tgt = Dir.pwd
Dir.mkdir("sdk/R")
Dir.mkdir("sdk/R/arvados")
+ puts("tgt", tgt)
+ cp('css/R.css', 'sdk/R/arvados')
docfiles = []
Dir.chdir("../sdk/R/") do
STDERR.puts `Rscript createDoc.R README.Rmd #{tgt}/sdk/R/README.md 2>&1`
Dir.chdir("../sdk/java-v2") do
STDERR.puts `gradle javadoc 2>&1`
raise if $? != 0
+ puts `sed -i "s/@import.*dejavu.css.*//g" build/docs/javadoc/stylesheet.css`
+ raise if $? != 0
end
cp_r("../sdk/java-v2/build/docs/javadoc", "sdk/java-v2")
raise if $? != 0
This release includes several database migrations, which will be executed automatically as part of the API server upgrade. On large Arvados installations, these migrations will take a while. We've seen the upgrade take 30 minutes or more on installations with a lot of collections.
-The @arvados-controller@ component now requires the /etc/arvados/config.yml file to be present. See <a href="{{ site.baseurl }}/install/install-controller.html#configuration">the @arvados-controller@ installation instructions</a>.
+The @arvados-controller@ component now requires the /etc/arvados/config.yml file to be present.
Support for the deprecated "jobs" API is broken in this release. Users who rely on it should not upgrade. This will be fixed in an upcoming 1.3.1 patch release, however users are "encouraged to migrate":upgrade-crunch2.html as support for the "jobs" API will be dropped in an upcoming release. Users who are already using the "containers" API are not affected.
Commit "db5107dca":https://dev.arvados.org/projects/arvados/repository/revisions/db5107dca adds a new system service, arvados-controller. More detail is available in story "#13496":https://dev.arvados.org/issues/13497.
-To add the Arvados Controller to your system please refer to the "installation instructions":../install/install-controller.html after upgrading your system to 1.2.0.
+To add the Arvados Controller to your system please refer to the "installation instructions":../install/install-api-server.html after upgrading your system to 1.2.0.
Verify your setup by confirming that API calls appear in the controller's logs (_e.g._, @journalctl -fu arvados-controller@) while loading a workbench page.
SPDX-License-Identifier: CC-BY-SA-3.0
{% endcomment %}
-p=. *Legacy. The job APIs are read-only and disabled by default in new installations. Use "container requests":container_requests.html.textile.liquid .*
+p=. *Legacy. The job APIs are read-only and disabled by default in new installations. Use "container requests":methods/container_requests.html .*
h2. Crunch scripts
* For automated tests purposes, use "z****"
* For experimental/local-only/private clusters that won't ever be visible on the public Internet, use "x****"
-* For long-lived clusters, we recommend reserving a cluster id. Contact "mailto:support@curoverse.com":support@curoverse.com
+* For long-lived clusters, we recommend reserving a cluster id. Contact "info@curii.com":mailto:info@curii.com
Cluster identifiers are mapped API server hosts one of two ways:
-* Through DNS resolution, under the @arvadosapi.com@ domain. For example, the API server for the cluster @qr1hi@ can be found at @qr1hi.arvadosapi.com@. To register a cluster id for free under @arvadosapi.com@, contact "mailto:support@curoverse.com":support@curoverse.com
+* Through DNS resolution, under the @arvadosapi.com@ domain. For example, the API server for the cluster @qr1hi@ can be found at @qr1hi.arvadosapi.com@. To register a cluster id for free under @arvadosapi.com@, contact "info@curii.com":mailto:info@curii.com
* Through explicit configuration:
The @RemoteClusters@ section of @/etc/arvados/config.yml@ (for arvados-controller)
SPDX-License-Identifier: CC-BY-SA-3.0
{% endcomment %}
-Arvados components run on GNU/Linux systems, and supports AWS, GCP and Azure cloud platforms as well as on-premises installs. Arvados supports Debian and derivatives such as Ubuntu, as well as Red Hat and derivatives such as CentOS. "Arvados is Free Software":{{site.baseurl}}/copying/copying.html and self-install installations are not limited in any way. Commercial support and development are also available from "Curii Corporation.":mailto:info@curii.com
+Arvados components run on GNU/Linux systems, and supports AWS, GCP and Azure cloud platforms as well as on-premises installs. Arvados supports Debian and derivatives such as Ubuntu, as well as Red Hat and derivatives such as CentOS. "Arvados is Free Software":{{site.baseurl}}/user/copying/copying.html and self-install installations are not limited in any way. Commercial support and development are also available from "Curii Corporation.":mailto:info@curii.com
Arvados components can be installed and configured in a number of different ways.
