Peter Amstutz [Tue, 20 Dec 2022 15:13:18 +0000 (10:13 -0500)]
Merge branch '19844-paging' refs #19844
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 22:18:33 +0000 (17:18 -0500)]
Merge branch '19880-wb1-pw-login-fix' refs #19880
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 21:53:02 +0000 (16:53 -0500)]
19880: Fix tests by restoring test hook
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 21:08:26 +0000 (16:08 -0500)]
19880: Fix tests
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 19:36:50 +0000 (14:36 -0500)]
19880: Password based login fix
Now sends user to wb1 front page instead of controller login endpoint
that returns an error.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 15:46:19 +0000 (10:46 -0500)]
Add missing test file refs #19688
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 16 Dec 2022 15:25:20 +0000 (10:25 -0500)]
Test needs to ignore varying "acrContainerImage" field
refs #19688
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 22:09:12 +0000 (17:09 -0500)]
Merge branch '19704-aneta-r-sdk' refs #19704
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 19:05:14 +0000 (14:05 -0500)]
Merge branch '19872-mnt-cache-limits' refs #19872
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 18:55:48 +0000 (13:55 -0500)]
19704: Fix R SDK documentation build.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 18:21:41 +0000 (13:21 -0500)]
19872: Fix call to setrlimit
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 18:18:12 +0000 (13:18 -0500)]
19872: Fix typo
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 18:14:02 +0000 (13:14 -0500)]
19872: Use fewer file handles by default, but increase the limit in arv-mount
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 15 Dec 2022 17:57:31 +0000 (12:57 -0500)]
Don't record varying git data for copy_deps test
refs #19688
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Tom Clegg [Thu, 15 Dec 2022 15:56:03 +0000 (10:56 -0500)]
19704: Update call signature of test fake.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Wed, 14 Dec 2022 20:48:53 +0000 (15:48 -0500)]
Merge branch '19847-cwl-disk-cache-size' refs #19847
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Wed, 14 Dec 2022 20:33:58 +0000 (15:33 -0500)]
Update copy_deps test, refs #19688
It now creates an additional collection containing the workflow text,
the test needed to be updated to reflect that.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Tom Clegg [Wed, 14 Dec 2022 15:09:52 +0000 (10:09 -0500)]
19847: Update test for new API default disk cache behavior.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Wed, 14 Dec 2022 14:36:54 +0000 (14:36 +0000)]
19872: Add a timeout to wait()
Add a timeout when waiting for a cache slot to avoid the possibility
of waiting forever on wait().
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 13 Dec 2022 22:35:44 +0000 (22:35 +0000)]
19872: Set max_slots lower because mmap uses another FD
- Reduce max slots to 3/8 max fds instead of 1/2 because mmap() uses a
second file descriptor, and we keep the original file descriptor open
for flock()
- Rework how cache slots are allocated to try evicting things _before_
allocating a new cache slot, so the cache should be somewhat better
behaved about staying within its configured limits.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Tom Clegg [Tue, 13 Dec 2022 21:54:11 +0000 (16:54 -0500)]
Merge branch '19709-boot-db-migrate'
closes #19709
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Tue, 13 Dec 2022 21:38:54 +0000 (16:38 -0500)]
19847: Let server apply default disk cache size.
Use disk cache when DefaultKeepCacheRAM==0 (instead of
DefaultKeepCacheDisk>0).
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Tue, 13 Dec 2022 21:31:31 +0000 (16:31 -0500)]
19847: Default to disk cache size = RAM size for all containers.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Lucas Di Pentima [Tue, 13 Dec 2022 20:34:20 +0000 (21:34 +0100)]
Merge branch '19878-rails-html-sanitizer-upgrade'. Closes #19878
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Tue, 13 Dec 2022 20:12:59 +0000 (21:12 +0100)]
19878: Upgrades rails-html-sanitizer on RailsAPI & Workbench.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Tue, 13 Dec 2022 20:06:59 +0000 (21:06 +0100)]
Merge branch '19877-loofah-upgrade'. Closes #19877
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Tue, 13 Dec 2022 19:45:52 +0000 (20:45 +0100)]
19877: Upgrades loofah gem on RailsAPI & Woekbench
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Tom Clegg [Tue, 13 Dec 2022 19:24:33 +0000 (14:24 -0500)]
19709: Warn, not eror, on unexpected files in db/migrate/.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Mon, 12 Dec 2022 21:46:03 +0000 (16:46 -0500)]
19709: Test schema_migrations vs. db/migrate/*.rb.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Fri, 9 Dec 2022 21:05:48 +0000 (16:05 -0500)]
Merge branch '19840-docker-port-number'
fixes #19840
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Fri, 9 Dec 2022 20:57:46 +0000 (15:57 -0500)]
Update resource requirements in test cases.
