arvados.git
16 months ago20754: Upgrade docker module for docker-cleaner 20754-docker-py-upgrade
Brett Smith [Fri, 4 Aug 2023 18:28:18 +0000 (14:28 -0400)]
20754: Upgrade docker module for docker-cleaner

The immediate motivation is dealing with the bug discussed in the
comments. Upgrading generally seems like a good idea since we've been
pinned at a specific version for so long.

Changing the Docker API version is required by the library: 1.21 is the
oldest version currently supported. Our Go stack is standardized on
1.35, so use that here too.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20754: Remove test requirements from docker-cleaner
Brett Smith [Fri, 4 Aug 2023 18:05:26 +0000 (14:05 -0400)]
20754: Remove test requirements from docker-cleaner

Neither are required with our current Python stack.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months agoMerge branch '17244-cgroup2'
Tom Clegg [Wed, 2 Aug 2023 13:24:32 +0000 (09:24 -0400)]
Merge branch '17244-cgroup2'

refs #17244

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

16 months ago17244: Fix doc link.
Tom Clegg [Wed, 2 Aug 2023 13:23:40 +0000 (09:23 -0400)]
17244: Fix doc link.

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

16 months agoMerge branch '20797-rhel8-packages'
Brett Smith [Wed, 2 Aug 2023 01:08:36 +0000 (21:08 -0400)]
Merge branch '20797-rhel8-packages'

Closes #20797.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Merge Red Hat package install instructions 20797-rhel8-packages
Brett Smith [Tue, 1 Aug 2023 18:07:32 +0000 (14:07 -0400)]
20797: Merge Red Hat package install instructions

For now, since the instructions are *exactly* the same across distros
and versions, this makes sense as a streamlining measure. If we add more
variation to the process in the future, it probably makes sense to split
these out again.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Run microdnf with --assumeyes
Brett Smith [Tue, 1 Aug 2023 16:06:59 +0000 (12:06 -0400)]
20797: Run microdnf with --assumeyes

`docker run --rm -ti rockylinux:8-minimal microdnf --help` says,

> The "--assumeyes" option is turned on by default.

However, that behavior apparently changes in a future version:
<https://github.com/rpm-software-management/microdnf/pull/97>,
microdnf commit ca778a0b34c5e15b5b0de1e0af0f8892280fc0c2.

Passing `--assumeyes` provides more consistency and will help keep the
code working in later releases.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Prefer dnf in PostgreSQL install instructions
Brett Smith [Tue, 1 Aug 2023 16:02:30 +0000 (12:02 -0400)]
20797: Prefer dnf in PostgreSQL install instructions

I believe this is the current preferred tool, and provides consistency
with other RH8 documentation.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago17244: Update docs for -cgroup-parent-subsystem flag.
Tom Clegg [Mon, 31 Jul 2023 19:52:50 +0000 (15:52 -0400)]
17244: Update docs for -cgroup-parent-subsystem flag.

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

16 months ago17244: Clarify log message.
Tom Clegg [Mon, 31 Jul 2023 19:33:18 +0000 (15:33 -0400)]
17244: Clarify log message.

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

16 months ago20797: Update cross compilation detection logic
Brett Smith [Mon, 31 Jul 2023 15:37:38 +0000 (11:37 -0400)]
20797: Update cross compilation detection logic

The immediate bug that needs to be fixed is that we currently don't
support cross compilation on rocky8.

DRY up the code to try to make it easier to follow what's going on
here.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Note Alma/CentOS/Red Hat/Rocky 8 support in install docs
Brett Smith [Fri, 28 Jul 2023 19:53:45 +0000 (15:53 -0400)]
20797: Note Alma/CentOS/Red Hat/Rocky 8 support in install docs

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Copyedit "CentOS" for consistent capitalization
Brett Smith [Fri, 28 Jul 2023 19:12:44 +0000 (15:12 -0400)]
20797: Copyedit "CentOS" for consistent capitalization

I left the upgrade notes alone since they're more anchored in time, but
this should get the rest of the documentation.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Add basic documentation for how to add a new target distro
Brett Smith [Fri, 28 Jul 2023 18:51:18 +0000 (14:51 -0400)]
20797: Add basic documentation for how to add a new target distro

