Tom Clegg [Wed, 22 Nov 2017 22:49:08 +0000 (17:49 -0500)]
12627: Ensure current_user relates to the token that permits scope.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Wed, 22 Nov 2017 20:30:56 +0000 (15:30 -0500)]
Merge branch '12377-arvbox-composer' refs #12377
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 22 Nov 2017 19:31:53 +0000 (14:31 -0500)]
Set composer config. Bump SSO script for updated passenger.
Lucas Di Pentima [Tue, 21 Nov 2017 23:06:25 +0000 (20:06 -0300)]
Merge branch '12318-update-libcloud-pin'
Closes #12318
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Ward Vandewege [Tue, 21 Nov 2017 19:12:11 +0000 (14:12 -0500)]
Merge branch '12513-make-dashboard-fast-again'
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Tue, 21 Nov 2017 19:11:33 +0000 (14:11 -0500)]
Merge branch 'master' into 12513-make-dashboard-fast-again
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Tue, 21 Nov 2017 19:08:50 +0000 (14:08 -0500)]
Match the actual name of the CR in the
ApplicationLayoutTest#test_visit_dashboard_as_* tests, rather than the
state of the CR. It's confusing that the name is 'running'!
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Tue, 21 Nov 2017 19:03:47 +0000 (14:03 -0500)]
Make sure to apply the text-overflow-ellipsis class to the name of
running container requests, too.
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Tue, 21 Nov 2017 14:28:16 +0000 (09:28 -0500)]
Add another missing dependency to the sanity check in run-tests.sh.
No issue #
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Sun, 19 Nov 2017 23:53:32 +0000 (18:53 -0500)]
Add missing dependencies to the sanity check in run-tests.sh.
No issue #
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Sun, 19 Nov 2017 20:13:56 +0000 (15:13 -0500)]
12513: Fix 2 more tests.
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Tom Clegg [Fri, 17 Nov 2017 21:51:22 +0000 (16:51 -0500)]
Merge branch '12530-faster-scopes-filter'
closes #12530
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Fri, 17 Nov 2017 17:19:08 +0000 (14:19 -0300)]
12318: Merge branch 'master' into 12318-update-libcloud-pin
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Fri, 17 Nov 2017 17:16:48 +0000 (14:16 -0300)]
12318: Updated integration test to correctly raise a RateLimitReachedError
exception, matching libcloud updates.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Peter Amstutz [Thu, 16 Nov 2017 19:07:37 +0000 (14:07 -0500)]
Bump schema-salad for extension schema loading bugfix. refs #11163
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Thu, 16 Nov 2017 18:59:05 +0000 (13:59 -0500)]
12530: Speed up query by skipping unneeded ActiveRecord loading.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Thu, 16 Nov 2017 14:54:47 +0000 (09:54 -0500)]
Merge branch '12601-pathmap-subwf' closes #12601
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Ward Vandewege [Wed, 15 Nov 2017 21:44:50 +0000 (16:44 -0500)]
Merge branch '10767-remove-puma-gem'
refs #10767
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Wed, 15 Nov 2017 20:03:33 +0000 (15:03 -0500)]
Remove puma from the API server Gemfile.
refs #10767
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Peter Amstutz [Wed, 15 Nov 2017 18:34:32 +0000 (13:34 -0500)]
12601: Add test
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 15 Nov 2017 15:56:00 +0000 (10:56 -0500)]
12601: Apply pathmap to job order for RunInSingleContainer subwf.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 13 Nov 2017 19:57:29 +0000 (14:57 -0500)]
12513: Update tests, remove more unused code.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 13 Nov 2017 15:38:50 +0000 (10:38 -0500)]
Merge branch '12515-use-configured-wb'
closes #12515
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 13 Nov 2017 15:38:34 +0000 (10:38 -0500)]
Merge branch '12515-configured-workbench-address'
refs #12515
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Fri, 10 Nov 2017 17:42:03 +0000 (14:42 -0300)]
12318: Use libcloud fork 2.2.2.dev3
Includes a fix for delete_old_vhd, limit number of retries on
destroy_node & a fix on Retry-After header handling on
exceptions.
