[arvados] updated: 2.7.0-6233-g37516bc14f
git repository hosting
git at public.arvados.org
Tue Mar 19 18:51:06 UTC 2024
Summary of changes:
.licenseignore | 2 +
build/build-dev-docker-jobs-image.sh | 2 +-
build/run-build-packages-one-target.sh | 12 +-
build/run-tests.sh | 11 +-
doc/Rakefile | 2 +-
doc/_config.yml | 15 +-
.../_container_runtime_constraints.liquid | 1 +
doc/api/dispatch.html.textile.liquid | 22 +-
.../methods/container_requests.html.textile.liquid | 20 +
.../install-dispatch.html.textile.liquid | 11 +-
.../install-shell-server.html.textile.liquid | 2 +-
doc/sdk/cli/index.html.textile.liquid | 2 +-
doc/sdk/cli/install.html.textile.liquid | 2 +-
doc/sdk/cli/reference.html.textile.liquid | 2 +-
doc/sdk/cli/subcommands.html.textile.liquid | 2 +-
doc/sdk/fuse/install.html.textile.liquid | 42 +
doc/sdk/fuse/options.html.textile.liquid | 193 +++
doc/sdk/index.html.textile.liquid | 15 +-
doc/sdk/java-v2/example.html.textile.liquid | 2 +-
doc/sdk/java-v2/index.html.textile.liquid | 2 +-
doc/sdk/java-v2/javadoc.html.textile.liquid | 2 +-
doc/sdk/python/arvados-fuse.html.textile.liquid | 44 -
doc/sdk/python/cookbook.html.textile.liquid | 2 +-
.../cwl/crunchstat-summary.html.textile.liquid | 183 +--
doc/user/cwl/cwl-run-options.html.textile.liquid | 3 +-
doc/user/cwl/images/crunchstat-summary-html.png | Bin 132084 -> 142417 bytes
.../getting_started/setup-cli.html.textile.liquid | 2 +-
.../tutorials/wgs-tutorial.html.textile.liquid | 3 +-
lib/cloud/ec2/ec2.go | 6 +
lib/cloud/ec2/ec2_test.go | 6 +
lib/config/config.default.yml | 31 +-
lib/controller/federation/conn.go | 4 +
lib/controller/integration_test.go | 22 +-
lib/controller/localdb/container_request.go | 91 ++
lib/controller/router/router.go | 7 +
lib/controller/rpc/conn.go | 7 +
lib/crunchrun/integration_test.go | 5 +-
lib/dispatchcloud/dispatcher.go | 83 +-
lib/dispatchcloud/dispatcher_test.go | 126 +-
lib/dispatchcloud/scheduler/run_queue.go | 77 +-
lib/dispatchcloud/scheduler/scheduler.go | 3 +
lib/install/deps.go | 22 +-
lib/lsf/dispatch.go | 21 +-
lib/lsf/dispatch_test.go | 42 +-
sdk/cwl/arvados_cwl/__init__.py | 4 +
sdk/cwl/arvados_cwl/arvcontainer.py | 44 +-
sdk/cwl/arvados_cwl/context.py | 2 +
sdk/cwl/arvados_cwl/executor.py | 11 +-
sdk/cwl/arvados_version.py | 1 +
sdk/cwl/setup.py | 1 +
...quest_9tee4-xvhdp-kk0ja1cl8b2kr1y-arv-mount.txt | 10 +
...uest_9tee4-xvhdp-kk0ja1cl8b2kr1y-crunchstat.txt | 17 +
sdk/cwl/tests/test_container.py | 58 +-
sdk/dev-jobs.dockerfile | 2 +-
sdk/go/arvados/api.go | 180 +--
sdk/go/arvados/config.go | 8 +-
sdk/go/arvados/container.go | 6 +
sdk/go/arvadostest/api.go | 4 +
sdk/go/keepclient/keepclient.go | 2 +
sdk/python/arvados-v1-discovery.json | 20 +
sdk/python/arvados/events.py | 2 +-
sdk/python/tests/test_keep_client.py | 16 +-
.../arvados/v1/container_requests_controller.rb | 16 +
services/api/app/models/container_request.rb | 5 +-
services/api/config/routes.rb | 4 +-
services/fuse/arvados_fuse/command.py | 412 ++++--
services/keep-balance/change_set.go | 19 +-
services/keep-balance/change_set_test.go | 4 +-
services/keep-web/handler.go | 5 +-
services/keep-web/handler_test.go | 1 +
services/keep-web/main.go | 1 +
services/keep-web/metrics.go | 155 +++
services/keep-web/server_test.go | 36 +-
services/keepproxy/keepproxy_test.go | 2 +-
services/keepstore/azure_blob_volume.go | 271 ++--
services/keepstore/azure_blob_volume_test.go | 190 +--
services/keepstore/bufferpool.go | 70 +-
services/keepstore/bufferpool_test.go | 45 +-
services/keepstore/collision.go | 100 --
services/keepstore/collision_test.go | 51 -
services/keepstore/command.go | 197 +--
services/keepstore/command_test.go | 2 +-
services/keepstore/count.go | 6 +-
services/keepstore/gocheck_test.go | 14 -
services/keepstore/handler_test.go | 1405 --------------------
services/keepstore/handlers.go | 1056 ---------------
