1 # Copyright (C) The Arvados Authors. All rights reserved.
3 # SPDX-License-Identifier: CC-BY-SA-3.0
5 # baseurl is the location of the generated site from the browser's
6 # perspective (e.g., http://doc.arvados.org or
7 # file:///tmp/arvados/doc/.site). You can also set these on the
8 # command line: $ rake generate baseurl=/example
9 # arvados_api_host=example.com
14 arvados_api_host: localhost
15 arvados_cluster_uuid: local
16 arvados_workbench_host: http://localhost
18 exclude: ["Rakefile", "tmp", "vendor"]
23 - user/index.html.textile.liquid
24 - user/getting_started/community.html.textile.liquid
26 - user/getting_started/workbench.html.textile.liquid
27 - user/tutorials/wgs-tutorial.html.textile.liquid
28 - Working at the Command Line:
29 - user/getting_started/setup-cli.html.textile.liquid
30 - user/reference/api-tokens.html.textile.liquid
31 - user/getting_started/check-environment.html.textile.liquid
32 - Working with data sets:
33 - user/tutorials/tutorial-projects.html.textile.liquid
34 - user/tutorials/tutorial-keep.html.textile.liquid
35 - user/tutorials/tutorial-keep-get.html.textile.liquid
36 - user/tutorials/tutorial-keep-collection-lifecycle.html.textile.liquid
37 - user/topics/arv-copy.html.textile.liquid
38 - user/tutorials/tutorial-keep-mount-gnu-linux.html.textile.liquid
39 - user/tutorials/tutorial-keep-mount-os-x.html.textile.liquid
40 - user/tutorials/tutorial-keep-mount-windows.html.textile.liquid
41 - user/topics/collection-versioning.html.textile.liquid
42 - user/topics/storage-classes.html.textile.liquid
43 - Data Analysis with Workflows:
44 - user/tutorials/tutorial-workflow-workbench.html.textile.liquid
45 - user/cwl/cwl-runner.html.textile.liquid
46 - user/cwl/cwl-run-options.html.textile.liquid
47 - user/cwl/crunchstat-summary.html.textile.liquid
48 - user/debugging/container-shell-access.html.textile.liquid
49 - user/cwl/costanalyzer.html.textile.liquid
50 - user/cwl/federated-workflows.html.textile.liquid
51 - Common Workflow Language:
52 - user/cwl/rnaseq-cwl-training.html.textile.liquid
53 - user/cwl/arvados-vscode-training.html.md.liquid
54 - user/topics/arv-docker.html.textile.liquid
55 - user/cwl/cwl-style.html.textile.liquid
56 - user/tutorials/writing-cwl-workflow.html.textile.liquid
57 - user/cwl/cwl-extensions.html.textile.liquid
58 - user/cwl/cwl-versions.html.textile.liquid
59 - Access an Arvados virtual machine:
60 - user/getting_started/vm-login-with-webshell.html.textile.liquid
61 - user/getting_started/ssh-access-unix.html.textile.liquid
62 - user/getting_started/ssh-access-windows.html.textile.liquid
64 - user/topics/workbench-migration.html.textile.liquid
65 - user/topics/link-accounts.html.textile.liquid
66 - user/reference/cookbook.html.textile.liquid
68 - user/copying/copying.html.textile.liquid
69 - user/copying/agpl-3.0.html
70 - user/copying/LICENSE-2.0.html
71 - user/copying/by-sa-3.0.html
74 - sdk/index.html.textile.liquid
76 - sdk/python/sdk-python.html.textile.liquid
77 - sdk/python/api-client.html.textile.liquid
78 - sdk/python/cookbook.html.textile.liquid
79 - sdk/python/python.html.textile.liquid
80 - sdk/python/arvados-fuse.html.textile.liquid
81 - sdk/python/arvados-cwl-runner.html.textile.liquid
82 - sdk/python/events.html.textile.liquid
84 - sdk/cli/install.html.textile.liquid
85 - sdk/cli/index.html.textile.liquid
86 - sdk/cli/reference.html.textile.liquid
87 - sdk/cli/subcommands.html.textile.liquid
88 - sdk/cli/project-management.html.textile.liquid
90 - sdk/go/index.html.textile.liquid
91 - sdk/go/example.html.textile.liquid