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Add basic intro documentation to build README
Brett Smith [Fri, 28 Jul 2023 18:41:15 +0000 (14:41 -0400)]
20797: Add basic intro documentation to build README

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Update bundler version in rocky8 Docker images
Brett Smith [Fri, 28 Jul 2023 19:32:32 +0000 (15:32 -0400)]
20797: Update bundler version in rocky8 Docker images

This updates the version to match our `Gemfile.lock` files and avoids a
warning.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Update for new createrepo package+executable name
Brett Smith [Fri, 28 Jul 2023 19:01:17 +0000 (15:01 -0400)]
20797: Update for new createrepo package+executable name

In Debian 12 the package is named createrepo-c and it installs
/usr/bin/createrepo_c. With this change, the build script prefers that
name, but still looks for and uses `createrepo`.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Streamline setup of Python build variables
Brett Smith [Fri, 28 Jul 2023 18:09:02 +0000 (14:09 -0400)]
20797: Streamline setup of Python build variables

Instead of setting Debian defaults and overriding them,

1. set global defaults
2. set target-specific variables
3. set deb/rpm-specific defaults as needed

I hope this makes clearer what's actually a target-specific variable
vs. a regular difference between Debian and Red Hat, and so makes it
easier to add targets in the future.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20797: Add initial support for rocky8 package builds
Brett Smith [Fri, 28 Jul 2023 17:48:08 +0000 (13:48 -0400)]
20797: Add initial support for rocky8 package builds

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months agoMerge branch '20543-pip-install-virtualenv'
Brett Smith [Wed, 26 Jul 2023 13:40:39 +0000 (09:40 -0400)]
Merge branch '20543-pip-install-virtualenv'

Closes #20543.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

16 months ago20543: Recommend users install Python packages in a virtualenv
Brett Smith [Fri, 7 Jul 2023 19:44:03 +0000 (15:44 -0400)]
20543: Recommend users install Python packages in a virtualenv

`pip install --user` doesn't work on distributions that have adopted
PEP 668, including Debian 12+ and Ubuntu 23.04+.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months agoMerge branch '20343-regexp-prefixes'
Brett Smith [Mon, 24 Jul 2023 14:53:13 +0000 (10:53 -0400)]
Merge branch '20343-regexp-prefixes'

Closes #20343.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago17244: Use crunch-run's cgroup, not init's, for "host" stats.
Tom Clegg [Fri, 21 Jul 2023 23:05:33 +0000 (19:05 -0400)]
17244: Use crunch-run's cgroup, not init's, for "host" stats.

This gets much closer to "everything on the host" with minimal
effort.

Tracking the furthest ancestor of crunch-run's cgroup might be even
better, but will require additional support in crunchstat.

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

17 months ago17244: Test findCgroup on cgroup files in crunchstat testdata.
Tom Clegg [Fri, 21 Jul 2023 13:53:34 +0000 (09:53 -0400)]
17244: Test findCgroup on cgroup files in crunchstat testdata.

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

17 months agoMerge branch '20726-s3-session-release'
Tom Clegg [Fri, 21 Jul 2023 13:21:41 +0000 (09:21 -0400)]
Merge branch '20726-s3-session-release'

refs #20726

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

17 months ago20726: Fix unreleased session in s3 handler. 20726-s3-session-release
Tom Clegg [Thu, 20 Jul 2023 15:26:51 +0000 (11:26 -0400)]
20726: Fix unreleased session in s3 handler.

Caused subsequent requests with the same token to hang after reaching
expiry time.

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

17 months ago17244: Fix singularity reporting host stats as container stats.
Tom Clegg [Wed, 19 Jul 2023 14:40:07 +0000 (10:40 -0400)]
17244: Fix singularity reporting host stats as container stats.

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

17 months ago17244: Make -cgroup-parent-subsystem=X work in cgroups v2.
Tom Clegg [Tue, 18 Jul 2023 20:28:30 +0000 (16:28 -0400)]
17244: Make -cgroup-parent-subsystem=X work in cgroups v2.