Refs #12318, #12452, #12324
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Thu, 9 Nov 2017 20:40:45 +0000 (15:40 -0500)]
Add missing module name.
refs #11220
fixes #12590
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 9 Nov 2017 18:26:09 +0000 (13:26 -0500)]
12515: Add discovery doc test.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 8 Nov 2017 21:53:22 +0000 (16:53 -0500)]
12515: Use workbenchUrl advertised by API server discovery doc.
Fall back to guessing "workbench."+apiHost (as before) if discovery
doc does not offer a workbenchUrl (e.g., API server is too old).
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 31 Oct 2017 17:56:07 +0000 (13:56 -0400)]
12515: Advertise Workbench address in discovery doc.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Wed, 8 Nov 2017 17:08:54 +0000 (12:08 -0500)]
Merge branch '12568-cwl-collection-cache' closes #12568
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 8 Nov 2017 17:02:02 +0000 (12:02 -0500)]
Merge branch '12538-crunchrun-kill-arvmount' closes #12538
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Wed, 8 Nov 2017 16:07:58 +0000 (11:07 -0500)]
Merge branch '12306-dont-stat-mounts'
fixes #12306
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Wed, 8 Nov 2017 15:36:37 +0000 (10:36 -0500)]
12538: Put cleanup back into separate defer
* Always report unmount command
* Send kill signal to arv-mount on timeout (but don't wait for it)
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 7 Nov 2017 15:14:40 +0000 (10:14 -0500)]
12538: Refactor crunch-run shutdown
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 6 Nov 2017 21:41:05 +0000 (16:41 -0500)]
12538: Refactor and assume arv-mount --unmount does all the hard work.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Fri, 3 Nov 2017 20:14:42 +0000 (16:14 -0400)]
12538: Refactor force-unmount behavior.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Fri, 3 Nov 2017 19:04:00 +0000 (15:04 -0400)]
12538: Fix tests.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Fri, 3 Nov 2017 15:34:46 +0000 (11:34 -0400)]
12538: Make handling of arv-mount process more robust
* If initial "fusermount -u -z" of arv-mount dir times out, use "arv-mount --unmount"
* If that doesn't work, send sigkill to arv-mount and then run "fusermount -u
-z" again
* Refactor "stop container if arv-mount terminates" behavior
* Make arv-mount logging channel work as intended and enable crunchstat for arv-mount.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Thu, 2 Nov 2017 21:52:58 +0000 (17:52 -0400)]
Force kill arv-mount wip
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Tue, 7 Nov 2017 23:10:13 +0000 (18:10 -0500)]
12306: Resolve any readable symlinks on unmount path.
This avoids getting stuck in realpath/lstat in certain cases: e.g.,
the mount point is $HOME/keep, $HOME is "/home/foo", and "/home" is a
symlink to "/data/home".
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 7 Nov 2017 20:52:08 +0000 (15:52 -0500)]
12568: Reduce min_entries
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 7 Nov 2017 18:58:16 +0000 (13:58 -0500)]
12568: Update test to check which collection gets evicted
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 7 Nov 2017 18:52:28 +0000 (13:52 -0500)]
12568: Add test for collection cache management behavior
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Tue, 7 Nov 2017 16:43:16 +0000 (11:43 -0500)]
12568: Mange collection cache to avoid excessive memory usage.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Mon, 6 Nov 2017 21:44:07 +0000 (16:44 -0500)]
12306: Resolve relative paths early, to avoid realpath() later.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Mon, 6 Nov 2017 21:11:02 +0000 (16:11 -0500)]
Merge branch '11994-no-sysfs-fuse'
fixes #11994
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Mon, 6 Nov 2017 20:15:49 +0000 (17:15 -0300)]
Merge branch '12533-token-n-ip-logging'
Closes #12533
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 6 Nov 2017 20:13:57 +0000 (17:13 -0300)]
12533: Use @remote_ip to take into account the reverse proxy
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 6 Nov 2017 18:16:02 +0000 (13:16 -0500)]
11994: Fix wrong class in "except ENOENT" handler.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 3 Nov 2017 18:18:36 +0000 (14:18 -0400)]
12306: Avoid calling realpath/lstat unnecessarily during --unmount.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Fri, 3 Nov 2017 20:05:16 +0000 (17:05 -0300)]
12533: Add client IP address & authorization token UUID to the logs.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Fri, 3 Nov 2017 18:46:29 +0000 (14:46 -0400)]
11220: Fix test setup.
