[ARVADOS] updated: 110b7d2f628aa9b60fc2beecb66ead15cc60660f
Git user
git at public.curoverse.com
Fri Jun 16 13:12:55 EDT 2017
Summary of changes:
.licenseignore | 46 +++
.../workbench/app/controllers/search_controller.rb | 2 +
apps/workbench/app/models/arvados_base.rb | 4 +
apps/workbench/app/models/arvados_resource_list.rb | 5 +
.../views/trash_items/_show_recent_trash.html.erb | 2 +-
.../views/trash_items/_show_trash_rows.html.erb | 4 +-
.../app/views/trash_items/_untrash_item.html.erb | 2 +-
.../test/controllers/search_controller_test.rb | 23 ++
apps/workbench/test/integration/trash_test.rb | 14 +-
build/check-copyright-notices | 201 ++++++++++++
build/{libcloud-pin => libcloud-pin.sh} | 0
build/run-build-packages-python-and-ruby.sh | 2 +-
build/run-build-packages.sh | 2 +-
build/run-tests.sh | 9 +-
doc/start/index.html.textile.liquid.bkup | 50 ---
sdk/cli/bin/crunch-job | 8 +-
sdk/cwl/arvados_cwl/arvjob.py | 3 +-
sdk/cwl/test_with_arvbox.sh | 14 +-
sdk/cwl/tests/test_job.py | 3 +-
.../arvados/v1/collections_controller.rb | 12 +-
.../controllers/arvados/v1/groups_controller.rb | 3 +
.../arvados/v1/repositories_controller.rb | 17 +-
.../app/controllers/arvados/v1/users_controller.rb | 12 +-
services/api/app/models/arvados_model.rb | 3 +-
services/api/app/models/job.rb | 29 +-
services/api/app/models/node.rb | 29 +-
services/api/app/models/user.rb | 66 ++--
services/api/lib/can_be_an_owner.rb | 42 +--
services/api/test/fixtures/jobs.yml | 19 ++
.../arvados/v1/collections_controller_test.rb | 23 ++
.../arvados/v1/job_reuse_controller_test.rb | 20 ++
.../arvados/v1/schema_controller_test.rb | 34 ++
.../functional/arvados/v1/users_controller_test.rb | 18 ++
services/api/test/unit/node_test.rb | 21 +-
services/api/test/unit/user_test.rb | 17 +-
services/keep-web/cache.go | 258 +++++++++++++++
services/keep-web/cache_test.go | 104 ++++++
services/keep-web/handler.go | 23 +-
services/keep-web/handler_test.go | 8 +-
services/keep-web/main.go | 10 +
services/keep-web/server_test.go | 14 +-
services/keep-web/status_test.go | 46 +++
services/keep-web/usage.go | 20 ++
.../nodemanager/arvnodeman/computenode/__init__.py | 85 +++--
.../arvnodeman/computenode/dispatch/__init__.py | 65 ++--
.../arvnodeman/computenode/dispatch/slurm.py | 6 +-
.../arvnodeman/computenode/driver/__init__.py | 22 +-
.../arvnodeman/computenode/driver/azure.py | 1 -
services/nodemanager/arvnodeman/config.py | 20 +-
services/nodemanager/arvnodeman/daemon.py | 59 +++-
services/nodemanager/arvnodeman/jobqueue.py | 40 ++-
services/nodemanager/arvnodeman/launcher.py | 13 +-
services/nodemanager/arvnodeman/nodelist.py | 23 +-
.../nodemanager/arvnodeman/test}/__init__.py | 0
.../nodemanager/arvnodeman/test/fake_driver.py | 127 ++++++++
services/nodemanager/arvnodeman/timedcallback.py | 4 +-
services/nodemanager/doc/azure.example.cfg | 2 +
services/nodemanager/doc/ec2.example.cfg | 2 +
services/nodemanager/doc/gce.example.cfg | 2 +
.../azure.example.cfg => tests/fake.cfg.template} | 24 +-
services/nodemanager/tests/integration_test.py | 360 +++++++++++++++++++++
.../nodemanager/tests/test_computenode_dispatch.py | 22 +-
.../tests/test_computenode_dispatch_slurm.py | 8 +-
.../tests/test_computenode_driver_azure.py | 13 -
.../tests/test_computenode_driver_ec2.py | 13 -
services/nodemanager/tests/test_daemon.py | 26 +-
services/nodemanager/tests/test_jobqueue.py | 8 +-
tools/arvbox/bin/arvbox | 2 +-
tools/arvbox/lib/arvbox/docker/Dockerfile.base | 3 +-
69 files changed, 1824 insertions(+), 368 deletions(-)
create mode 100644 .licenseignore
create mode 100755 build/check-copyright-notices
rename build/{libcloud-pin => libcloud-pin.sh} (100%)
delete mode 100644 doc/start/index.html.textile.liquid.bkup
create mode 100644 services/keep-web/cache.go
create mode 100644 services/keep-web/cache_test.go
create mode 100644 services/keep-web/status_test.go
copy {sdk/cwl/tests => services/nodemanager/arvnodeman/test}/__init__.py (100%)
create mode 100644 services/nodemanager/arvnodeman/test/fake_driver.py
copy services/nodemanager/{doc/azure.example.cfg => tests/fake.cfg.template} (95%)
create mode 100755 services/nodemanager/tests/integration_test.py
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commit 110b7d2f628aa9b60fc2beecb66ead15cc60660f
Author: Lucas Di Pentima <lucas at curoverse.com>
Date: Fri Jun 16 14:12:16 2017 -0300
11557: Fixed the way that can_read permission link is created. Updated test.
Arvados-DCO-1.1-Signed-off-by: Lucas Di Pentima <lucas at curoverse.com>
diff --git a/sdk/cwl/arvados_cwl/arvjob.py b/sdk/cwl/arvados_cwl/arvjob.py
index 346d3e1..ef9aba5 100644
--- a/sdk/cwl/arvados_cwl/arvjob.py
+++ b/sdk/cwl/arvados_cwl/arvjob.py
@@ -148,7 +148,8 @@ class ArvadosJob(object):
# Give read permission to the desired project on reused jobs
if response["owner_uuid"] != self.arvrunner.project_uuid:
self.arvrunner.api.links().create(body={
- 'link_class': 'can_read',
+ 'link_class': 'permission',
+ 'name': 'can_read',
'tail_uuid': self.arvrunner.project_uuid,
'head_uuid': response["uuid"],
}).execute(num_retries=self.arvrunner.num_retries)
diff --git a/sdk/cwl/tests/test_job.py b/sdk/cwl/tests/test_job.py
index 5cd7f2a..fa043ba 100644
--- a/sdk/cwl/tests/test_job.py
+++ b/sdk/cwl/tests/test_job.py
@@ -86,7 +86,8 @@ class TestJob(unittest.TestCase):
if enable_reuse:
runner.api.links().create.assert_called_with(
body=JsonDiffMatcher({
- 'link_class': 'can_read',
+ 'link_class': 'permission',
+ 'name': 'can_read',
"tail_uuid": "zzzzz-8i9sb-zzzzzzzzzzzzzzz",
"head_uuid": "zzzzz-819sb-yyyyyyyyyyyyyyy",
})
commit e2a4e065951ea459570ae75dbe2ed4fd4b6d4bd8
Merge: 405d634 b89fda1
Author: Lucas Di Pentima <lucas at curoverse.com>
Date: Fri Jun 16 13:34:13 2017 -0300
11557: Merge branch 'master' into 11557-acr-output-col-perms
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