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

17 months ago17244: Refactor crunchstat to use cgroup unified/hybrid modes.
Tom Clegg [Tue, 11 Jul 2023 14:03:58 +0000 (10:03 -0400)]
17244: Refactor crunchstat to use cgroup unified/hybrid modes.

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

17 months ago17244: Remove crunchstat debian package.
Tom Clegg [Wed, 19 Jul 2023 04:54:42 +0000 (00:54 -0400)]
17244: Remove crunchstat debian package.

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

17 months agoMerge branch '20731-user-guide-wb2' refs #20731
Peter Amstutz [Tue, 18 Jul 2023 14:20:50 +0000 (10:20 -0400)]
Merge branch '20731-user-guide-wb2'  refs #20731

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>

17 months agoMerge branch '20726-s3list-pages'
Tom Clegg [Thu, 13 Jul 2023 20:48:04 +0000 (16:48 -0400)]
Merge branch '20726-s3list-pages'

refs #20726

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

17 months ago20726: Fix traversing projects/collections that precede page marker. 20726-s3list-pages
Tom Clegg [Wed, 12 Jul 2023 04:19:08 +0000 (00:19 -0400)]
20726: Fix traversing projects/collections that precede page marker.

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

17 months ago20731: Make some text changes & reorganization based on workbench 2 updates 20731-user-guide-wb2
Peter Amstutz [Tue, 11 Jul 2023 21:06:47 +0000 (17:06 -0400)]
20731: Make some text changes & reorganization based on workbench 2 updates

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>

17 months ago20726: Fix ListObjects[V2] pages duplicating last item on next page.
Tom Clegg [Tue, 11 Jul 2023 19:25:22 +0000 (15:25 -0400)]
20726: Fix ListObjects[V2] pages duplicating last item on next page.

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

17 months ago20726: Update s3ListObjects paging test.
Tom Clegg [Tue, 11 Jul 2023 17:38:38 +0000 (13:38 -0400)]
20726: Update s3ListObjects paging test.

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

17 months agoMerge branch '20667-maxsuper-atquota'
Tom Clegg [Tue, 11 Jul 2023 17:39:20 +0000 (13:39 -0400)]
Merge branch '20667-maxsuper-atquota'

fixes #20667

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

17 months agoMerge branch '20684-user-install-doc-fixes'
Brett Smith [Mon, 10 Jul 2023 15:56:21 +0000 (11:56 -0400)]
Merge branch '20684-user-install-doc-fixes'

Closes #20684.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Modernize pycurl dependency discussion
Brett Smith [Mon, 10 Jul 2023 15:50:56 +0000 (11:50 -0400)]
20684: Modernize pycurl dependency discussion

These instructions should be good for Debian 10+ and I'm assuming
corresponding Ubuntu too.

* Update libssl package name
* Clarify the command is good for multiple distros
* Prefer apt over apt-get

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Simplify curl dependency background
Brett Smith [Mon, 10 Jul 2023 15:48:21 +0000 (11:48 -0400)]
20684: Simplify curl dependency background

Specifying that the "Python SDK" depends on curl is needless detail
here.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Note tutorial expectations for all Crunch CLI tools 20684-user-install-doc-fixes
Brett Smith [Fri, 7 Jul 2023 21:19:13 +0000 (17:19 -0400)]
20684: Note tutorial expectations for all Crunch CLI tools

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Note crunchstat-summary can be installed in a virtualenv
Brett Smith [Fri, 7 Jul 2023 21:18:15 +0000 (17:18 -0400)]
20684: Note crunchstat-summary can be installed in a virtualenv

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Copyedit tutorial expectations include
Brett Smith [Fri, 7 Jul 2023 21:03:46 +0000 (17:03 -0400)]
20684: Copyedit tutorial expectations include

* Fix run-on sentence
* Clean up punctuation spacing

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Expand "Getting started at the command line" documentation
Brett Smith [Fri, 7 Jul 2023 20:57:38 +0000 (16:57 -0400)]
20684: Expand "Getting started at the command line" documentation

* Add more structure to the page
* Be explicit that we usually recommend using a VM
* Highlight that using our package repository is the simplest way to
  install tools
* List all the tools you can install, with more details