refs #11220
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 3 Nov 2017 17:18:40 +0000 (13:18 -0400)]
Merge branch '12551-check-open-errors'
fixes #12551
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 3 Nov 2017 15:27:38 +0000 (11:27 -0400)]
Merge branch '11220-manifest-fetch-error'
closes #11220
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Fri, 3 Nov 2017 14:45:04 +0000 (10:45 -0400)]
12551: Check for errors after calling open().
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 19:55:26 +0000 (15:55 -0400)]
Merge branch '12546-skip-container-children'
fixes #12546
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 19:45:24 +0000 (15:45 -0400)]
Merge branch '12478-duration-fmt'
fixes #12478
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 19:09:28 +0000 (15:09 -0400)]
12546: Update help message.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 19:05:34 +0000 (15:05 -0400)]
12546: Obey --skip-child-jobs flag for containers, too.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 17:59:42 +0000 (13:59 -0400)]
12478: Fix time-offset formatting + use more natural tick intervals.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 16:04:31 +0000 (12:04 -0400)]
Merge branch '12462-search-hyphen'
fixes #12462
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Thu, 2 Nov 2017 15:56:01 +0000 (12:56 -0300)]
Merge branch '12533-row-lock-contention'
Refs #12533
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Thu, 2 Nov 2017 15:54:56 +0000 (12:54 -0300)]
Merge branch 'master' into 12533-row-lock-contention
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Thu, 2 Nov 2017 15:06:25 +0000 (11:06 -0400)]
Merge branch '12167-workbench-request-id'
refs #12167
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Thu, 2 Nov 2017 14:57:45 +0000 (11:57 -0300)]
Merge branch '12018-sync-groups-tool'
Closes #12018
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Thu, 2 Nov 2017 14:56:50 +0000 (11:56 -0300)]
Merge branch 'master' into 12018-sync-groups-tool
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Peter Amstutz [Thu, 2 Nov 2017 14:53:17 +0000 (10:53 -0400)]
Merge branch '12183-crunch-run-symlinks' closes #12183
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Thu, 2 Nov 2017 14:52:15 +0000 (10:52 -0400)]
12183: Tweak documenation for clarity.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Lucas Di Pentima [Thu, 2 Nov 2017 14:48:03 +0000 (11:48 -0300)]
12533: Do not update the API Client Authorization record to avoid
row contention when lots of jobs are queued with the same token.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Peter Amstutz [Thu, 2 Nov 2017 14:02:55 +0000 (10:02 -0400)]
12183: Fix section headers.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Thu, 2 Nov 2017 13:32:40 +0000 (09:32 -0400)]
12183: Fix renamed symbol
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 1 Nov 2017 21:10:20 +0000 (17:10 -0400)]
12183: Update documentation.
Improve error message about follow symlink chains that are too long.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 16 Oct 2017 20:39:36 +0000 (16:39 -0400)]
12183: Handle circular directory symlinks
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 16 Oct 2017 19:26:55 +0000 (15:26 -0400)]
12183: Fix tests.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 16 Oct 2017 18:22:58 +0000 (14:22 -0400)]
12183: Refactor derefOutputSymlink into its own method.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Thu, 5 Oct 2017 14:40:04 +0000 (10:40 -0400)]
12183: Add comment about purpose of "relocated"
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Thu, 5 Oct 2017 12:47:04 +0000 (08:47 -0400)]
12183: Refactor file upload so there is one walk to handle both symlinks and
regular files.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 2 Oct 2017 20:07:18 +0000 (16:07 -0400)]
12183: Simplify walking symlinks in upload.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Mon, 2 Oct 2017 19:34:38 +0000 (15:34 -0400)]
12183: Improve error handling if unable to delete symlinks marked for deletion.
Add unit test for EvalSymlinks.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Fri, 29 Sep 2017 20:06:59 +0000 (16:06 -0400)]
12183: Support uploading symlinks to directories.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Fri, 29 Sep 2017 19:11:46 +0000 (15:11 -0400)]
12183: Evaluate symlinks to handle chained links and absolute paths.