New disk cache defaults to 8 GiB, which does not necessarily fit in
/tmp on a dev/test machine (mine has a 4 GiB tmpfs).
refs #19847
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Fri, 9 Dec 2022 20:01:17 +0000 (15:01 -0500)]
19709: Explain design in comments. Improve migration filename check.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Thu, 8 Dec 2022 19:41:50 +0000 (14:41 -0500)]
19844: Get multiple pages of child CRs if necessary.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Thu, 8 Dec 2022 19:06:15 +0000 (14:06 -0500)]
19844: Use 127.0.0.1 instead of localhost for test servers.
Otherwise, depending on host config, nginx futilely tries ::1 first.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Fri, 9 Dec 2022 07:09:06 +0000 (02:09 -0500)]
19840: Cleanup link added during test.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Thu, 8 Dec 2022 22:23:53 +0000 (17:23 -0500)]
19840: Test listing saved images with names containing port numbers.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Thu, 8 Dec 2022 21:52:52 +0000 (16:52 -0500)]
19840: Fix image name confusion when specified with explicit :443.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Tom Clegg [Mon, 14 Nov 2022 20:31:42 +0000 (15:31 -0500)]
19709: Apply pending rails migrations at service start/restart.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Lucas Di Pentima [Thu, 8 Dec 2022 17:29:05 +0000 (18:29 +0100)]
Merge branch '19862-nokogiri-upgrade'. Closes #19862
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Tom Clegg [Thu, 8 Dec 2022 17:06:55 +0000 (12:06 -0500)]
19862: Fix RandomUUID length.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Lucas Di Pentima [Thu, 8 Dec 2022 15:15:42 +0000 (16:15 +0100)]
19862: Upgrades nokogiri and related gem on RailsAPI and Workbench.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Brett Smith [Thu, 8 Dec 2022 16:10:33 +0000 (11:10 -0500)]
19791: Fix broken link to old PySDK examples page
No issue #.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Thu, 8 Dec 2022 16:05:57 +0000 (11:05 -0500)]
Merge branch '19686-threadsafe-api-default'
Closes #19686.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Thu, 8 Dec 2022 15:51:58 +0000 (10:51 -0500)]
19686: Specify ThreadSafeApiCache API version throughout
This avoids logging a warning now that ThreadSafeApiCache accepts a
version argument just like other API client constructors.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Wed, 7 Dec 2022 20:21:43 +0000 (15:21 -0500)]
19686: Fix test scaffolding after API changes
Without clearing arv-put's API client this way, multiple calls to main()
reuse the same, pre-patch Keep object from ThreadSafeApiCache, so calls
don't get recorded as intended.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Wed, 7 Dec 2022 04:16:28 +0000 (23:16 -0500)]
19686: Add tests for new Arvados client API
This commit ensures all public-facing functions have basic tests for
good inputs, as well as known-bad argument combinations (if any). This
includes testing functions like api_from_config that were previously
tested implicitly by other tests, but did not have their own dedicated
tests.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Tue, 29 Nov 2022 20:01:43 +0000 (15:01 -0500)]
19686: api constructor returns ThreadSafeApiCache
This is an API-compatible wrapper object that provides thread
safety. Returning this from api() helps keep users out of
trouble.
The changes to ThreadSafeApiCache are required to keep it API-compatible
with the original and keep tests passing. Assignments to the request_id
attribute need to be used for all future requests. It's a little unclear
if this is an intended API or just test scaffolding, but it's not too
difficult to keep working so I just did that.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Mon, 28 Nov 2022 21:30:28 +0000 (16:30 -0500)]
19686: Introduce low-level api_client constructor
When api() returns a ThreadSafeApiCache, we still want to provide a
mechanism to get a plain Resource object. The api_client() function is
that mechanism. It *just* builds the Resource object as api() did
before.
normalize_api_kwargs() takes the arguments passed to api() and turns
them into keyword arguments for api_client(). api_config_to_kwargs()
takes a configuration mapping nand turns them into keyword arguments for
api_client(). Both of these are small APIs, just returning one
dictionary from another.