94 - sdk/R/arvados/index.html.textile.liquid
96 - sdk/ruby/index.html.textile.liquid
97 - sdk/ruby/example.html.textile.liquid
99 - sdk/java-v2/index.html.textile.liquid
100 - sdk/java-v2/example.html.textile.liquid
101 - sdk/java-v2/javadoc.html.textile.liquid
104 - api/index.html.textile.liquid
105 - api/tokens.html.textile.liquid
106 - api/requests.html.textile.liquid
107 - api/methods.html.textile.liquid
108 - api/resources.html.textile.liquid
109 - Permission and authentication:
110 - api/methods/users.html.textile.liquid
111 - api/methods/groups.html.textile.liquid
112 - api/methods/api_client_authorizations.html.textile.liquid
113 - api/methods/links.html.textile.liquid
114 - api/methods/authorized_keys.html.textile.liquid
115 - api/methods/api_clients.html.textile.liquid
116 - api/methods/user_agreements.html.textile.liquid
117 - api/methods/virtual_machines.html.textile.liquid
119 - api/keep-webdav.html.textile.liquid
120 - api/keep-s3.html.textile.liquid
121 - api/keep-web-urls.html.textile.liquid
122 - api/projects.html.textile.liquid
123 - api/properties.html.textile.liquid
124 - api/methods/collections.html.textile.liquid
125 - api/methods/logs.html.textile.liquid
126 - api/methods/keep_services.html.textile.liquid
128 - api/methods/container_requests.html.textile.liquid
129 - api/methods/containers.html.textile.liquid
130 - api/methods/workflows.html.textile.liquid
131 - api/dispatch.html.textile.liquid
132 - Jobs engine (legacy):
133 - api/crunch-scripts.html.textile.liquid
134 - api/methods/jobs.html.textile.liquid
135 - api/methods/job_tasks.html.textile.liquid
136 - api/methods/pipeline_instances.html.textile.liquid
137 - api/methods/pipeline_templates.html.textile.liquid
138 - api/methods/nodes.html.textile.liquid
139 - api/methods/repositories.html.textile.liquid
140 - api/methods/keep_disks.html.textile.liquid
141 - Metadata for bioinformatics (legacy):
142 - api/methods/humans.html.textile.liquid
143 - api/methods/specimens.html.textile.liquid
144 - api/methods/traits.html.textile.liquid
147 - architecture/index.html.textile.liquid
149 - architecture/storage.html.textile.liquid
150 - architecture/keep-components-overview.html.textile.liquid
151 - architecture/keep-clients.html.textile.liquid
152 - architecture/keep-data-lifecycle.html.textile.liquid
153 - architecture/manifest-format.html.textile.liquid
154 - Computation with Crunch:
155 - api/execution.html.textile.liquid
156 - architecture/dispatchcloud.html.textile.liquid
157 - architecture/hpc.html.textile.liquid
158 - architecture/singularity.html.textile.liquid
160 - api/permission-model.html.textile.liquid
161 - architecture/federation.html.textile.liquid
164 - admin/index.html.textile.liquid
166 - admin/user-management.html.textile.liquid
167 - admin/user-management-cli.html.textile.liquid
168 - admin/group-management.html.textile.liquid
169 - admin/reassign-ownership.html.textile.liquid
170 - admin/link-accounts.html.textile.liquid
171 - admin/federation.html.textile.liquid
172 - admin/merge-remote-account.html.textile.liquid
173 - admin/migrating-providers.html.textile.liquid
174 - user/topics/arvados-sync-external-sources.html.textile.liquid
175 - admin/scoped-tokens.html.textile.liquid
176 - admin/token-expiration-policy.html.textile.liquid
178 - admin/logging.html.textile.liquid
179 - admin/metrics.html.textile.liquid
180 - admin/health-checks.html.textile.liquid
181 - admin/inspect.html.textile.liquid
182 - admin/diagnostics.html.textile.liquid
183 - admin/management-token.html.textile.liquid
184 - admin/user-activity.html.textile.liquid