Ensure that all symlinks either resolve within the output directory or to a
keep mount.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Peter Amstutz [Wed, 1 Nov 2017 16:54:02 +0000 (12:54 -0400)]
Merge branch '12494-arv-git-cors' closes #12494
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
Tom Clegg [Wed, 1 Nov 2017 15:36:35 +0000 (11:36 -0400)]
11220: Avoid implying that manifests can be loaded from Keep.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 1 Nov 2017 15:31:31 +0000 (11:31 -0400)]
11220: Fix test case for new API call sequence.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 1 Nov 2017 15:31:11 +0000 (11:31 -0400)]
11220: Remove test for unsupported case.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Wed, 1 Nov 2017 07:58:36 +0000 (03:58 -0400)]
12494: Add CORS test.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 31 Oct 2017 21:27:41 +0000 (17:27 -0400)]
12167: Include a request ID in each API response and log entry.
Use the value of the X-Request-Id request header if given, otherwise
generate one.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Lucas Di Pentima [Tue, 31 Oct 2017 21:07:01 +0000 (18:07 -0300)]
12018: Added API server start/stop calls to test suite.
Removed manual database cleanup in favour of using the database
reset endpoint after every test run.
Moved tool config set up code from the suite set up call to the test
set up, because the database get reset to fixture state after every
test run.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Tue, 31 Oct 2017 03:07:52 +0000 (23:07 -0400)]
12167: Improve request-id tracking in Workbench.
Include current request ID in API requests via X-Request-Id header
instead of a form parameter. (Also move Arvados API token from form
to Authorization request header.)
Always log request ID as its own field, instead of adding it to params
(where it might get truncated before being logged).
Use new request ID format: "req-" + 20-random-alphanum-chars.
Use an around_filter to set/clear the current request ID in one place,
instead of setting it in controller code and clearing it in logging
code.
Return request ID to browser via X-Request-Id header.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Tom Clegg [Tue, 31 Oct 2017 19:31:33 +0000 (15:31 -0400)]
12462: Treat "/" and "-" as word chars, too.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Tue, 31 Oct 2017 16:40:27 +0000 (12:40 -0400)]
12377: Arvbox support for Composer
Lucas Di Pentima [Tue, 31 Oct 2017 14:00:28 +0000 (11:00 -0300)]
12018: Set up fields per record, so it won't try to guess it from
the first one being read.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Tue, 31 Oct 2017 02:17:42 +0000 (23:17 -0300)]
12018: Enhanced readability of ProcessFile() function.
Added test using usernames instead of emails.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Ward Vandewege [Tue, 31 Oct 2017 01:26:06 +0000 (21:26 -0400)]
While we are at it, also throw out the broken progress bar and replace
it with an indication that the workflow is running.
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Ward Vandewege [Tue, 31 Oct 2017 01:11:33 +0000 (21:11 -0400)]
Rip out a bunch of very very slow workbench code that doesn't seem to
serve much purpose.
refs #12513
Arvados-DCO-1.1-Signed-off-by: Ward Vandewege <wvandewege@veritasgenetics.com>
Lucas Di Pentima [Mon, 30 Oct 2017 22:42:06 +0000 (19:42 -0300)]
12018: Enhanced error message when having a parse error.
Added test cleanup.
Added test to confirm records with empty fields are ignored.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 30 Oct 2017 21:17:52 +0000 (18:17 -0300)]
12018: Moved Link & LinkList types to GoSDK arvados package
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Lucas Di Pentima [Mon, 30 Oct 2017 14:35:58 +0000 (11:35 -0300)]
12018: Fixed positional argument handling.
Fixed & added tests.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <ldipentima@veritasgenetics.com>
Tom Clegg [Mon, 30 Oct 2017 13:19:36 +0000 (09:19 -0400)]
Merge branch '12462-search-periods'
refs #12462
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tclegg@veritasgenetics.com>
Peter Amstutz [Fri, 27 Oct 2017 18:42:03 +0000 (14:42 -0400)]
Migration for indexes on containers and container_requests.
refs #12500
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <pamstutz@veritasgenetics.com>
projects / arvados.git / log