With this reorganization, api(), api_from_config(), and
ThreadSafeApiClient() can all have simpler implementations.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Wed, 7 Dec 2022 15:57:41 +0000 (10:57 -0500)]
19791: Remove duplicate word
No issue #
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Peter Amstutz [Tue, 6 Dec 2022 22:13:19 +0000 (17:13 -0500)]
19847: Fix tests
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 6 Dec 2022 21:41:15 +0000 (16:41 -0500)]
19847: Change disk cache size heuristic
Now sets disk cache to (2 GB <= the size of the RAM request <= 32 GiB)
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 6 Dec 2022 20:26:47 +0000 (15:26 -0500)]
19847: crunch-run should provide --ram-cache explicitly
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Brett Smith [Tue, 6 Dec 2022 20:18:11 +0000 (15:18 -0500)]
Merge branch '19791-python-api-overview'
Closes #19791.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Peter Amstutz [Tue, 6 Dec 2022 18:41:42 +0000 (13:41 -0500)]
19847: Fix KeepCacheTypeRequirement
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Brett Smith [Tue, 6 Dec 2022 18:23:07 +0000 (13:23 -0500)]
19791: Clarify the background discussion for using keyset_list_all
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Tue, 6 Dec 2022 18:16:39 +0000 (13:16 -0500)]
19791: Add a note explaining the page's intended scope
I wrote a note to this effect during the branch review, and I hope
putting it here can help guide future authors (possibly including future
me).
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Brett Smith [Fri, 25 Nov 2022 16:56:44 +0000 (11:56 -0500)]
19791: Expand Python SDK examples into API client overview
This change takes the skeleton of the existing examples page and expands
it into a fuller overview of the API client provided by the Python
SDK. It provides more explanation of how the client works; how it
corresponds to the Arvados API; more concrete examples of real tasks you
might actually want to do with the client; and a few different examples
to demonstrate how you might use different client code patterns for
different situations.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Peter Amstutz [Tue, 6 Dec 2022 17:15:11 +0000 (12:15 -0500)]
19847: Add calculation for choosing keep disk cache size.
Add KeepCacheTypeRequirement to control which cache to use, to
facilitate performance comparison.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Tom Clegg [Tue, 6 Dec 2022 16:22:46 +0000 (11:22 -0500)]
Merge branch '19513-create-role-admin-only'
closes #19513
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Mon, 5 Dec 2022 22:02:59 +0000 (17:02 -0500)]
Fix broken documentation link refs #19215
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Mon, 5 Dec 2022 18:43:01 +0000 (13:43 -0500)]
Merge branch '19215-installer' refs #19215
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Lucas Di Pentima [Mon, 5 Dec 2022 18:24:32 +0000 (19:24 +0100)]
19215: Adjusts the documentation to reflect recent changes.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Mon, 5 Dec 2022 18:05:09 +0000 (19:05 +0100)]
19215: Properly outputs LE's secret access key.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Fri, 2 Dec 2022 22:58:07 +0000 (19:58 -0300)]
19215: Fixes one remaining IP related variable.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Fri, 2 Dec 2022 22:54:22 +0000 (19:54 -0300)]
19215: Adds private subnet & NAT gateway for compute nodes.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Tom Clegg [Fri, 2 Dec 2022 20:09:55 +0000 (15:09 -0500)]
19513: Rename flag to CanCreateRoleGroups, add test case.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 18:28:28 +0000 (13:28 -0500)]
Merge branch '18842-arv-mount-disk-config' refs #18842
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 17:11:09 +0000 (12:11 -0500)]
19215: Add -o pipefail to installer.sh
This avoids having "| tee" suppress errors that should have caused the
script to stop.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 16:30:43 +0000 (11:30 -0500)]
18842: One more refactor
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 16:24:46 +0000 (11:24 -0500)]
18842: Need to call ready.set() on base cases
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 16:14:51 +0000 (11:14 -0500)]
18842: Clean up keep cache set logic a little more
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Fri, 2 Dec 2022 16:04:27 +0000 (11:04 -0500)]
18842: Clean up keep cache set() a little bit
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 22:37:28 +0000 (17:37 -0500)]
19215: Fix *_INT_IP defaults and Terraform CLI install text.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 21:23:15 +0000 (16:23 -0500)]
19704: Add readArvFile to README
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 19:58:11 +0000 (14:58 -0500)]
Get the README to render better
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 18:41:38 +0000 (13:41 -0500)]
arvbox changes: yank Composer. Add link to documentation.
Also set locale.
no issue #
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 3 Nov 2022 14:48:29 +0000 (10:48 -0400)]
Set up ruby sdk, no issue #
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
AnetaSta22 [Tue, 16 Aug 2022 10:34:07 +0000 (12:34 +0200)]
19704: Merge contributed updates to R SDK
* Add roxygen documentation
* Add readArvFile() function
* Add files via upload
* New README
* Add parameter relativePath in getCollectionContent()
Contributed by Aneta Stanczyk <aneta.stanczyk@contractors.roche.com>
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 16:40:30 +0000 (11:40 -0500)]
19215: Move the note about installing Terraform CLI
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Thu, 1 Dec 2022 16:15:52 +0000 (11:15 -0500)]
19215: A few tweaks about setting up compute image.
