# baseurl is the location of the generated site from the browser's
# perspective (e.g., http://doc.arvados.org or
-# file:///tmp/arvados/doc/.site). To make docs show up inside
-# workbench, use /doc here and add a symlink at
-# apps/workbench/public/doc pointing to ../../../doc/.site
-# You can also set these on the command line:
-# $ rake generate baseurl=/example arvados_api_host=example.com
+# file:///tmp/arvados/doc/.site). You can also set these on the
+# command line: $ rake generate baseurl=/example
+# arvados_api_host=example.com
baseurl:
current_version:
all_versions:
+latest_version:
arvados_api_host: localhost
arvados_cluster_uuid: local
arvados_workbench_host: http://localhost
+google_analytics: "G-EFLSBXJ5SQ"
+matomo_analytics_url: "https://piwik.arvados.org"
+matomo_analytics_siteid: "3"
exclude: ["Rakefile", "tmp", "vendor"]
- user/index.html.textile.liquid
- user/getting_started/community.html.textile.liquid
- Walkthough:
- - user/tutorials/wgs-tutorial.html.textile.liquid
- - Using Workbench:
- user/getting_started/workbench.html.textile.liquid
- - user/tutorials/tutorial-workflow-workbench.html.textile.liquid
- - user/topics/workbench-migration.html.textile.liquid
+ - user/tutorials/wgs-tutorial.html.textile.liquid
- Working at the Command Line:
- user/getting_started/setup-cli.html.textile.liquid
- user/reference/api-tokens.html.textile.liquid
- user/getting_started/check-environment.html.textile.liquid
- - Access an Arvados virtual machine:
- - user/getting_started/vm-login-with-webshell.html.textile.liquid
- - user/getting_started/ssh-access-unix.html.textile.liquid
- - user/getting_started/ssh-access-windows.html.textile.liquid
- Working with data sets:
+ - user/tutorials/tutorial-projects.html.textile.liquid
- user/tutorials/tutorial-keep.html.textile.liquid
- user/tutorials/tutorial-keep-get.html.textile.liquid
+ - user/tutorials/tutorial-keep-collection-lifecycle.html.textile.liquid
+ - user/topics/arv-copy.html.textile.liquid
- user/tutorials/tutorial-keep-mount-gnu-linux.html.textile.liquid
- user/tutorials/tutorial-keep-mount-os-x.html.textile.liquid
- user/tutorials/tutorial-keep-mount-windows.html.textile.liquid
- - user/tutorials/tutorial-keep-collection-lifecycle.html.textile.liquid
- - user/topics/arv-copy.html.textile.liquid
- user/topics/collection-versioning.html.textile.liquid
- user/topics/storage-classes.html.textile.liquid
- Data Analysis with Workflows:
- - user/cwl/arvados-vscode-training.html.md.liquid
- - user/cwl/rnaseq-cwl-training.html.textile.liquid
+ - user/tutorials/tutorial-workflow-workbench.html.textile.liquid
- user/cwl/cwl-runner.html.textile.liquid
- user/cwl/cwl-run-options.html.textile.liquid
- - user/tutorials/writing-cwl-workflow.html.textile.liquid
+ - user/cwl/crunchstat-summary.html.textile.liquid
+ - user/debugging/container-shell-access.html.textile.liquid
+ - user/cwl/costanalyzer.html.textile.liquid
+ - user/cwl/federated-workflows.html.textile.liquid
+ - Common Workflow Language:
+ - user/cwl/rnaseq-cwl-training.html.textile.liquid
+ - user/cwl/arvados-vscode-training.html.md.liquid
- user/topics/arv-docker.html.textile.liquid
- user/cwl/cwl-style.html.textile.liquid
+ - user/tutorials/writing-cwl-workflow.html.textile.liquid
- user/cwl/cwl-extensions.html.textile.liquid
- - user/cwl/federated-workflows.html.textile.liquid
- user/cwl/cwl-versions.html.textile.liquid
- - user/cwl/crunchstat-summary.html.textile.liquid
- - user/cwl/costanalyzer.html.textile.liquid
- - user/debugging/container-shell-access.html.textile.liquid
- - Working with git repositories:
- - user/tutorials/add-new-repository.html.textile.liquid
- - user/tutorials/git-arvados-guide.html.textile.liquid
+ - Access an Arvados virtual machine:
+ - user/getting_started/vm-login-with-webshell.html.textile.liquid
+ - user/getting_started/ssh-access-unix.html.textile.liquid
+ - user/getting_started/ssh-access-windows.html.textile.liquid
- Reference:
+ - user/topics/workbench-migration.html.textile.liquid
- user/topics/link-accounts.html.textile.liquid
- user/reference/cookbook.html.textile.liquid
- Arvados License:
- sdk/index.html.textile.liquid
- Python:
- sdk/python/sdk-python.html.textile.liquid
- - sdk/python/example.html.textile.liquid
+ - sdk/python/api-client.html.textile.liquid
+ - sdk/python/cookbook.html.textile.liquid
- sdk/python/python.html.textile.liquid
- - sdk/python/arvados-fuse.html.textile.liquid
- sdk/python/arvados-cwl-runner.html.textile.liquid
- - sdk/python/cookbook.html.textile.liquid
- sdk/python/events.html.textile.liquid
- - CLI:
+ - Command line tools (CLI SDK):
- sdk/cli/install.html.textile.liquid
- sdk/cli/index.html.textile.liquid
- sdk/cli/reference.html.textile.liquid
- sdk/cli/subcommands.html.textile.liquid
- - sdk/cli/project-management.html.textile.liquid
+ - FUSE Driver:
+ - sdk/fuse/install.html.textile.liquid
+ - sdk/fuse/options.html.textile.liquid
- Go:
- sdk/go/index.html.textile.liquid
- sdk/go/example.html.textile.liquid
