arvados.git
6 years agoFix quoting in test_with_arvbox no issue #
Peter Amstutz [Mon, 18 Sep 2017 19:09:08 +0000 (15:09 -0400)]
Fix quoting in test_with_arvbox no issue #

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

6 years agoMerge branch 'master' into 12107-faster-git
Tom Clegg [Mon, 18 Sep 2017 18:33:36 +0000 (14:33 -0400)]
Merge branch 'master' into 12107-faster-git

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

6 years agoMerge branch '12197-show-pdh-in-trash'
Tom Clegg [Mon, 18 Sep 2017 18:25:25 +0000 (14:25 -0400)]
Merge branch '12197-show-pdh-in-trash'

closes #12197

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

6 years agoMerge branch 'master' into 12197-show-pdh-in-trash
Tom Clegg [Mon, 18 Sep 2017 18:24:48 +0000 (14:24 -0400)]
Merge branch 'master' into 12197-show-pdh-in-trash

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

6 years ago12197: Update PDH column label for consistency.
Tom Clegg [Mon, 18 Sep 2017 18:10:40 +0000 (14:10 -0400)]
12197: Update PDH column label for consistency.

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

6 years agoRemove -f from 'docker tag' due to Docker update refs #12234
Peter Amstutz [Mon, 18 Sep 2017 14:13:58 +0000 (10:13 -0400)]
Remove -f from 'docker tag' due to Docker update refs #12234

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

6 years ago12197: Test PDH search and display on trash page.
Tom Clegg [Mon, 18 Sep 2017 03:03:29 +0000 (23:03 -0400)]
12197: Test PDH search and display on trash page.

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

6 years ago12197: Remove trash/delete labels on content rows.
Tom Clegg [Thu, 14 Sep 2017 15:31:05 +0000 (11:31 -0400)]
12197: Remove trash/delete labels on content rows.

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

6 years agoArvbox support for caching and offline install of npm packages. no issue #
Peter Amstutz [Fri, 15 Sep 2017 00:22:49 +0000 (20:22 -0400)]
Arvbox support for caching and offline install of npm packages.  no issue #

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

6 years ago12032: Add permission_refresh_lock
Peter Amstutz [Thu, 14 Sep 2017 19:06:17 +0000 (15:06 -0400)]
12032: Add permission_refresh_lock

This ensures that when refreshing the permission view in a transaction, any
other transactions affecting permissions will either be committed (so that
results are visible to the refresh) or blocked (waiting to perform its own
refresh).

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

6 years ago12032: Don't need to refresh permission view in database seeds, should be done already.
Peter Amstutz [Wed, 13 Sep 2017 20:14:10 +0000 (16:14 -0400)]
12032: Don't need to refresh permission view in database seeds, should be done already.

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

6 years ago12032: Remove user_uuid special case from all_perms.
Peter Amstutz [Wed, 13 Sep 2017 19:59:57 +0000 (15:59 -0400)]
12032: Remove user_uuid special case from all_perms.

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

6 years ago12032: Remove unnecessary checks on user_uuids.
Peter Amstutz [Wed, 13 Sep 2017 19:50:35 +0000 (15:50 -0400)]
12032: Remove unnecessary checks on user_uuids.

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

6 years ago12032: Remove hopefully-unnecessary view refreshes between tests.
Peter Amstutz [Wed, 13 Sep 2017 19:43:56 +0000 (15:43 -0400)]
12032: Remove hopefully-unnecessary view refreshes between tests.

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

6 years ago12032: Refresh materialized_permission_view immediately after migration.
Peter Amstutz [Wed, 13 Sep 2017 17:17:46 +0000 (13:17 -0400)]
12032: Refresh materialized_permission_view immediately after migration.

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

6 years ago12032: Remove startnode from materialized_permission_view (again), tests pass
Peter Amstutz [Wed, 13 Sep 2017 15:51:28 +0000 (11:51 -0400)]
12032: Remove startnode from materialized_permission_view (again), tests pass
without it.

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

6 years ago12032: Update structure.sql from master schema + migration only.
Peter Amstutz [Wed, 13 Sep 2017 15:32:24 +0000 (11:32 -0400)]
12032: Update structure.sql from master schema + migration only.

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

6 years ago12032: Container readable check uses subquery instead join to avoid returning
Peter Amstutz [Mon, 11 Sep 2017 20:57:06 +0000 (16:57 -0400)]
12032: Container readable check uses subquery instead join to avoid returning
duplicate rows.

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

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 ago12197: Show UUID and PDH of trashed collections.
Tom Clegg [Wed, 13 Sep 2017 20:37:46 +0000 (16:37 -0400)]
12197: Show UUID and PDH of trashed collections.

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

6 years ago12197: Add missing end tags.
Tom Clegg [Wed, 13 Sep 2017 20:03:07 +0000 (16:03 -0400)]
12197: Add missing end tags.

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

6 years agoMerge branch '12194-search-always-valid'
Tom Clegg [Wed, 13 Sep 2017 19:37:09 +0000 (15:37 -0400)]
Merge branch '12194-search-always-valid'

refs #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 ago12107: Fix unreliable use of git-fetch.
Tom Clegg [Wed, 13 Sep 2017 13:32:46 +0000 (09:32 -0400)]
12107: Fix unreliable use of git-fetch.

Git-fetch does not fetch by sha1. If we can't find and fetch a branch
containing the desired commit, we still need to fall back on
pack-objects|unpack-objects.

Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@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 ago12107: Use git-fetch instead of pack|unpack, and only when needed.
Tom Clegg [Fri, 8 Sep 2017 02:12:12 +0000 (22:12 -0400)]
12107: Use git-fetch instead of pack|unpack, and only when needed.

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>