[arvados] updated: 2.7.2-2-gdc5cde27d1
git repository hosting
git at public.arvados.org
Tue Apr 9 21:17:34 UTC 2024
Summary of changes:
build/package-build-dockerfiles/centos7/Dockerfile | 3 +-
.../package-build-dockerfiles/debian10/Dockerfile | 3 +-
.../package-build-dockerfiles/debian11/Dockerfile | 6 +-
build/package-build-dockerfiles/rocky8/Dockerfile | 6 +-
.../ubuntu1804/Dockerfile | 3 +-
.../ubuntu2004/Dockerfile | 6 +-
build/run-tests.sh | 2 +-
doc/_config.yml | 15 +-
doc/_includes/_hpc_max_gateway_tunnels.liquid | 18 +
doc/admin/scoped-tokens.html.textile.liquid | 17 +-
doc/admin/upgrading.html.textile.liquid | 14 +
doc/api/keep-webdav.html.textile.liquid | 6 +
doc/api/methods/groups.html.textile.liquid | 2 +-
.../install-dispatch.html.textile.liquid | 13 +-
.../install-dispatch.html.textile.liquid | 2 +
.../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 | 48 --
doc/user/cwl/cwl-extensions.html.textile.liquid | 6 +-
.../getting_started/setup-cli.html.textile.liquid | 2 +-
go.mod | 2 +-
go.sum | 4 +-
lib/cloud/ec2/ec2.go | 16 +-
lib/cloud/ec2/ec2_test.go | 57 +++
lib/config/config.default.yml | 103 +++-
lib/config/export.go | 1 +
lib/controller/integration_test.go | 81 ++-
lib/controller/rpc/conn.go | 4 +-
lib/crunchrun/container_gateway.go | 2 +-
lib/crunchrun/crunchrun.go | 13 +-
lib/install/deps.go | 26 +-
lib/lsf/dispatch.go | 21 +-
lib/lsf/dispatch_test.go | 42 +-
lib/service/cmd.go | 121 +++--
lib/service/cmd_test.go | 113 ++++-
sdk/R/install_deps.R | 7 +-
sdk/cli/arvados-cli.gemspec | 2 +-
sdk/cwl/arvados_cwl/arv-cwl-schema-v1.0.yml | 9 +-
sdk/cwl/arvados_cwl/arv-cwl-schema-v1.1.yml | 9 +-
sdk/cwl/arvados_cwl/arv-cwl-schema-v1.2.yml | 10 +-
sdk/cwl/arvados_cwl/arvcontainer.py | 9 +-
sdk/cwl/tests/arvados-tests.yml | 5 +
.../oom/{19975-oom.cwl => 19975-oom-mispelled.cwl} | 1 +
sdk/cwl/tests/oom/19975-oom.cwl | 2 +-
sdk/cwl/tests/oom/19975-oom3.cwl | 2 +-
sdk/go/arvados/config.go | 9 +-
sdk/go/arvados/fs_base.go | 93 +++-
sdk/go/arvados/fs_collection.go | 2 +-
sdk/go/arvados/fs_lookup.go | 14 +-
sdk/go/arvados/fs_project.go | 5 +-
sdk/go/arvados/fs_project_test.go | 111 +++--
sdk/go/arvados/fs_site.go | 8 +
sdk/go/arvados/fs_site_test.go | 10 +
sdk/go/arvadostest/fixtures.go | 5 +-
sdk/go/httpserver/request_limiter.go | 167 ++++---
sdk/go/httpserver/request_limiter_test.go | 49 +-
.../client/api/client/BaseStandardApiClient.java | 4 +-
.../client/api/client/CollectionsApiClient.java | 14 +
.../client/api/client/CountingFileRequestBody.java | 43 +-
.../client/api/client/CountingRequestBody.java | 52 ++
.../api/client/CountingStreamRequestBody.java | 47 ++
.../client/api/client/KeepServerApiClient.java | 2 +-
.../client/api/client/KeepWebApiClient.java | 36 ++
.../client/api/model/CollectionReplaceFiles.java | 70 +++
.../client/config/ExternalConfigProvider.java | 30 +-
.../org/arvados/client/facade/ArvadosFacade.java | 16 +
.../arvados/client/logic/keep/FileDownloader.java | 33 ++
.../api/client/CollectionsApiClientTest.java | 67 ++-
.../client/api/client/KeepWebApiClientTest.java | 44 +-
.../facade/ArvadosFacadeIntegrationTest.java | 3 +
.../client/logic/keep/FileDownloaderTest.java | 43 +-
sdk/python/arvados/__init__.py | 19 +-
sdk/python/arvados/arvfile.py | 43 +-
sdk/python/arvados/commands/_util.py | 99 +++-
sdk/python/arvados/commands/keepdocker.py | 50 +-
sdk/python/arvados/diskcache.py | 129 ++---