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20684: Clean up FUSE references in a-c-r install instructions
Brett Smith [Fri, 7 Jul 2023 20:27:19 +0000 (16:27 -0400)]
20684: Clean up FUSE references in a-c-r install instructions

It looks like this page started as a copy of the corresponding FUSE
page, and we didn't update all the references.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months agoMerge branch '20559-dav-concurrent-writes'
Tom Clegg [Fri, 7 Jul 2023 13:49:24 +0000 (09:49 -0400)]
Merge branch '20559-dav-concurrent-writes'

refs #20559

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

17 months agoFixes salt bootstrapping on nodes by the installer. Refs #20665
Lucas Di Pentima [Thu, 6 Jul 2023 19:34:43 +0000 (16:34 -0300)]
Fixes salt bootstrapping on nodes by the installer. Refs #20665

Salt v3004 is no more regarded as 'stable', so the boostrapping script started
to fail. Asking for 'old-stable' fixes this, at least for some time.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months agoMerge branch '20722-docker-upgrade'
Tom Clegg [Thu, 6 Jul 2023 18:01:12 +0000 (14:01 -0400)]
Merge branch '20722-docker-upgrade'

fixes #20722

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

17 months ago20722: Update ContainerCreate usage for new docker client library. 20722-docker-upgrade
Tom Clegg [Thu, 6 Jul 2023 15:54:40 +0000 (11:54 -0400)]
20722: Update ContainerCreate usage for new docker client library.

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

17 months agoMerge branch '20707-aws-compute-ami-cgroupsv1'. Closes #20707
Lucas Di Pentima [Thu, 6 Jul 2023 15:15:01 +0000 (12:15 -0300)]
Merge branch '20707-aws-compute-ami-cgroupsv1'. Closes #20707

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20722: Cleans up dependencies with 'go mod tidy'
Lucas Di Pentima [Thu, 6 Jul 2023 14:52:53 +0000 (11:52 -0300)]
20722: Cleans up dependencies with 'go mod tidy'

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20722: Upgrades github.com/docker/docker to latest version.
Lucas Di Pentima [Thu, 6 Jul 2023 14:51:40 +0000 (11:51 -0300)]
20722: Upgrades github.com/docker/docker to latest version.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months agoMerge branch '20718-grpc-upgrade'. Closes #20718
Lucas Di Pentima [Thu, 6 Jul 2023 14:26:05 +0000 (11:26 -0300)]
Merge branch '20718-grpc-upgrade'. Closes #20718

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20718: Cleans up by running "go mod tidy -compat=1.17" 20718-grpc-upgrade
Lucas Di Pentima [Thu, 6 Jul 2023 13:41:50 +0000 (10:41 -0300)]
20718: Cleans up by running "go mod tidy -compat=1.17"

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20718: Upgrades google.golang.org/grpc to 1.56.1
Lucas Di Pentima [Thu, 6 Jul 2023 13:36:31 +0000 (10:36 -0300)]
20718: Upgrades google.golang.org/grpc to 1.56.1

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20343: Define Python regexps with raw strings 20343-regexp-prefixes
Brett Smith [Wed, 5 Jul 2023 20:58:07 +0000 (16:58 -0400)]
20343: Define Python regexps with raw strings

Prevent the DeprecationWarning added to Python 3.6 for unrecognized
string escape sequences. Found candidates by running:

    git grep --line-number -E '\bre\.\w+\([^r]*\\'

Most of the changes just add the raw string prefix `r` to these regexps,
but I did make some other readability improvements while I was at it,
including switching from regexps to plain string test methods where
appropriate.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months agoMerge branch '20710-shlex-quoting'
Brett Smith [Wed, 5 Jul 2023 19:46:21 +0000 (15:46 -0400)]
Merge branch '20710-shlex-quoting'

Closes #20710.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20710: Remove old backwards compatibility import fallback
Brett Smith [Wed, 5 Jul 2023 19:45:25 +0000 (15:45 -0400)]
20710: Remove old backwards compatibility import fallback

