[ARVADOS] updated: 0bbcf2efc3327a51101124e4e92961ed5fa0b73f
Git user
git at public.curoverse.com
Mon Mar 7 00:48:17 EST 2016
Summary of changes:
README | 21 -
README.md | 74 +++
crunch_scripts/crunchrunner | 2 +
doc/_config.yml | 2 +
doc/install/arvbox.html.textile.liquid | 141 ++++++
doc/install/index.html.textile.liquid | 1 +
.../install-crunch-dispatch.html.textile.liquid | 4 +
sdk/cli/bin/crunch-job | 561 ++++++++++++---------
sdk/cli/test/binstub_clean_fail/mount | 2 +-
sdk/cli/test/test_crunch-job.rb | 2 +-
sdk/cwl/arvados_cwl/__init__.py | 152 ++++--
sdk/cwl/setup.py | 4 +-
sdk/cwl/test_with_arvbox.sh | 71 +++
sdk/go/crunchrunner/crunchrunner.go | 17 +
sdk/python/arvados/api.py | 1 +
sdk/python/arvados/commands/arv_copy.py | 92 +++-
services/api/config/application.default.yml | 1 +
services/api/lib/crunch_dispatch.rb | 40 +-
services/api/test/unit/crunch_dispatch_test.rb | 85 ++++
.../crunch-dispatch-local/crunch-dispatch-local.go | 2 +
services/crunch-run/crunchrun.go | 488 ++++++++++++++----
services/crunch-run/crunchrun_test.go | 291 +++++++----
services/crunch-run/logging.go | 11 +-
services/crunch-run/logging_test.go | 20 +-
services/crunch-run/upload.go | 113 ++++-
.../crunch-run}/upload_test.go | 57 ++-
services/datamanager/datamanager.go | 7 +-
tools/arvbox/bin/arvbox | 439 ++++++++++++++++
tools/arvbox/lib/arvbox/docker/Dockerfile.base | 42 ++
tools/arvbox/lib/arvbox/docker/Dockerfile.demo | 17 +
tools/arvbox/lib/arvbox/docker/Dockerfile.dev | 16 +
.../lib/arvbox/docker/application_yml_override.py | 24 +
tools/arvbox/lib/arvbox/docker/common.sh | 62 +++
tools/arvbox/lib/arvbox/docker/createusers.sh | 34 ++
tools/arvbox/lib/arvbox/docker/crunch-setup.sh | 28 +
tools/arvbox/lib/arvbox/docker/fuse.conf | 1 +
.../arvbox/lib/arvbox/docker/gitolite.rc | 44 +-
tools/arvbox/lib/arvbox/docker/keep-setup.sh | 51 ++
tools/arvbox/lib/arvbox/docker/logger | 2 +
.../lib/arvbox/docker/runit-docker/.gitignore | 32 ++
.../arvbox/lib/arvbox/docker/runit-docker/LICENSE | 28 +
.../arvbox/lib/arvbox/docker/runit-docker/Makefile | 18 +
.../lib/arvbox/docker/runit-docker/README.md | 24 +
.../arvbox/docker/runit-docker/debian/changelog | 12 +
.../lib/arvbox/docker/runit-docker/debian/compat | 1 +
.../lib/arvbox/docker/runit-docker/debian/control | 14 +
.../arvbox/docker/runit-docker/debian/copyright | 31 ++
.../lib/arvbox/docker/runit-docker/debian/docs | 1 +
.../lib/arvbox/docker/runit-docker/debian/rules | 32 ++
.../docker/runit-docker/debian/source/format | 1 +
.../lib/arvbox/docker/runit-docker/runit-docker | 4 +
.../lib/arvbox/docker/runit-docker/runit-docker.c | 32 ++
tools/arvbox/lib/arvbox/docker/runsu.sh | 14 +
.../arvbox/docker/service/api/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/api/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/api/run | 1 +
.../lib/arvbox/docker/service/api/run-service | 102 ++++
.../service/arv-git-httpd/log/main/.gitstub} | 0
.../arvbox/docker/service/arv-git-httpd/log/run | 1 +
.../lib/arvbox/docker/service/arv-git-httpd/run | 1 +
.../docker/service/arv-git-httpd/run-service | 27 +
.../crunch-dispatch-local/log/main/.gitstub} | 0
.../docker/service/crunch-dispatch-local/log/run | 1 +
.../docker/service/crunch-dispatch-local/run | 1 +
.../service/crunch-dispatch-local/run-service | 22 +
.../service/crunch-dispatch0/log/main/.gitstub} | 0
.../arvbox/docker/service/crunch-dispatch0/log/run | 1 +
.../lib/arvbox/docker/service/crunch-dispatch0/run | 1 +
.../docker/service/crunch-dispatch0/run-service | 2 +
.../service/crunch-dispatch1/log/main/.gitstub} | 0
.../arvbox/docker/service/crunch-dispatch1/log/run | 1 +
.../lib/arvbox/docker/service/crunch-dispatch1/run | 1 +
.../docker/service/crunch-dispatch1/run-service | 3 +
.../arvbox/docker/service/doc/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/doc/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/doc/run | 1 +
.../lib/arvbox/docker/service/doc/run-service | 44 ++
.../docker/service/docker/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/docker/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/docker/run | 36 +-
.../docker/service/gitolite/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/gitolite/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/gitolite/run | 1 +
.../lib/arvbox/docker/service/gitolite/run-service | 116 +++++
.../docker/service/keep-web/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/keep-web/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/keep-web/run | 1 +
.../lib/arvbox/docker/service/keep-web/run-service | 21 +
.../docker/service/keepproxy/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/keepproxy/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/keepproxy/run | 1 +
.../arvbox/docker/service/keepproxy/run-service | 41 ++
.../docker/service/keepstore0/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/keepstore0/log/run | 1 +
.../lib/arvbox/docker/service/keepstore0/run | 1 +
.../arvbox/docker/service/keepstore0/run-service | 3 +
.../docker/service/keepstore1/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/keepstore1/log/run | 1 +
.../lib/arvbox/docker/service/keepstore1/run | 1 +
.../arvbox/docker/service/keepstore1/run-service | 3 +
.../docker/service/postgres/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/postgres/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/postgres/run | 12 +
.../lib/arvbox/docker/service/postgres/run-service | 14 +
tools/arvbox/lib/arvbox/docker/service/ready/run | 1 +
.../lib/arvbox/docker/service/ready/run-service | 97 ++++
.../arvbox/docker/service/sdk/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/sdk/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/sdk/run | 5 +