+ - Java:
+ - sdk/java-v2/index.html.textile.liquid
+ - sdk/java-v2/example.html.textile.liquid
+ - sdk/java-v2/javadoc.html.textile.liquid
- R:
- sdk/R/index.html.md
- sdk/R/arvados/index.html.textile.liquid
- Ruby:
- sdk/ruby/index.html.textile.liquid
- sdk/ruby/example.html.textile.liquid
- - Java v2:
- - sdk/java-v2/index.html.textile.liquid
- - sdk/java-v2/example.html.textile.liquid
- - sdk/java-v2/javadoc.html.textile.liquid
api:
- Concepts:
- api/index.html.textile.liquid
- api/methods.html.textile.liquid
- api/resources.html.textile.liquid
- Permission and authentication:
+ - api/methods/users.html.textile.liquid
+ - api/methods/groups.html.textile.liquid
- api/methods/api_client_authorizations.html.textile.liquid
- - api/methods/api_clients.html.textile.liquid
+ - api/methods/links.html.textile.liquid
- api/methods/authorized_keys.html.textile.liquid
- - api/methods/groups.html.textile.liquid
- - api/methods/users.html.textile.liquid
+ - api/methods/api_clients.html.textile.liquid
- api/methods/user_agreements.html.textile.liquid
- - System resources:
- - api/methods/keep_services.html.textile.liquid
- - api/methods/links.html.textile.liquid
- - api/methods/logs.html.textile.liquid
- - api/methods/nodes.html.textile.liquid
- api/methods/virtual_machines.html.textile.liquid
- - api/methods/keep_disks.html.textile.liquid
- Data management:
- api/keep-webdav.html.textile.liquid
- api/keep-s3.html.textile.liquid
- api/projects.html.textile.liquid
- api/properties.html.textile.liquid
- api/methods/collections.html.textile.liquid
- - api/methods/repositories.html.textile.liquid
+ - api/methods/logs.html.textile.liquid
+ - api/methods/keep_services.html.textile.liquid
- Container engine:
- api/methods/container_requests.html.textile.liquid
- api/methods/containers.html.textile.liquid
- api/methods/workflows.html.textile.liquid
- - Management (admin/system):
- api/dispatch.html.textile.liquid
- Jobs engine (legacy):
- api/crunch-scripts.html.textile.liquid
- api/methods/job_tasks.html.textile.liquid
- api/methods/pipeline_instances.html.textile.liquid
- api/methods/pipeline_templates.html.textile.liquid
- - Metadata for bioinformatics (deprecated):
+ - api/methods/nodes.html.textile.liquid
+ - api/methods/repositories.html.textile.liquid
+ - api/methods/keep_disks.html.textile.liquid
+ - Metadata for bioinformatics (legacy):
- api/methods/humans.html.textile.liquid
- api/methods/specimens.html.textile.liquid
- api/methods/traits.html.textile.liquid
- admin/logging.html.textile.liquid
- admin/metrics.html.textile.liquid
- admin/health-checks.html.textile.liquid
+ - admin/inspect.html.textile.liquid
+ - admin/diagnostics.html.textile.liquid
- admin/management-token.html.textile.liquid
- admin/user-activity.html.textile.liquid
- Data Management:
- admin/storage-classes.html.textile.liquid
- admin/keep-recovering-data.html.textile.liquid
- admin/keep-measuring-deduplication.html.textile.liquid
+ - admin/keep-faster-gc-s3.html.textile.liquid
- Cloud:
- admin/spot-instances.html.textile.liquid
- admin/cloudtest.html.textile.liquid
- install/index.html.textile.liquid
- Docker quick start:
- install/arvbox.html.textile.liquid
- - Installation with Salt:
+ - Arvados Installer:
- install/salt-single-host.html.textile.liquid
- install/salt-multi-host.html.textile.liquid
- - Arvados on Kubernetes:
- - install/arvados-on-kubernetes.html.textile.liquid
- - install/arvados-on-kubernetes-minikube.html.textile.liquid
- - install/arvados-on-kubernetes-GKE.html.textile.liquid
+# - Arvados on Kubernetes:
+# - install/arvados-on-kubernetes.html.textile.liquid
+# - install/arvados-on-kubernetes-minikube.html.textile.liquid
+# - install/arvados-on-kubernetes-GKE.html.textile.liquid
- Manual installation:
- install/install-manual-prerequisites.html.textile.liquid
- install/packages.html.textile.liquid
- admin/maintenance-and-upgrading.html.textile.liquid
- Core:
- install/install-api-server.html.textile.liquid
+ - install/diagnostics.html.textile.liquid
- Keep:
- install/install-keepstore.html.textile.liquid
- install/configure-fs-storage.html.textile.liquid
- User interface:
- install/setup-login.html.textile.liquid
- install/install-ws.html.textile.liquid
- - install/install-workbench-app.html.textile.liquid
- install/install-workbench2-app.html.textile.liquid
- - install/install-composer.html.textile.liquid
+ - install/workbench.html.textile.liquid
+# - install/install-composer.html.textile.liquid
- Additional services:
- install/install-shell-server.html.textile.liquid
- install/install-webshell.html.textile.liquid
- install/install-arv-git-httpd.html.textile.liquid
- - Containers API (all):
- - install/install-jobs-image.html.textile.liquid
+# - Containers API (all):
+# - install/install-jobs-image.html.textile.liquid
- Containers API (cloud):
- install/crunch2-cloud/install-compute-node.html.textile.liquid
- install/crunch2-cloud/install-dispatch-cloud.html.textile.liquid
projects / arvados.git / blobdiff