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20707: Don't rely on GRUB_CMDLINE_LINUX be empty in /etc/default/grub 20707-aws-compute-ami-cgroupsv1
Lucas Di Pentima [Wed, 5 Jul 2023 17:28:54 +0000 (14:28 -0300)]
20707: Don't rely on GRUB_CMDLINE_LINUX be empty in /etc/default/grub

Debian 11 AWS AMIs come with some settings added in that variable.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20710: Switch from pipes.quote to shlex.quote 20710-shlex-quoting
Brett Smith [Wed, 5 Jul 2023 16:20:57 +0000 (12:20 -0400)]
20710: Switch from pipes.quote to shlex.quote

pipes is deprecated in Python 3.11+ and slated to be removed in Python
3.13. Fortunately we only use pipes.quote, which is literally the same
as shlex.quote:

    >>> import pipes
    <stdin>:1: DeprecationWarning: 'pipes' is deprecated and slated for removal in Python 3.13
    >>> import shlex
    >>> pipes.quote is shlex.quote
    True

Switch to that instead for continued support.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

17 months ago20707: Updates default to Debian 11 AMI. Forces cgroups v1 for crunchstat.
Lucas Di Pentima [Tue, 4 Jul 2023 19:25:46 +0000 (16:25 -0300)]
20707: Updates default to Debian 11 AMI. Forces cgroups v1 for crunchstat.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20559: Trim session count explicitly instead of using LRU cache. 20559-dav-concurrent-writes
Tom Clegg [Fri, 30 Jun 2023 14:28:38 +0000 (10:28 -0400)]
20559: Trim session count explicitly instead of using LRU cache.

The LRU cache automatically implemented the session count limit by
dropping the oldest session, which would break our "one session per
token" rule (by evicting a session and creating a new one while the
old session was still in use) when there were more active sessions
than the configured limit.

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

17 months agoDoc: Update the included note about Workbench 2 transition.
Zoë Ma [Fri, 30 Jun 2023 07:24:55 +0000 (15:24 +0800)]
Doc: Update the included note about Workbench 2 transition.

Reword the text to center the Workbench 2.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Working with an Arvados git repository"
Zoë Ma [Fri, 30 Jun 2023 06:57:31 +0000 (14:57 +0800)]
Doc: Update "Working with an Arvados git repository"

- Updated inline elements for Workbench 2.

TODO: Should double-check the instructions of using Workbench when a git
repo is ready.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Adding a new Arvados git repository"
Zoë Ma [Fri, 30 Jun 2023 06:54:07 +0000 (14:54 +0800)]
Doc: Update "Adding a new Arvados git repository"

- Updated inline elements and the first 2 figures for Workbench 2.

TODO: The last figure remains to be updated.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Starting a Workflow at the Command Line"
Zoë Ma [Wed, 28 Jun 2023 15:52:03 +0000 (23:52 +0800)]
Doc: Update "Starting a Workflow at the Command Line"

A minor fix for the mention of starting a workflow from Workbench.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Trashing and untrashing data"
Zoë Ma [Wed, 28 Jun 2023 15:39:51 +0000 (23:39 +0800)]
Doc: Update "Trashing and untrashing data"

Revised the part about untrashing using Workbench for Workbench 2,
including replacing the figure.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Add a figure caption in "Downloading data".
Zoë Ma [Mon, 26 Jun 2023 02:32:00 +0000 (10:32 +0800)]
Doc: Add a figure caption in "Downloading data".

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Downloading data".
Zoë Ma [Sun, 25 Jun 2023 09:38:52 +0000 (17:38 +0800)]
Doc: Update "Downloading data".

- Updated the inline content for Workbench 2.
- Added a new screenshot for the creation of sharing URL.