.../lib/arvbox/docker/service/sdk/run-service | 28 +
.../docker/service/slurmctld/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/slurmctld/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/slurmctld/run | 31 ++
.../docker/service/slurmd/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/slurmd/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/slurmd/run | 6 +
.../arvbox/docker/service/ssh/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/ssh/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/ssh/run | 10 +
.../arvbox/docker/service/sso/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/sso/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/sso/run | 1 +
.../lib/arvbox/docker/service/sso/run-service | 87 ++++
.../arvbox/docker/service/vm/log/main/.gitstub} | 0
tools/arvbox/lib/arvbox/docker/service/vm/log/run | 1 +
tools/arvbox/lib/arvbox/docker/service/vm/run | 21 +
.../lib/arvbox/docker/service/vm/run-service | 36 ++
.../docker/service/workbench/log/main/.gitstub} | 0
.../lib/arvbox/docker/service/workbench/log/run | 1 +
.../arvbox/lib/arvbox/docker/service/workbench/run | 15 +
.../arvbox/docker/service/workbench/run-service | 40 ++
tools/arvbox/lib/arvbox/docker/waitforpostgres.sh | 4 +
132 files changed, 3535 insertions(+), 590 deletions(-)
delete mode 100644 README
create mode 100644 README.md
create mode 100755 crunch_scripts/crunchrunner
create mode 100644 doc/install/arvbox.html.textile.liquid
create mode 100755 sdk/cwl/test_with_arvbox.sh
copy {sdk/go/crunchrunner => services/crunch-run}/upload_test.go (68%)
create mode 100755 tools/arvbox/bin/arvbox
create mode 100644 tools/arvbox/lib/arvbox/docker/Dockerfile.base
create mode 100644 tools/arvbox/lib/arvbox/docker/Dockerfile.demo
create mode 100644 tools/arvbox/lib/arvbox/docker/Dockerfile.dev
create mode 100755 tools/arvbox/lib/arvbox/docker/application_yml_override.py
create mode 100644 tools/arvbox/lib/arvbox/docker/common.sh
create mode 100755 tools/arvbox/lib/arvbox/docker/createusers.sh
create mode 100755 tools/arvbox/lib/arvbox/docker/crunch-setup.sh
create mode 100644 tools/arvbox/lib/arvbox/docker/fuse.conf
copy docker/api/.gitolite.rc => tools/arvbox/lib/arvbox/docker/gitolite.rc (78%)
create mode 100755 tools/arvbox/lib/arvbox/docker/keep-setup.sh
create mode 100755 tools/arvbox/lib/arvbox/docker/logger
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/.gitignore
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/LICENSE
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/Makefile
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/README.md
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/changelog
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/compat
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/control
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/copyright
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/docs
create mode 100755 tools/arvbox/lib/arvbox/docker/runit-docker/debian/rules
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/debian/source/format
create mode 100755 tools/arvbox/lib/arvbox/docker/runit-docker/runit-docker
create mode 100644 tools/arvbox/lib/arvbox/docker/runit-docker/runit-docker.c
create mode 100755 tools/arvbox/lib/arvbox/docker/runsu.sh
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/api/log/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/arv-git-httpd/log/run
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create mode 100755 tools/arvbox/lib/arvbox/docker/service/arv-git-httpd/run-service
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch-local/log/run
create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch-local/run
create mode 100755 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch-local/run-service
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch0/log/run
create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch0/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch1/log/run
create mode 120000 tools/arvbox/lib/arvbox/docker/service/crunch-dispatch1/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/doc/log/run
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copy tools/{crunchstat-summary/tests/__init__.py => arvbox/lib/arvbox/docker/service/gitolite/log/main/.gitstub} (100%)
create mode 120000 tools/arvbox/lib/arvbox/docker/service/gitolite/log/run
create mode 120000 tools/arvbox/lib/arvbox/docker/service/gitolite/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/keep-web/log/run
create mode 120000 tools/arvbox/lib/arvbox/docker/service/keep-web/run
create mode 100755 tools/arvbox/lib/arvbox/docker/service/keep-web/run-service
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/keepproxy/log/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/ready/run
create mode 100755 tools/arvbox/lib/arvbox/docker/service/ready/run-service
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/sdk/log/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/slurmctld/log/run
create mode 100755 tools/arvbox/lib/arvbox/docker/service/slurmctld/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/slurmd/log/run
create mode 100755 tools/arvbox/lib/arvbox/docker/service/slurmd/run
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create mode 120000 tools/arvbox/lib/arvbox/docker/service/sso/log/run
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commit 0bbcf2efc3327a51101124e4e92961ed5fa0b73f
Merge: cadc05b be191fe
Author: Tom Clegg <tom at curoverse.com>
Date: Mon Mar 7 00:47:26 2016 -0500
8345: Merge branch 'master' into 8345-arvados-fuse-llfuse-0.42
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