[ARVADOS] updated: 5d00ecb0932f86e4d2aced3d9258b96522ef38bd
Git user
git at public.curoverse.com
Mon May 1 13:32:36 EDT 2017
Summary of changes:
.../controllers/container_requests_controller.rb | 27 +-
apps/workbench/app/helpers/provenance_helper.rb | 48 ++
.../_show_provenance.html.erb | 4 +-
.../container_requests_controller_test.rb | 21 +
.../test/integration/container_requests_test.rb | 12 +
doc/install/migrate-docker19.html.textile.liquid | 9 +-
sdk/cwl/arvados_cwl/arvcontainer.py | 62 +-
sdk/cwl/arvados_cwl/arvjob.py | 8 +-
sdk/cwl/arvados_cwl/arvworkflow.py | 5 +-
sdk/cwl/arvados_cwl/crunch_script.py | 3 +-
sdk/cwl/arvados_cwl/pathmapper.py | 16 +
sdk/cwl/arvados_cwl/runner.py | 18 +-
sdk/cwl/tests/test_container.py | 84 +++
sdk/go/arvadosclient/arvadosclient_test.go | 7 +-
sdk/go/keepclient/discover.go | 15 +-
sdk/go/keepclient/keepclient.go | 22 +-
sdk/go/keepclient/keepclient_test.go | 20 +-
sdk/go/keepclient/support.go | 98 +--
sdk/python/tests/run_test_server.py | 5 +-
sdk/ruby/lib/arvados.rb | 23 +-
sdk/ruby/lib/arvados/keep.rb | 6 +-
services/api/.gitignore | 3 +-
services/api/Gemfile | 53 +-
services/api/Gemfile.lock | 279 ++++----
services/api/Rakefile | 6 -
.../api/app/controllers/application_controller.rb | 14 +-
.../app/controllers/arvados/v1/nodes_controller.rb | 6 +-
.../controllers/arvados/v1/schema_controller.rb | 7 +-
.../app/controllers/arvados/v1/users_controller.rb | 2 +-
.../api/app/controllers/database_controller.rb | 4 +-
.../app/controllers/user_sessions_controller.rb | 3 +-
.../api/app/models/api_client_authorization.rb | 8 +-
services/api/app/models/arvados_model.rb | 99 ++-
services/api/app/models/collection.rb | 2 +-
services/api/app/models/link.rb | 5 -
services/api/app/models/log.rb | 2 +-
services/api/app/models/user.rb | 8 +-
services/api/app/models/virtual_machine.rb | 6 +-
services/api/config/application.default.yml | 36 +-
services/api/config/application.rb | 29 +-
.../api/config/environments/development.rb.example | 3 -
.../api/config/environments/production.rb.example | 2 +-
services/api/config/environments/test.rb.example | 5 +-
services/api/config/initializers/eventbus.rb | 38 +-
services/api/config/initializers/load_config.rb | 1 +
.../api/config/initializers/noop_deep_munge.rb | 1 +
.../config/initializers/permit_all_parameters.rb | 1 +
services/api/config/initializers/time_format.rb | 2 +
services/api/config/routes.rb | 28 +-
...0170319063406_serialized_columns_accept_null.rb | 5 +
services/api/db/structure.sql | 9 +-
services/api/lib/can_be_an_owner.rb | 2 +-
services/api/lib/create_superuser_token.rb | 4 +-
services/api/lib/eventbus.rb | 358 ----------
services/api/lib/has_uuid.rb | 14 +-
services/api/lib/load_param.rb | 2 +-
services/api/lib/serializers.rb | 6 +
.../api/lib/tasks/delete_old_container_logs.rake | 2 +-
services/api/lib/tasks/delete_old_job_logs.rake | 2 +-
services/api/lib/whitelist_update.rb | 15 +-
services/api/log/.gitkeep | 0
.../arvados/v1/collections_controller_test.rb | 6 +-
.../functional/arvados/v1/users_controller_test.rb | 1 +
.../arvados/v1/virtual_machines_controller_test.rb | 4 +-
.../test/functional/database_controller_test.rb | 2 +-
.../api_client_authorizations_scopes_test.rb | 6 +-
.../api/test/integration/crunch_dispatch_test.rb | 2 +-
.../api/test/integration/database_reset_test.rb | 2 -
services/api/test/integration/errors_test.rb | 2 +-
services/api/test/integration/pipeline_test.rb | 2 +-
.../api/test/integration/reader_tokens_test.rb | 2 +-
services/api/test/integration/websocket_test.rb | 742 ---------------------
services/api/test/test_helper.rb | 26 +-
services/api/test/unit/arvados_model_test.rb | 76 ++-
.../api/test/unit/create_superuser_token_test.rb | 2 +-
services/api/test/unit/job_test.rb | 23 +-
services/api/test/unit/user_test.rb | 12 +-
services/api/test/unit/workflow_test.rb | 8 +-
services/crunch-run/crunchrun.go | 6 +-
services/keep-web/handler.go | 12 +-
services/keep-web/handler_test.go | 29 +
services/keepproxy/keepproxy.go | 118 ++--
services/keepproxy/keepproxy_test.go | 59 +-
services/keepproxy/proxy_client.go | 19 +
tools/keep-exercise/keep-exercise.go | 3 +-
85 files changed, 1079 insertions(+), 1670 deletions(-)
copy apps/workbench/app/views/{jobs => container_requests}/_show_provenance.html.erb (52%)
create mode 100644 services/api/config/initializers/permit_all_parameters.rb
create mode 100644 services/api/db/migrate/20170319063406_serialized_columns_accept_null.rb
delete mode 100644 services/api/lib/eventbus.rb
delete mode 100644 services/api/log/.gitkeep
delete mode 100644 services/api/test/integration/websocket_test.rb
create mode 100644 services/keepproxy/proxy_client.go
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commit 5d00ecb0932f86e4d2aced3d9258b96522ef38bd
Merge: 712968d d2ebb8f
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date: Mon May 1 13:29:49 2017 -0400
Merge branch 'master' into origin-8019-crunchrun-log-throttle
diff --cc services/api/app/controllers/arvados/v1/schema_controller.rb
index 07a581f,11269d2..e1f4ca5
--- a/services/api/app/controllers/arvados/v1/schema_controller.rb
+++ b/services/api/app/controllers/arvados/v1/schema_controller.rb
@@@ -38,13 -38,7 +38,14 @@@ class Arvados::V1::SchemaController < A
blobSignatureTtl: Rails.application.config.blob_signature_ttl,
maxRequestSize: Rails.application.config.max_request_size,
dockerImageFormats: Rails.application.config.docker_image_formats,
+ crunchLogBytesPerEvent: Rails.application.config.crunch_log_bytes_per_event,
+ crunchLogSecondsBetweenEvents: Rails.application.config.crunch_log_seconds_between_events,
+ crunchLogThrottlePeriod: Rails.application.config.crunch_log_throttle_period,
+ crunchLogThrottleBytes: Rails.application.config.crunch_log_throttle_bytes,
+ crunchLogThrottleLines: Rails.application.config.crunch_log_throttle_lines,
+ crunchLimitLogBytesPerJob: Rails.application.config.crunch_limit_log_bytes_per_job,
+ crunchLogPartialLineThrottlePeriod: Rails.application.config.crunch_log_partial_line_throttle_period,
+ websocketUrl: Rails.application.config.websocket_address,
parameters: {
alt: {
type: "string",
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