services/keepstore/hashcheckwriter.go | 68 +
services/keepstore/keepstore.go | 777 ++++++++++-
services/keepstore/keepstore_test.go | 892 +++++++++++++
services/keepstore/metrics.go | 57 -
services/keepstore/metrics_test.go | 87 ++
services/keepstore/mock_mutex_for_test.go | 27 -
services/keepstore/mounts_test.go | 175 +--
services/keepstore/perms.go | 33 -
services/keepstore/perms_test.go | 63 -
services/keepstore/pipe_adapters.go | 93 --
services/keepstore/proxy_remote.go | 212 ---
services/keepstore/proxy_remote_test.go | 52 +-
services/keepstore/pull_worker.go | 206 ++-
services/keepstore/pull_worker_integration_test.go | 118 --
services/keepstore/pull_worker_test.go | 393 ++----
services/keepstore/putprogress.go | 101 ++
services/keepstore/router.go | 276 ++++
services/keepstore/router_test.go | 510 +++++++
.../keepstore/{s3aws_volume.go => s3_volume.go} | 291 ++--
.../{s3aws_volume_test.go => s3_volume_test.go} | 181 +--
services/keepstore/status_test.go | 25 -
services/keepstore/streamwriterat.go | 160 +++
services/keepstore/streamwriterat_test.go | 83 ++
services/keepstore/trash_worker.go | 209 ++-
services/keepstore/trash_worker_test.go | 509 +++----
services/keepstore/unix_volume.go | 269 ++--
services/keepstore/unix_volume_test.go | 362 ++---
services/keepstore/volume.go | 461 +------
services/keepstore/volume_generic_test.go | 630 +++------
services/keepstore/volume_test.go | 258 +---
services/keepstore/work_queue.go | 208 ---
services/keepstore/work_queue_test.go | 244 ----
services/workbench2/Makefile | 12 +-
services/workbench2/cypress.config.ts | 25 +
services/workbench2/cypress.json | 8 -
.../workbench2/cypress/e2e/banner-tooltip.cy.js | 100 ++
.../collection.spec.js => e2e/collection.cy.js} | 12 +-
.../create-workflow.cy.js} | 5 -
.../delete-multiple-files.cy.js} | 5 -
.../favorites.spec.js => e2e/favorites.cy.js} | 5 -
.../group-manage.cy.js} | 10 +-
.../{integration/login.spec.js => e2e/login.cy.js} | 5 -
.../multiselect-toolbar.cy.js} | 5 -
.../page-not-found.cy.js} | 5 -
.../process.spec.js => e2e/process.cy.js} | 115 +-
.../project.spec.js => e2e/project.cy.js} | 33 +-
.../search.spec.js => e2e/search.cy.js} | 13 +-
.../sharing.spec.js => e2e/sharing.cy.js} | 5 -
.../side-panel.spec.js => e2e/side-panel.cy.js} | 5 -
.../user-profile.cy.js} | 0
.../virtual-machine-admin.cy.js} | 0
.../workflow.spec.js => e2e/workflow.cy.js} | 0
.../cypress/integration/banner-tooltip.spec.js | 115 --
services/workbench2/cypress/support/commands.js | 5 +-
.../cypress/support/{index.js => e2e.js} | 0
services/workbench2/docker/Dockerfile | 12 +-
services/workbench2/package.json | 5 +-
.../src/components/breadcrumbs/breadcrumbs.tsx | 2 +-
.../src/components/code-snippet/code-snippet.tsx | 30 +-
.../collection-panel-files.tsx | 2 +-
.../details-attribute/details-attribute.tsx | 4 +-
services/workbench2/src/components/icon/icon.tsx | 2 +
.../src/components/loading/inline-pulser.tsx | 30 +
services/workbench2/src/models/group.ts | 2 +
.../src/store/breadcrumbs/breadcrumbs-actions.ts | 15 +-
...etails-panel-members-middleware-service.test.js | 28 +
...oup-details-panel-members-middleware-service.ts | 25 +-
...ls-panel-permissions-middleware-service.test.js | 28 +
...details-panel-permissions-middleware-service.ts | 25 +-
.../groups-panel-middleware-service.test.ts | 160 +++
.../groups-panel-middleware-service.ts | 39 +-
.../src/store/navigation/navigation-action.ts | 1 -
.../open-in-new-tab/open-in-new-tab.actions.ts | 4 +-
.../store/process-panel/process-panel-actions.ts | 7 +-
.../store/process-panel/process-panel-reducer.ts | 4 +
.../src/store/process-panel/process-panel.ts | 6 +
.../src/store/workbench/workbench-actions.ts | 1 +
.../context-menu/actions/file-viewer-action.tsx | 4 +-
.../context-menu/actions/file-viewer-actions.tsx | 1 +