<div class="offset1">
table(table table-bordered table-condensed).
|_. Function|_. Number of nodes|_. Recommended specs|
-|Postgres database, Arvados API server, Arvados controller, Git, Websockets|1|16+ GiB RAM, 4+ cores, fast disk for database|
+|Postgres database, Arvados API server, Arvados controller, Git, Websockets, Container dispatcher|1|16+ GiB RAM, 4+ cores, fast disk for database|
|Single Sign-On (SSO) server ^1^|1|2 GiB RAM|
|Workbench, Keepproxy, Keep-web, Keep-balance|1|8 GiB RAM, 2+ cores|
|Keepstore servers ^2^|2+|4 GiB RAM|
-|Compute scheduler|1|2 GiB RAM|
|Compute worker nodes ^2^|2+ |Depends on workload|
|User shell nodes ^3^|0+|Depends on workload|
</div>
# "Install Ruby and Bundler":ruby.html
# "Install the Python SDK":{{site.baseurl}}/sdk/python/sdk-python.html
# "Install the CLI":{{site.baseurl}}/sdk/cli/install.html
-# "Install the R SDK":{{site.baseurl}}/sdk/R/install.html (optional)
+# "Install the R SDK":{{site.baseurl}}/sdk/R/index.html (optional)
# "Install Docker":install-docker.html (optional)
{% assign arvados_component = 'git curl' %}
# As an admin user, you have given the user permission to log in using the Workbench → Admin menu → "Users" item → "Show" button → "Admin" tab → "Setup account" button.
# The cron job has run.
-See also "how to add a VM login permission link at the command line":admin/user-management-cli.html
+See also "how to add a VM login permission link at the command line":../admin/user-management-cli.html
SPDX-License-Identifier: CC-BY-SA-3.0
{% endcomment %}
-The Python SDK provides access from Python to the Arvados API and Keep. It also includes a number of command line tools for using and administering Arvados and Keep, and some conveniences for use in Crunch scripts; see "Crunch utility libraries":crunch-utility-libraries.html for details.
+The Python SDK provides access from Python to the Arvados API and Keep, along with a number of command line tools for using and administering Arvados and Keep.
h2. Installation
A URI reference to Keep uses the @keep:@ scheme followed by either the portable data hash or UUID of the collection and then the location of the file inside the collection. For example, @keep:2463fa9efeb75e099685528b3b9071e0+438/19.fasta.bwt@ or @keep:zzzzz-4zz18-zzzzzzzzzzzzzzz/19.fasta.bwt@.
-If you reference a file in "arv-mount":{{site.baseurl}}/user/tutorials/tutorial-keep-mount.html, such as @/home/example/keep/by_id/2463fa9efeb75e099685528b3b9071e0+438/19.fasta.bwt@, then @arvados-cwl-runner@ will automatically determine the appropriate Keep URI reference.
+If you reference a file in "arv-mount":{{site.baseurl}}/user/tutorials/tutorial-keep-mount-gnu-linux.html, such as @/home/example/keep/by_id/2463fa9efeb75e099685528b3b9071e0+438/19.fasta.bwt@, then @arvados-cwl-runner@ will automatically determine the appropriate Keep URI reference.
If you reference a local file which is not in @arv-mount@, then @arvados-cwl-runner@ will upload the file to Keep and use the Keep URI reference from the upload.
projects / arvados.git / commitdiff