Make packer script create a log file.
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Wed, 30 Nov 2022 22:13:04 +0000 (17:13 -0500)]
19215: More documentation details
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Wed, 30 Nov 2022 21:25:00 +0000 (16:25 -0500)]
19215: Polishing install process
* Coordinate terraform using installer.sh
* Doc updates (WIP)
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Lucas Di Pentima [Wed, 30 Nov 2022 15:00:18 +0000 (12:00 -0300)]
19215: Adds region_name as output.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Peter Amstutz [Tue, 29 Nov 2022 15:47:57 +0000 (10:47 -0500)]
When comparing manifest_text, strip signatures
no issue #
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 29 Nov 2022 15:26:36 +0000 (10:26 -0500)]
Merge branch '19699-cwl-dl-docs' refs #19699
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 29 Nov 2022 14:58:50 +0000 (09:58 -0500)]
19699: Update from review comments
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Mon, 28 Nov 2022 22:29:34 +0000 (17:29 -0500)]
18842: Add a couple of error handling tests
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Mon, 28 Nov 2022 21:39:03 +0000 (16:39 -0500)]
18842: Turn disk write errors into KeepCacheError
* DiskCacheSlot properly keeps track of the file handle now
* Failure to write disk block to cache will attempt to shrink cache
and try again, if it still fails, turns into KeepCacheError
* init_cache writes a test block to check for working cache
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Lucas Di Pentima [Mon, 28 Nov 2022 21:33:21 +0000 (18:33 -0300)]
19215: Adds hardcoded deploy_user output set to "admin".
Debian AMIs have their default non-root user set to "admin", so admins will
need to set up the local.params DEPLOY_USER var accordingly.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Brett Smith [Mon, 28 Nov 2022 20:25:03 +0000 (15:25 -0500)]
Fix manifest comparisons in new collection tests
The previous version of these tests was comparing bound method objects
directly, rather than comparing the manifest texts returned by calling
them. Apparently in some setups this comparison returns True, but on my
development box it returns False, causing test failures. We haven't
fully diagnosed what causes the difference, but it seems clear enough
that comparing the method objects isn't the intent of these tests, but
rather they should compare the returned manifests. This commit updates
them to do so. No issue #.
Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>
Lucas Di Pentima [Mon, 28 Nov 2022 14:58:33 +0000 (11:58 -0300)]
19215: Fixes IAM policy example for Keepstore S3 access.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Mon, 28 Nov 2022 14:53:07 +0000 (11:53 -0300)]
19215: Sets up the provision.sh script to use our own postgres formula fork.
This is a temporary measure until it gets properly fixed. See:
https://github.com/saltstack-formulas/postgres-formula/issues/327
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Mon, 28 Nov 2022 14:39:49 +0000 (11:39 -0300)]
19215: Adds documentation on Terraform code.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Lucas Di Pentima [Wed, 23 Nov 2022 01:29:27 +0000 (22:29 -0300)]
19215: Adds initial version of terraform code for multi-host deploy in AWS.
It's separated in 3 sections: vpc, data-storage & services. This is to limit
the 'blast radius' of a potential error when applying changes, as recommended
in many places.
Each state should be applied in the order described above, and their outputs
feed the following states with important data.
The shared 'terraform.tfvars' file allows the operator to customize their
deployment.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>
Tom Clegg [Thu, 24 Nov 2022 19:54:43 +0000 (14:54 -0500)]
19513: Note configurable permission on doc section about roles.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Wed, 23 Nov 2022 20:08:37 +0000 (15:08 -0500)]
19699: Add section about data import
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Wed, 23 Nov 2022 19:53:27 +0000 (14:53 -0500)]
19699: Refresh arvados-cwl-runner table of options
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Tom Clegg [Wed, 23 Nov 2022 19:42:23 +0000 (14:42 -0500)]
19513: Add Users.CreateRoleGroups config option.
Arvados-DCO-1.1-Signed-off-by: Tom Clegg <tom@curii.com>
Peter Amstutz [Tue, 22 Nov 2022 22:02:01 +0000 (17:02 -0500)]
18842: Added tests for specific disk cache behavior
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Peter Amstutz [Tue, 22 Nov 2022 21:12:20 +0000 (16:12 -0500)]
18842: Use tempdir for cache directory in tests
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
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