TODO: The view of the URL from the PoV of the recipient has not been
updated.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Uploading data"
Zoë Ma [Sat, 24 Jun 2023 09:09:30 +0000 (17:09 +0800)]
Doc: Update "Uploading data"

- Updated the text for Workbench 2 and expanded the steps.
- Removed the old figures and replaced them with new ones from Workbench
  2.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Remove reference to "dashboard" in template about adding SSH key
Zoë Ma [Sat, 24 Jun 2023 06:17:41 +0000 (14:17 +0800)]
Doc: Remove reference to "dashboard" in template about adding SSH key

- The "dashboard" is no longer a named component of the Workbench UI.
- The <h3> under the <h1> is superfluous.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Accessing an Arvados VM with SSH - Unix Environments"
Zoë Ma [Sat, 24 Jun 2023 06:12:58 +0000 (14:12 +0800)]
Doc: Update "Accessing an Arvados VM with SSH - Unix Environments"

- Updated the included template about adding SSH keys, to reflect
  changes in Workbench 2. A screenshot was updated.
- Added slightly more context to instructions about using ssh keypair
  and agent for the benefit of new users.
- Minor textual fixes for clarity.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Accessing an Arvados VM with Webshell"
Zoë Ma [Sat, 24 Jun 2023 00:33:19 +0000 (08:33 +0800)]
Doc: Update "Accessing an Arvados VM with Webshell"

- Updated inline elements for Workbench 2.
- Replaced screenshot with higher-definition and updated one.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Getting an API token".
Zoë Ma [Fri, 23 Jun 2023 13:23:47 +0000 (21:23 +0800)]
Doc: Update "Getting an API token".

- Updated the references to Workbench 2 UI elements.
- Expand and reword some instructions about creating file in shell
  (because a novice user may accidentally wipe out the file), and how
  appending to .bashrc does its job.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Running a workflow using Workbench"
Zoë Ma [Fri, 23 Jun 2023 09:48:55 +0000 (17:48 +0800)]
Doc: Update "Running a workflow using Workbench"

- Updated the procedures to match the operations in Workbench2.
- Updated the styles of inline elements to match their roles in
  Workbench2.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update "Accessing Arvados Workbench" for Workbench 2
Zoë Ma [Fri, 23 Jun 2023 09:47:58 +0000 (17:47 +0800)]
Doc: Update "Accessing Arvados Workbench" for Workbench 2

- Remove references to the "Dashboard"
- Replace the screenshot with higher-definition, updated one.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoDoc: Update Ruby dependencies and fix Rakefile
Zoë Ma [Fri, 23 Jun 2023 06:50:50 +0000 (14:50 +0800)]
Doc: Update Ruby dependencies and fix Rakefile

- Updated rubygems with "bundle update" for dependencies.
- Fixed Rakefile by replacing the obsoleted method aliases.

Arvados-DCO-1.1-Signed-off-by: Zoë Ma <zoe.ma@curii.com>

17 months agoMerge branch '20606-reuse-preemptible'
Tom Clegg [Thu, 29 Jun 2023 20:47:57 +0000 (16:47 -0400)]
Merge branch '20606-reuse-preemptible'

fixes #20606

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

17 months ago20559: Explain locking strategy in comments.
Tom Clegg [Thu, 29 Jun 2023 18:59:16 +0000 (14:59 -0400)]
20559: Explain locking strategy in comments.

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

17 months ago20559: Refactor session sharing.
Tom Clegg [Thu, 29 Jun 2023 15:57:29 +0000 (11:57 -0400)]
20559: Refactor session sharing.

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

17 months ago20559: Garbage collect unused per-collection mutexes.
Tom Clegg [Wed, 14 Jun 2023 21:17:18 +0000 (17:17 -0400)]
20559: Garbage collect unused per-collection mutexes.

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

17 months ago20559: Serialize writes for a given collection ID.
Tom Clegg [Wed, 14 Jun 2023 20:45:58 +0000 (16:45 -0400)]
20559: Serialize writes for a given collection ID.

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

17 months ago20559: Test concurrent writes using same token.
Tom Clegg [Tue, 13 Jun 2023 21:47:14 +0000 (17:47 -0400)]
20559: Test concurrent writes using same token.

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

17 months ago20606: Update retry tests. 20606-reuse-preemptible
Tom Clegg [Tue, 27 Jun 2023 14:36:08 +0000 (10:36 -0400)]
20606: Update retry tests.

