[ARVADOS] updated: 54a93a3d686fc0774c800a95a19ef063a488cffb
Git user
git at public.curoverse.com
Wed Dec 14 11:04:57 EST 2016
Summary of changes:
README.md | 1 +
.../app/controllers/work_units_controller.rb | 14 +-
apps/workbench/app/models/proxy_work_unit.rb | 6 +-
.../pipeline_instances/_running_component.html.erb | 2 +-
.../_show_components_running.html.erb | 2 +-
.../test/diagnostics/container_request_test.rb | 5 +
apps/workbench/test/integration/work_units_test.rb | 8 +-
build/run-build-packages-one-target.sh | 1 -
build/run-build-packages.sh | 8 +-
build/run-tests.sh | 4 -
sdk/cli/bin/crunch-job | 6 +-
sdk/cli/test/test_arv-keep-get.rb | 8 +
sdk/cwl/arvados_cwl/__init__.py | 22 +-
sdk/cwl/arvados_cwl/arvjob.py | 8 +-
sdk/cwl/arvados_cwl/arvworkflow.py | 9 +-
sdk/cwl/arvados_cwl/runner.py | 8 +-
sdk/cwl/setup.py | 3 +-
sdk/cwl/tests/test_submit.py | 209 ++++-
sdk/go/logger/logger.go | 204 -----
sdk/go/logger/util.go | 20 -
sdk/go/util/util.go | 34 -
sdk/python/arvados/_version.py | 3 +
sdk/python/arvados/commands/arv_copy.py | 4 +
sdk/python/arvados/commands/keepdocker.py | 5 +
sdk/python/arvados/commands/ls.py | 6 +
sdk/python/arvados/commands/put.py | 4 +
sdk/python/arvados/commands/run.py | 36 +-
sdk/python/arvados/commands/ws.py | 4 +
sdk/python/bin/arv-get | 5 +
sdk/python/bin/arv-normalize | 14 +-
sdk/python/setup.py | 1 +
sdk/python/tests/arvados_testutil.py | 13 +
sdk/python/tests/test_arv_copy.py | 29 +
sdk/python/tests/test_arv_keepdocker.py | 30 +
sdk/python/tests/test_arv_ls.py | 15 +-
sdk/python/tests/test_arv_normalize.py | 27 +
sdk/python/tests/test_arv_put.py | 10 +
sdk/python/tests/test_arv_run.py | 29 +
sdk/python/tests/test_arv_ws.py | 15 +
services/api/test/fixtures/pipeline_templates.yml | 22 +
services/api/test/fixtures/workflows.yml | 19 +
services/datamanager/collection/collection.go | 408 ----------
services/datamanager/collection/collection_test.go | 202 -----
services/datamanager/collection/testing.go | 61 --
services/datamanager/datamanager.go | 220 -----
services/datamanager/datamanager_test.go | 732 -----------------
services/datamanager/experimental/datamanager.py | 887 ---------------------
.../datamanager/experimental/datamanager_test.py | 41 -
services/datamanager/keep/keep.go | 551 -------------
services/datamanager/keep/keep_test.go | 278 -------
services/datamanager/loggerutil/loggerutil.go | 52 --
services/datamanager/summary/canonical_string.go | 30 -
services/datamanager/summary/file.go | 115 ---
services/datamanager/summary/pull_list.go | 215 -----
services/datamanager/summary/pull_list_test.go | 272 -------
services/datamanager/summary/summary.go | 277 -------
services/datamanager/summary/summary_test.go | 220 -----
services/datamanager/summary/trash_list.go | 62 --
services/datamanager/summary/trash_list_test.go | 76 --
services/fuse/arvados_fuse/_version.py | 3 +
services/fuse/arvados_fuse/command.py | 4 +
services/fuse/setup.py | 3 +-
services/fuse/tests/test_command_args.py | 16 +
services/keepstore/s3_volume_test.go | 117 ++-
services/nodemanager/arvnodeman/_version.py | 3 +
.../arvnodeman/computenode/driver/gce.py | 3 +-
services/nodemanager/arvnodeman/launcher.py | 10 +-
services/nodemanager/setup.py | 1 +
services/nodemanager/tests/test_arguments.py | 27 +
services/nodemanager/tests/testutil.py | 17 +-
70 files changed, 734 insertions(+), 5042 deletions(-)
delete mode 100644 sdk/go/logger/logger.go
delete mode 100644 sdk/go/logger/util.go
delete mode 100644 sdk/go/util/util.go
create mode 100644 sdk/python/arvados/_version.py
create mode 100644 sdk/python/tests/test_arv_copy.py
create mode 100644 sdk/python/tests/test_arv_keepdocker.py
create mode 100644 sdk/python/tests/test_arv_normalize.py
create mode 100644 sdk/python/tests/test_arv_run.py
delete mode 100644 services/datamanager/collection/collection.go
delete mode 100644 services/datamanager/collection/collection_test.go
delete mode 100644 services/datamanager/collection/testing.go
delete mode 100644 services/datamanager/datamanager.go
delete mode 100644 services/datamanager/datamanager_test.go
delete mode 100755 services/datamanager/experimental/datamanager.py
delete mode 100755 services/datamanager/experimental/datamanager_test.py
delete mode 100644 services/datamanager/keep/keep.go
delete mode 100644 services/datamanager/keep/keep_test.go
delete mode 100644 services/datamanager/loggerutil/loggerutil.go
delete mode 100644 services/datamanager/summary/canonical_string.go
delete mode 100644 services/datamanager/summary/file.go
delete mode 100644 services/datamanager/summary/pull_list.go
delete mode 100644 services/datamanager/summary/pull_list_test.go
delete mode 100644 services/datamanager/summary/summary.go
delete mode 100644 services/datamanager/summary/summary_test.go
delete mode 100644 services/datamanager/summary/trash_list.go
delete mode 100644 services/datamanager/summary/trash_list_test.go
create mode 100644 services/fuse/arvados_fuse/_version.py
create mode 100644 services/nodemanager/arvnodeman/_version.py
create mode 100644 services/nodemanager/tests/test_arguments.py
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commit 54a93a3d686fc0774c800a95a19ef063a488cffb
Author: radhika <radhika at curoverse.com>
Date: Tue Dec 13 00:22:32 2016 -0500
10241: add a comment to the test
diff --git a/apps/workbench/test/diagnostics/container_request_test.rb b/apps/workbench/test/diagnostics/container_request_test.rb
index 3a30df3..fca0cef 100644
--- a/apps/workbench/test/diagnostics/container_request_test.rb
+++ b/apps/workbench/test/diagnostics/container_request_test.rb
@@ -1,5 +1,10 @@
require 'diagnostics_test_helper'
+# This test assumes that the configured workflow_uuid corresponds to a cwl workflow.
+# Ex: configure a workflow using the steps below and use the resulting workflow uuid:
+# > cd arvados/doc/user/cwl/bwa-mem
+# > arvados-cwl-runner --create-workflow bwa-mem.cwl bwa-mem-input.yml
+
class ContainerRequestTest < DiagnosticsTest
crs_to_test = Rails.configuration.container_requests_to_test.andand.keys
commit 4aa9c81cd877ac630439aa2ffba90bc6a810cbf1
Merge: 87e1e14 d070d1e
Author: radhika <radhika at curoverse.com>
Date: Mon Dec 12 22:40:11 2016 -0500
Merge branch 'master' into 10241-container-diagnostics-test
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