X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/907d851d91a5ba8071e13f9ea4bf3608d7fe5723..b4ebaa2edbd67c695ea23f89e74c946b7f4eb221:/doc/_config.yml

diff --git a/doc/_config.yml b/doc/_config.yml
index d2bb7e7975..cbb082aefb 100644
--- a/doc/_config.yml
+++ b/doc/_config.yml
@@ -25,47 +25,45 @@ navbar:
       - 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:
@@ -78,17 +76,18 @@ navbar:
       - 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:
       - 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
     - Go:
       - sdk/go/index.html.textile.liquid
       - sdk/go/example.html.textile.liquid
@@ -102,9 +101,6 @@ navbar:
       - sdk/java-v2/index.html.textile.liquid
       - sdk/java-v2/example.html.textile.liquid
       - sdk/java-v2/javadoc.html.textile.liquid
-    - Perl:
-      - sdk/perl/index.html.textile.liquid
-      - sdk/perl/example.html.textile.liquid
   api:
     - Concepts:
       - api/index.html.textile.liquid
@@ -113,31 +109,27 @@ navbar:
       - 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/keep-web-urls.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
@@ -145,7 +137,10 @@ navbar:
       - 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
@@ -161,6 +156,7 @@ navbar:
     - Computation with Crunch:
       - api/execution.html.textile.liquid
       - architecture/dispatchcloud.html.textile.liquid
+      - architecture/hpc.html.textile.liquid
       - architecture/singularity.html.textile.liquid
     - Other:
       - api/permission-model.html.textile.liquid
@@ -171,21 +167,23 @@ navbar:
     - Users and Groups:
       - admin/user-management.html.textile.liquid
       - admin/user-management-cli.html.textile.liquid
+      - admin/group-management.html.textile.liquid
       - admin/reassign-ownership.html.textile.liquid
       - admin/link-accounts.html.textile.liquid
-      - admin/group-management.html.textile.liquid
       - admin/federation.html.textile.liquid
       - admin/merge-remote-account.html.textile.liquid
       - admin/migrating-providers.html.textile.liquid
       - user/topics/arvados-sync-external-sources.html.textile.liquid
       - admin/scoped-tokens.html.textile.liquid
       - admin/token-expiration-policy.html.textile.liquid
-      - admin/user-activity.html.textile.liquid
     - Monitoring:
       - 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/collection-versioning.html.textile.liquid
       - admin/collection-managed-properties.html.textile.liquid
@@ -208,13 +206,13 @@ navbar:
       - 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
@@ -227,6 +225,7 @@ navbar:
       - 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
@@ -240,13 +239,14 @@ navbar:
       - 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