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10346: Checkpoint
[arvados.git] / doc / _config.yml
diff --git a/doc/_config.yml b/doc/_config.yml
index ba071d5b3c0b928efd6c45484d83a581e31d214d..92b7d38fb67d930724d7c0134f9d7a4e7c12345c 100644 (file)
--- a/doc/_config.yml
+++ b/doc/_config.yml
@@ -43,12 +43,16 @@ navbar:
       - user/tutorials/tutorial-keep-mount.html.textile.liquid
       - user/topics/keep.html.textile.liquid
       - user/topics/arv-copy.html.textile.liquid
-    - Run a pipeline on the command line:
+    - Using Common Workflow Language:
+      - user/cwl/cwl-runner.html.textile.liquid
+      - user/cwl/cwl-style.html.textile.liquid
+    - Working on the command line:
       - user/topics/running-pipeline-command-line.html.textile.liquid
       - user/topics/arv-run.html.textile.liquid
-    - Working with Arvados Repositories:
+    - Working with git repositories:
       - user/tutorials/add-new-repository.html.textile.liquid
-    - Develop a new pipeline:
+      - user/tutorials/git-arvados-guide.html.textile.liquid
+    - Develop an Arvados pipeline:
       - user/tutorials/intro-crunch.html.textile.liquid
       - user/tutorials/running-external-program.html.textile.liquid
       - user/topics/crunch-tools-overview.html.textile.liquid
@@ -93,69 +97,66 @@ navbar:
   api:
     - Concepts:
       - api/index.html.textile.liquid
-      - api/authentication.html.textile.liquid
+      - api/requests.html.textile.liquid
       - api/methods.html.textile.liquid
       - api/resources.html.textile.liquid
-      - api/crunch-scripts.html.textile.liquid
       - api/permission-model.html.textile.liquid
-    - API Methods:
+    - 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/authorized_keys.html.textile.liquid
-      - api/methods/collections.html.textile.liquid
-      - api/methods/groups.html.textile.liquid
-      - api/methods/humans.html.textile.liquid
-      - api/methods/jobs.html.textile.liquid
-      - api/methods/job_tasks.html.textile.liquid
-      - api/methods/keep_disks.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/methods/collections.html.textile.liquid
+      - api/methods/repositories.html.textile.liquid
+    - Container engine:
+      - api/methods/container_requests.html.textile.liquid
+      - api/methods/containers.html.textile.liquid
+      - api/methods/workflows.html.textile.liquid
+    - Jobs engine (deprecated):
+      - api/crunch-scripts.html.textile.liquid
+      - api/methods/jobs.html.textile.liquid
+      - api/methods/job_tasks.html.textile.liquid
       - api/methods/pipeline_instances.html.textile.liquid
       - api/methods/pipeline_templates.html.textile.liquid
-      - api/methods/repositories.html.textile.liquid
+    - Metadata for bioinformatics:
+      - api/methods/humans.html.textile.liquid
       - api/methods/specimens.html.textile.liquid
       - api/methods/traits.html.textile.liquid
-      - api/methods/users.html.textile.liquid
-      - api/methods/virtual_machines.html.textile.liquid
-    - Schema:
-      - api/schema/ApiClientAuthorization.html.textile.liquid
-      - api/schema/ApiClient.html.textile.liquid
-      - api/schema/AuthorizedKey.html.textile.liquid
-      - api/schema/Collection.html.textile.liquid
-      - api/schema/Group.html.textile.liquid
-      - api/schema/Human.html.textile.liquid
-      - api/schema/Job.html.textile.liquid
-      - api/schema/JobTask.html.textile.liquid
-      - api/schema/KeepDisk.html.textile.liquid
-      - api/schema/KeepService.html.textile.liquid
-      - api/schema/Link.html.textile.liquid
-      - api/schema/Log.html.textile.liquid
-      - api/schema/Node.html.textile.liquid
-      - api/schema/PipelineInstance.html.textile.liquid
-      - api/schema/PipelineTemplate.html.textile.liquid
-      - api/schema/Repository.html.textile.liquid
-      - api/schema/Specimen.html.textile.liquid
-      - api/schema/Trait.html.textile.liquid
-      - api/schema/User.html.textile.liquid
-      - api/schema/VirtualMachine.html.textile.liquid
   installguide:
     - Overview:
       - install/index.html.textile.liquid
-    - Docker-based installation:
-      - install/pre-built-docker.html.textile.liquid
-      - install/install-docker.html.textile.liquid
+    - Docker quick start:
+      - install/arvbox.html.textile.liquid
     - Manual installation:
       - install/install-manual-prerequisites.html.textile.liquid
+      - install/install-postgresql.html.textile.liquid
       - install/install-sso.html.textile.liquid
       - install/install-api-server.html.textile.liquid
       - install/install-arv-git-httpd.html.textile.liquid
+      - install/install-workbench-app.html.textile.liquid
+      - install/install-shell-server.html.textile.liquid
+      - install/create-standard-objects.html.textile.liquid
       - install/install-keepstore.html.textile.liquid
+      - install/configure-azure-blob-storage.html.textile.liquid
       - install/install-keepproxy.html.textile.liquid
+      - install/install-keep-web.html.textile.liquid
+    - Install Crunch v2 on SLURM:
+      - install/crunch2-slurm/install-prerequisites.html.textile.liquid
+      - install/crunch2-slurm/install-compute-node.html.textile.liquid
+      - install/crunch2-slurm/install-dispatch.html.textile.liquid
+      - install/crunch2-slurm/install-test.html.textile.liquid
+    - Install Crunch v1:
       - install/install-crunch-dispatch.html.textile.liquid
       - install/install-compute-node.html.textile.liquid
-      - install/install-shell-server.html.textile.liquid
-      - install/create-standard-objects.html.textile.liquid
-      - install/install-workbench-app.html.textile.liquid
+    - Helpful hints:
+      - install/copy_pipeline_from_curoverse.html.textile.liquid
       - install/cheat_sheet.html.textile.liquid