.../data-explorer/renderers.test.tsx | 94 +-
.../views-components/data-explorer/renderers.tsx | 37 +-
.../views-components/main-app-bar/help-menu.tsx | 2 +-
.../repositories-sample-git-dialog.tsx | 6 +-
.../sharing-dialog/sharing-urls-component.tsx | 2 +-
.../views-components/token-dialog/token-dialog.tsx | 9 +-
.../webdav-s3-dialog/webdav-s3-dialog.tsx | 4 +-
.../src/views/groups-panel/groups-panel.tsx | 25 +-
.../src/views/process-panel/process-io-card.tsx | 3 +-
.../process-panel/process-log-code-snippet.tsx | 57 +-
.../src/views/process-panel/process-panel-root.tsx | 4 +
.../src/views/process-panel/process-panel.tsx | 9 +-
.../views/process-panel/process-resource-card.tsx | 11 +-
.../src/views/ssh-key-panel/ssh-key-panel-root.tsx | 14 +-
.../virtual-machine-user-panel.tsx | 18 +-
services/workbench2/yarn.lock | 916 +++++++------
.../lib/arvbox/docker/service/sdk/run-service | 2 +-
tools/compute-images/scripts/base.sh | 2 +-
...nsure-encrypted-partitions-aws-ebs-autoscale.sh | 2 +-
.../crunchstat_summary/command.py | 19 +-
.../crunchstat_summary/dygraphs.js | 17 +-
.../crunchstat_summary/reader.py | 43 +-
.../crunchstat_summary/summarizer.py | 589 ++++----
.../crunchstat_summary/webchart.py | 78 +-
...ainer_9tee4-dz642-lymtndkpy39eibk.txt.gz.report | 17 +-
...4-xvhdp-kk0ja1cl8b2kr1y-arv-mount.txt.gz.report | 13 +-
...-xvhdp-kk0ja1cl8b2kr1y-crunchstat.txt.gz.report | 15 +-
...quest_9tee4-xvhdp-kk0ja1cl8b2kr1y.txt.gz.report | 17 +-
.../tests/crunchstat_error_messages.txt | 6 +-
.../tests/logfile_20151204190335.txt.gz | Bin 3682 -> 0 bytes
.../tests/logfile_20151204190335.txt.gz.report | 35 -
.../tests/logfile_20151210063411.txt.gz | Bin 3101 -> 0 bytes
.../tests/logfile_20151210063411.txt.gz.report | 24 -
.../tests/logfile_20151210063439.txt.gz | Bin 3103 -> 0 bytes
.../tests/logfile_20151210063439.txt.gz.report | 24 -
tools/crunchstat-summary/tests/test_examples.py | 193 +--
tools/keep-block-check/keep-block-check_test.go | 7 +-
tools/keep-rsync/keep-rsync_test.go | 4 +-
.../multi_host/aws/states/workbench1_uninstall.sls | 12 +
.../states/workbench1_uninstall.sls | 12 +
.../states/workbench1_uninstall.sls | 12 +
tools/salt-install/provision.sh | 5 +
tools/salt-install/terraform/aws/services/main.tf | 5 +-
208 files changed, 8225 insertions(+), 8703 deletions(-)
create mode 100644 doc/sdk/fuse/install.html.textile.liquid
create mode 100644 doc/sdk/fuse/options.html.textile.liquid
delete mode 100644 doc/sdk/python/arvados-fuse.html.textile.liquid
create mode 100644 sdk/cwl/tests/container_request_9tee4-xvhdp-kk0ja1cl8b2kr1y-arv-mount.txt
create mode 100644 sdk/cwl/tests/container_request_9tee4-xvhdp-kk0ja1cl8b2kr1y-crunchstat.txt
create mode 100644 services/keep-web/metrics.go
delete mode 100644 services/keepstore/collision.go
delete mode 100644 services/keepstore/collision_test.go
delete mode 100644 services/keepstore/gocheck_test.go
delete mode 100644 services/keepstore/handler_test.go
delete mode 100644 services/keepstore/handlers.go
create mode 100644 services/keepstore/hashcheckwriter.go
create mode 100644 services/keepstore/keepstore_test.go
create mode 100644 services/keepstore/metrics_test.go
delete mode 100644 services/keepstore/mock_mutex_for_test.go
delete mode 100644 services/keepstore/perms.go
delete mode 100644 services/keepstore/perms_test.go
delete mode 100644 services/keepstore/pipe_adapters.go
delete mode 100644 services/keepstore/proxy_remote.go
delete mode 100644 services/keepstore/pull_worker_integration_test.go
create mode 100644 services/keepstore/putprogress.go
create mode 100644 services/keepstore/router.go
create mode 100644 services/keepstore/router_test.go
rename services/keepstore/{s3aws_volume.go => s3_volume.go} (75%)
rename services/keepstore/{s3aws_volume_test.go => s3_volume_test.go} (77%)