sdk/python/arvados/keep.py | 90 ++--
.../data/hello-world-ManifestV2-OCILayout.tar | Bin 24064 -> 25600 bytes
.../python/tests/data/hello-world-ManifestV2.tar | Bin 24064 -> 23040 bytes
sdk/python/tests/data/hello-world-README.txt | 25 +
sdk/python/tests/test_arv_keepdocker.py | 36 +-
sdk/python/tests/test_arvfile.py | 1 +
sdk/python/tests/test_cmd_util.py | 194 +++++++
sdk/python/tests/test_keep_client.py | 166 ++----
sdk/python/tests/test_storage_classes.py | 128 +++++
sdk/ruby/arvados.gemspec | 2 +-
.../api/app/models/api_client_authorization.rb | 17 +-
services/api/app/models/collection.rb | 12 +-
services/api/app/models/container_request.rb | 5 +-
services/api/app/models/user.rb | 109 +++-
.../admin_notifier/new_inactive_user.text.erb | 9 +-
.../api/app/views/admin_notifier/new_user.text.erb | 16 +-
.../views/user_notifier/account_is_setup.text.erb | 2 +-
services/api/test/fixtures/collections.yml | 45 ++
services/api/test/fixtures/groups.yml | 11 +
.../functional/arvados/v1/users_controller_test.rb | 31 ++
services/api/test/integration/remote_user_test.rb | 96 +++-
services/api/test/unit/user_test.rb | 10 +-
services/fuse/arvados_fuse/__init__.py | 555 +++++++++++++++------
services/fuse/arvados_fuse/command.py | 453 +++++++++++++----
services/fuse/arvados_fuse/fresh.py | 15 +-
services/fuse/arvados_fuse/fusedir.py | 471 +++++++++++------
services/fuse/arvados_fuse/fusefile.py | 13 +
services/fuse/arvados_fuse/unmount.py | 10 +
services/fuse/setup.py | 2 +-
services/fuse/tests/integration_test.py | 2 +-
services/fuse/tests/mount_test_base.py | 23 +-
services/fuse/tests/test_inodes.py | 37 +-
services/fuse/tests/test_mount.py | 14 +-
services/fuse/tests/test_mount_filters.py | 223 +++++++++
services/fuse/tests/test_unmount.py | 4 +-
services/keep-balance/balance_run_test.go | 34 ++
services/keep-balance/metrics.go | 89 +++-
services/keep-web/handler_test.go | 45 +-
services/keep-web/server_test.go | 2 +-
services/keepstore/handler_test.go | 33 +-
services/keepstore/handlers.go | 19 +-
services/keepstore/s3aws_volume.go | 18 +-
services/ws/session_v0_test.go | 35 ++
tools/arvbox/bin/arvbox | 8 +
tools/compute-images/scripts/base.sh | 2 +-
...nsure-encrypted-partitions-aws-ebs-autoscale.sh | 18 +-
.../usr-local-bin-ensure-encrypted-partitions.sh | 16 +-
tools/user-activity/arvados_user_activity/main.py | 4 +-
133 files changed, 4296 insertions(+), 1271 deletions(-)
create mode 100644 doc/_includes/_hpc_max_gateway_tunnels.liquid
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
copy sdk/cwl/tests/oom/{19975-oom.cwl => 19975-oom-mispelled.cwl} (86%)
create mode 100644 sdk/java-v2/src/main/java/org/arvados/client/api/client/CountingRequestBody.java
create mode 100644 sdk/java-v2/src/main/java/org/arvados/client/api/client/CountingStreamRequestBody.java
create mode 100644 sdk/java-v2/src/main/java/org/arvados/client/api/model/CollectionReplaceFiles.java
copy lib/diagnostics/hello-world.tar => sdk/python/tests/data/hello-world-ManifestV2-OCILayout.tar (70%)
copy lib/diagnostics/hello-world.tar => sdk/python/tests/data/hello-world-ManifestV2.tar (76%)
create mode 100644 sdk/python/tests/data/hello-world-README.txt
create mode 100644 sdk/python/tests/test_cmd_util.py
create mode 100644 sdk/python/tests/test_storage_classes.py
create mode 100644 services/fuse/tests/test_mount_filters.py
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