[ARVADOS] updated: bdb92619b5f6d920119b8c32c3027cf4b751ed16
Git user
git at public.curoverse.com
Sun Dec 11 01:00:07 EST 2016
Summary of changes:
README.md | 1 +
.../app/controllers/work_units_controller.rb | 14 +-
apps/workbench/app/models/proxy_work_unit.rb | 6 +-
.../views/container_requests/_show_inputs.html.erb | 36 +-
.../pipeline_instances/_running_component.html.erb | 2 +-
.../_show_components_running.html.erb | 2 +-
.../test/integration/container_requests_test.rb | 13 +
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 -
doc/_config.yml | 8 +-
doc/_includes/_arvados_cwl_runner.liquid | 62 ++
doc/_includes/_register_cwl_workflow.liquid | 21 +
doc/_includes/_what_is_cwl.liquid | 1 +
doc/user/cwl/cwl-runner.html.textile.liquid | 99 +--
doc/user/topics/arv-copy.html.textile.liquid | 3 +
...nning-workflow-command-line.html.textile.liquid | 17 +
...tutorial-pipeline-workbench.html.textile.liquid | 35 -
...tutorial-workflow-workbench.html.textile.liquid | 27 +
.../writing-cwl-workflow.html.textile.liquid | 28 +
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 +
.../crunch-dispatch-slurm/crunch-dispatch-slurm.go | 14 +-
.../crunch-dispatch-slurm_test.go | 5 +-
services/crunch-dispatch-slurm/squeue.go | 42 +-
services/crunch-run/crunchrun.go | 3 +
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/keep-balance/balance.go | 2 +-
services/keepstore/s3_volume_test.go | 117 ++-
services/nodemanager/arvnodeman/_version.py | 3 +
.../arvnodeman/computenode/driver/gce.py | 3 +-
services/nodemanager/arvnodeman/launcher.py | 5 +
services/nodemanager/setup.py | 1 +
services/nodemanager/tests/test_arguments.py | 27 +
services/nodemanager/tests/testutil.py | 17 +-
86 files changed, 985 insertions(+), 5197 deletions(-)
create mode 100644 doc/_includes/_arvados_cwl_runner.liquid
create mode 100644 doc/_includes/_register_cwl_workflow.liquid
create mode 100644 doc/_includes/_what_is_cwl.liquid
create mode 100644 doc/user/topics/running-workflow-command-line.html.textile.liquid
delete mode 100644 doc/user/tutorials/tutorial-pipeline-workbench.html.textile.liquid
create mode 100644 doc/user/tutorials/tutorial-workflow-workbench.html.textile.liquid
create mode 100644 doc/user/tutorials/writing-cwl-workflow.html.textile.liquid
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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Those revisions listed above that are new to this repository have
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commit bdb92619b5f6d920119b8c32c3027cf4b751ed16
Merge: 5d843ab 4a71cc8
Author: Tom Clegg <tom at curoverse.com>
Date: Sun Dec 11 00:59:55 2016 -0500
8460: Merge branch 'master' into 8460-websocket-go
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