delete mode 100644 services/keepstore/status_test.go
create mode 100644 services/keepstore/streamwriterat.go
create mode 100644 services/keepstore/streamwriterat_test.go
delete mode 100644 services/keepstore/work_queue.go
delete mode 100644 services/keepstore/work_queue_test.go
create mode 100644 services/workbench2/cypress.config.ts
delete mode 100644 services/workbench2/cypress.json
create mode 100644 services/workbench2/cypress/e2e/banner-tooltip.cy.js
rename services/workbench2/cypress/{integration/collection.spec.js => e2e/collection.cy.js} (99%)
rename services/workbench2/cypress/{integration/create-workflow.spec.js => e2e/create-workflow.cy.js} (99%)
rename services/workbench2/cypress/{integration/delete-multiple-files.spec.js => e2e/delete-multiple-files.cy.js} (97%)
rename services/workbench2/cypress/{integration/favorites.spec.js => e2e/favorites.cy.js} (99%)
rename services/workbench2/cypress/{integration/group-manage.spec.js => e2e/group-manage.cy.js} (98%)
rename services/workbench2/cypress/{integration/login.spec.js => e2e/login.cy.js} (98%)
rename services/workbench2/cypress/{integration/multiselect-toolbar.spec.js => e2e/multiselect-toolbar.cy.js} (91%)
rename services/workbench2/cypress/{integration/page-not-found.spec.js => e2e/page-not-found.cy.js} (94%)
rename services/workbench2/cypress/{integration/process.spec.js => e2e/process.cy.js} (92%)
rename services/workbench2/cypress/{integration/project.spec.js => e2e/project.cy.js} (97%)
rename services/workbench2/cypress/{integration/search.spec.js => e2e/search.cy.js} (97%)
rename services/workbench2/cypress/{integration/sharing.spec.js => e2e/sharing.cy.js} (98%)
rename services/workbench2/cypress/{integration/side-panel.spec.js => e2e/side-panel.cy.js} (98%)
rename services/workbench2/cypress/{integration/user-profile.spec.js => e2e/user-profile.cy.js} (100%)
rename services/workbench2/cypress/{integration/virtual-machine-admin.spec.js => e2e/virtual-machine-admin.cy.js} (100%)
rename services/workbench2/cypress/{integration/workflow.spec.js => e2e/workflow.cy.js} (100%)
delete mode 100644 services/workbench2/cypress/integration/banner-tooltip.spec.js
rename services/workbench2/cypress/support/{index.js => e2e.js} (100%)
create mode 100644 services/workbench2/src/components/loading/inline-pulser.tsx
create mode 100644 services/workbench2/src/store/group-details-panel/group-details-panel-members-middleware-service.test.js
create mode 100644 services/workbench2/src/store/group-details-panel/group-details-panel-permissions-middleware-service.test.js
create mode 100644 services/workbench2/src/store/groups-panel/groups-panel-middleware-service.test.ts
delete mode 100644 tools/crunchstat-summary/tests/logfile_20151204190335.txt.gz
delete mode 100644 tools/crunchstat-summary/tests/logfile_20151204190335.txt.gz.report
delete mode 100644 tools/crunchstat-summary/tests/logfile_20151210063411.txt.gz
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delete mode 100644 tools/crunchstat-summary/tests/logfile_20151210063439.txt.gz
delete mode 100644 tools/crunchstat-summary/tests/logfile_20151210063439.txt.gz.report
create mode 100644 tools/salt-install/config_examples/multi_host/aws/states/workbench1_uninstall.sls
create mode 100644 tools/salt-install/config_examples/single_host/multiple_hostnames/states/workbench1_uninstall.sls
create mode 100644 tools/salt-install/config_examples/single_host/single_hostname/states/workbench1_uninstall.sls
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commit 37516bc14fdfe634c78764c15f3a8eb3a09b403c
Merge: 35b87ad5b9 96f0b43ee4
Author: Lisa Knox <lisaknox83 at gmail.com>
Date: Tue Mar 19 14:41:12 2024 -0400
Merge branch 'main' into 21357-favorites-names
refs #21357
Arvados-DCO-1.1-Signed-off-by: Lisa Knox <lisa.knox at curii.com>
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