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

17 months agoMerge branch '20665-installer-secrets-handling'. Closes #20665
Lucas Di Pentima [Tue, 27 Jun 2023 13:31:38 +0000 (10:31 -0300)]
Merge branch '20665-installer-secrets-handling'. Closes #20665

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20665: Fixes logic script error & minor docs improvements. 20665-installer-secrets-handling
Lucas Di Pentima [Tue, 27 Jun 2023 13:29:27 +0000 (10:29 -0300)]
20665: Fixes logic script error & minor docs improvements.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20606: Don't reuse unstarted preemptible ctr for non-preemptible cr.
Tom Clegg [Mon, 26 Jun 2023 23:00:40 +0000 (19:00 -0400)]
20606: Don't reuse unstarted preemptible ctr for non-preemptible cr.

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

17 months ago20667: Add InitialQuotaEstimate config. 20667-maxsuper-atquota
Tom Clegg [Mon, 26 Jun 2023 23:02:49 +0000 (19:02 -0400)]
20667: Add InitialQuotaEstimate config.

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

17 months agoMerge branch '20619-arv-client-libfuse' closes #20619
Peter Amstutz [Mon, 26 Jun 2023 17:24:39 +0000 (13:24 -0400)]
Merge branch '20619-arv-client-libfuse'  closes #20619

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>

17 months ago20665: Provides examples on how to securely handle the secrets file.
Lucas Di Pentima [Mon, 26 Jun 2023 15:52:56 +0000 (12:52 -0300)]
20665: Provides examples on how to securely handle the secrets file.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20665: Code style improvements.
Lucas Di Pentima [Mon, 26 Jun 2023 15:47:54 +0000 (12:47 -0300)]
20665: Code style improvements.

Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas.dipentima@curii.com>

17 months ago20667: Add at_quota metric.
Tom Clegg [Mon, 26 Jun 2023 15:17:48 +0000 (11:17 -0400)]
20667: Add at_quota metric.

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

17 months ago20667: Adjust timeout/retry settings to address occasional failures.
Tom Clegg [Mon, 26 Jun 2023 15:06:35 +0000 (11:06 -0400)]
20667: Adjust timeout/retry settings to address occasional failures.

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

17 months ago20667: Reduce max supervisors if pool reaches cloud quota.
Tom Clegg [Mon, 26 Jun 2023 15:00:33 +0000 (11:00 -0400)]
20667: Reduce max supervisors if pool reaches cloud quota.

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

18 months ago20619: Add test arvados-client executable starts 20619-arv-client-libfuse
Peter Amstutz [Fri, 23 Jun 2023 19:46:31 +0000 (15:46 -0400)]
20619: Add test arvados-client executable starts

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>

18 months agoMerge branch '20663-login-sync-config'
Brett Smith [Fri, 23 Jun 2023 18:44:17 +0000 (14:44 -0400)]
Merge branch '20663-login-sync-config'

Closes #20663.

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

18 months ago20619: Add fpm-info for arvados-client to depend on fuse
Peter Amstutz [Fri, 23 Jun 2023 18:42:04 +0000 (14:42 -0400)]
20619: Add fpm-info for arvados-client to depend on fuse

Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>

18 months ago20663: Expand the default SyncIgnoredGroups 20663-login-sync-config
Brett Smith [Fri, 23 Jun 2023 18:14:38 +0000 (14:14 -0400)]
20663: Expand the default SyncIgnoredGroups

We discussed at standup that we prioritize the security of the default
configuration over backwards compatibility. This new default does that.

The list of groups is primarily informed by:
<https://wiki.debian.org/SystemGroups#Other_System_Groups>
<https://docs.fedoraproject.org/en-US/packaging-guidelines/UsersAndGroups/#_list_of_statically_allocated_uidgid_and_corresponding_package>

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

18 months ago20663: Merge 2.6.3 upgrading notes
Brett Smith [Fri, 23 Jun 2023 18:01:21 +0000 (14:01 -0400)]
20663: Merge 2.6.3 upgrading notes

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>

18 months ago20663: Add IgnoredGroups configuration to arvados-login-sync
Brett Smith [Fri, 23 Jun 2023 15:24:22 +0000 (11:24 -0400)]
20663: Add IgnoredGroups configuration to arvados-login-sync

Arvados-DCO-1.1-Signed-off-by: Brett Smith <brett.smith@curii.com>