186 - admin/collection-versioning.html.textile.liquid
187 - admin/collection-managed-properties.html.textile.liquid
188 - admin/restricting-upload-download.html.textile.liquid
189 - admin/keep-balance.html.textile.liquid
190 - admin/controlling-container-reuse.html.textile.liquid
191 - admin/logs-table-management.html.textile.liquid
192 - admin/metadata-vocabulary.html.textile.liquid
193 - admin/storage-classes.html.textile.liquid
194 - admin/keep-recovering-data.html.textile.liquid
195 - admin/keep-measuring-deduplication.html.textile.liquid
196 - admin/keep-faster-gc-s3.html.textile.liquid
198 - admin/spot-instances.html.textile.liquid
199 - admin/cloudtest.html.textile.liquid
201 - install/migrate-docker19.html.textile.liquid
202 - admin/upgrade-crunch2.html.textile.liquid
205 - install/index.html.textile.liquid
206 - Docker quick start:
207 - install/arvbox.html.textile.liquid
209 - install/salt-single-host.html.textile.liquid
210 - install/salt-multi-host.html.textile.liquid
211 # - Arvados on Kubernetes:
212 # - install/arvados-on-kubernetes.html.textile.liquid
213 # - install/arvados-on-kubernetes-minikube.html.textile.liquid
214 # - install/arvados-on-kubernetes-GKE.html.textile.liquid
215 - Manual installation:
216 - install/install-manual-prerequisites.html.textile.liquid
217 - install/packages.html.textile.liquid
219 - install/config.html.textile.liquid
220 - admin/config-urls.html.textile.liquid
221 - admin/config.html.textile.liquid
222 - Maintenance and upgrading:
223 - admin/upgrading.html.textile.liquid
224 - admin/maintenance-and-upgrading.html.textile.liquid
226 - install/install-api-server.html.textile.liquid
227 - install/diagnostics.html.textile.liquid
229 - install/install-keepstore.html.textile.liquid
230 - install/configure-fs-storage.html.textile.liquid
231 - install/configure-s3-object-storage.html.textile.liquid
232 - install/configure-azure-blob-storage.html.textile.liquid
233 - install/install-keepproxy.html.textile.liquid
234 - install/install-keep-web.html.textile.liquid
235 - install/install-keep-balance.html.textile.liquid
237 - install/setup-login.html.textile.liquid
238 - install/install-ws.html.textile.liquid
239 - install/install-workbench2-app.html.textile.liquid
240 - install/workbench.html.textile.liquid
241 # - install/install-composer.html.textile.liquid
242 - Additional services:
243 - install/install-shell-server.html.textile.liquid
244 - install/install-webshell.html.textile.liquid
245 - install/install-arv-git-httpd.html.textile.liquid
246 # - Containers API (all):
247 # - install/install-jobs-image.html.textile.liquid
248 - Containers API (cloud):
249 - install/crunch2-cloud/install-compute-node.html.textile.liquid
250 - install/crunch2-cloud/install-dispatch-cloud.html.textile.liquid
251 - Compute nodes (Slurm or LSF):
252 - install/crunch2/install-compute-node-docker.html.textile.liquid
253 - install/crunch2/install-compute-node-singularity.html.textile.liquid
254 - Containers API (Slurm):
255 - install/crunch2-slurm/install-dispatch.html.textile.liquid
256 - install/crunch2-slurm/configure-slurm.html.textile.liquid
257 - install/crunch2-slurm/install-test.html.textile.liquid
258 - Containers API (LSF):
259 - install/crunch2-lsf/install-dispatch.html.textile.liquid
260 - Additional configuration:
261 - install/container-shell-access.html.textile.liquid
262 - External dependencies:
263 - install/install-postgresql.html.textile.liquid
264 - install/ruby.html.textile.liquid
265 - install/nginx.html.textile.liquid
266 - install/install-docker.html.textile.liquid