 29 Aug 2017 05:30:11 +0000 (01:30 -0400)]
Merge branch 'master' into 11898-no-distinct

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years agoBump cwltool to eliminate nameext/nameroot in output. refs #12100
Peter Amstutz [Mon, 28 Aug 2017 13:57:57 +0000 (09:57 -0400)]
Bump cwltool to eliminate nameext/nameroot in output.  refs #12100

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>

6 years ago12033: Improve multi-site search navigation a bit.
Tom Clegg [Sat, 26 Aug 2017 02:18:04 +0000 (22:18 -0400)]
12033: Improve multi-site search navigation a bit.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>

6 years ago12033: Canary query before initiating login procedure.
Tom Clegg [Sat, 26 Aug 2017 02:15:05 +0000 (22:15 -0400)]
12033: Canary query before initiating login procedure.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>