[ARVADOS] updated: adea7dcb58e33e4667ae228845b6a4c1bfb920f0
git at public.curoverse.com
git at public.curoverse.com
Tue Mar 11 16:26:07 EDT 2014
Summary of changes:
doc/README | 28 +++++
doc/Rakefile | 9 ++
doc/_config.yml | 22 +++-
doc/_includes/_run_md5sum_py.liquid | 33 ++----
doc/_includes/_tutorial_hash_script_py.liquid | 72 ++++-------
doc/_includes/_webring.liquid | 29 +++++
doc/_layouts/default.html.liquid | 8 +-
doc/admin/cheat_sheet.html.textile.liquid | 2 +-
doc/api/authentication.html.textile.liquid | 2 +-
doc/api/index.html.textile.liquid | 2 +-
doc/api/methods.html.textile.liquid | 2 +-
.../api_client_authorizations.html.textile.liquid | 2 +-
doc/api/methods/api_clients.html.textile.liquid | 2 +-
.../methods/authorized_keys.html.textile.liquid | 2 +-
doc/api/methods/collections.html.textile.liquid | 2 +-
doc/api/methods/groups.html.textile.liquid | 2 +-
doc/api/methods/humans.html.textile.liquid | 2 +-
doc/api/methods/job_tasks.html.textile.liquid | 2 +-
doc/api/methods/jobs.html.textile.liquid | 2 +-
doc/api/methods/keep_disks.html.textile.liquid | 2 +-
doc/api/methods/links.html.textile.liquid | 2 +-
doc/api/methods/logs.html.textile.liquid | 2 +-
doc/api/methods/nodes.html.textile.liquid | 2 +-
.../methods/pipeline_instances.html.textile.liquid | 2 +-
.../methods/pipeline_templates.html.textile.liquid | 2 +-
doc/api/methods/repositories.html.textile.liquid | 2 +-
doc/api/methods/specimens.html.textile.liquid | 2 +-
doc/api/methods/traits.html.textile.liquid | 2 +-
doc/api/methods/users.html.textile.liquid | 2 +-
.../methods/virtual_machines.html.textile.liquid | 2 +-
doc/api/permission-model.html.textile.liquid | 2 +-
doc/api/resources.html.textile.liquid | 2 +-
doc/api/schema/ApiClient.html.textile.liquid | 2 +-
.../ApiClientAuthorization.html.textile.liquid | 2 +-
doc/api/schema/AuthorizedKey.html.textile.liquid | 2 +-
doc/api/schema/Collection.html.textile.liquid | 2 +-
doc/api/schema/Commit.html.textile.liquid | 2 +-
doc/api/schema/CommitAncestor.html.textile.liquid | 2 +-
doc/api/schema/Group.html.textile.liquid | 2 +-
doc/api/schema/Human.html.textile.liquid | 2 +-
doc/api/schema/Job.html.textile.liquid | 2 +-
doc/api/schema/JobTask.html.textile.liquid | 2 +-
doc/api/schema/KeepDisk.html.textile.liquid | 2 +-
doc/api/schema/Link.html.textile.liquid | 2 +-
doc/api/schema/Log.html.textile.liquid | 2 +-
doc/api/schema/Node.html.textile.liquid | 2 +-
.../schema/PipelineInstance.html.textile.liquid | 2 +-
.../schema/PipelineTemplate.html.textile.liquid | 2 +-
doc/api/schema/Repository.html.textile.liquid | 2 +-
doc/api/schema/Specimen.html.textile.liquid | 2 +-
doc/api/schema/Trait.html.textile.liquid | 2 +-
doc/api/schema/User.html.textile.liquid | 2 +-
doc/api/schema/VirtualMachine.html.textile.liquid | 2 +-
doc/css/code.css | 27 ++++
doc/css/nav-list.css | 4 +
doc/index.html.liquid | 10 +-
doc/install/client.html.textile.liquid | 2 +-
.../create-standard-objects.html.textile.liquid | 2 +-
.../install-crunch-dispatch.html.textile.liquid | 2 +-
doc/sdk/index.html.textile.liquid | 5 +-
.../crunch-utility-libraries.html.textile.liquid | 2 -
doc/sdk/python/sdk-python.html.textile.liquid | 2 -
.../examples/crunch-examples.html.textile.liquid | 4 -
.../check-environment.html.textile.liquid | 6 -
.../getting_started/community.html.textile.liquid | 4 -
.../getting_started/ssh-access.html.textile.liquid | 9 +-
.../getting_started/workbench.html.textile.liquid | 7 +-
doc/user/index.html.textile.liquid | 18 ++--
doc/user/reference/api-tokens.html.textile.liquid | 6 +-
doc/user/reference/sdk-cli.html.textile.liquid | 3 -
doc/user/topics/keep.html.textile.liquid | 48 +++++++
...nning-pipeline-command-line.html.textile.liquid | 119 ++++++++++++++++++
...rial-gatk-variantfiltration.html.textile.liquid | 6 +-
.../tutorial-job-debug.html.textile.liquid | 17 +--
.../tutorial-job1.html.textile.liquid | 46 +++-----
.../tutorial-parallel.html.textile.liquid | 19 +--
.../tutorial-trait-search.html.textile.liquid | 4 -
.../tutorials/intro-crunch.html.textile.liquid | 17 +++
.../running-external-program.html.textile.liquid | 46 +++----
.../tutorial-firstscript.html.textile.liquid | 72 ++++++-----
.../tutorials/tutorial-keep.html.textile.liquid | 95 +++++++++------
.../tutorial-new-pipeline.html.textile.liquid | 129 ++++----------------
...tutorial-pipeline-workbench.html.textile.liquid | 25 ++++
doc/zenweb-liquid.rb | 33 +++++-
84 files changed, 630 insertions(+), 452 deletions(-)
create mode 100644 doc/README
create mode 100644 doc/_includes/_webring.liquid
create mode 100644 doc/css/code.css
create mode 100644 doc/user/topics/keep.html.textile.liquid
create mode 100644 doc/user/topics/running-pipeline-command-line.html.textile.liquid
rename doc/user/{tutorials => topics}/tutorial-gatk-variantfiltration.html.textile.liquid (98%)
rename doc/user/{tutorials => topics}/tutorial-job-debug.html.textile.liquid (95%)
rename doc/user/{tutorials => topics}/tutorial-job1.html.textile.liquid (74%)
rename doc/user/{tutorials => topics}/tutorial-parallel.html.textile.liquid (71%)
rename doc/user/{tutorials => topics}/tutorial-trait-search.html.textile.liquid (99%)
create mode 100644 doc/user/tutorials/intro-crunch.html.textile.liquid
create mode 100644 doc/user/tutorials/tutorial-pipeline-workbench.html.textile.liquid
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commit adea7dcb58e33e4667ae228845b6a4c1bfb920f0
Merge: e4f96fc 3cb88fb
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date: Tue Mar 11 16:27:22 2014 -0400
Merge branch 'master' of git.clinicalfuture.com:arvados
# Please enter a commit message to explain why this merge is necessary,
# especially if it merges an updated upstream into a topic branch.
#
# Lines starting with '#' will be ignored, and an empty message aborts
# the commit.
commit e4f96fc61cd9c85f91bdb0020bc365f2f4825ffb
Merge: d719c22 927d11b
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date: Tue Mar 11 16:26:59 2014 -0400
Merge branch '2107-update-documentation'
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