Merge branch '14713-fix-master' refs #14713

[arvados.git] / doc / user / tutorials / writing-cwl-workflow.html.textile.liquid

diff --git a/doc/user/tutorials/writing-cwl-workflow.html.textile.liquid b/doc/user/tutorials/writing-cwl-workflow.html.textile.liquid
index 87500534c1f33c80243a15fb476a69e0d9896b87..2f1f80ca0b428c0576bf454aa97a5341e8a8fa3a 100644 (file)
--- a/doc/user/tutorials/writing-cwl-workflow.html.textile.liquid
+++ b/doc/user/tutorials/writing-cwl-workflow.html.textile.liquid
@@ -3,6 +3,11 @@ layout: default
 navsection: userguide
 title: "Writing a CWL workflow"
 ...
+{% comment %}
+Copyright (C) The Arvados Authors. All rights reserved.
+
+SPDX-License-Identifier: CC-BY-SA-3.0
+{% endcomment %}
 
 {% include 'what_is_cwl' %}
 
@@ -10,10 +15,14 @@ title: "Writing a CWL workflow"
 
 h2. Developing workflows
 
-For an introduction and and detailed documentation about writing CWL, see the "CWL User Guide":http://commonwl.org/v1.0/UserGuide.html and the "CWL Specification":http://commonwl.org/v1.0 .
+For an introduction and and detailed documentation about writing CWL, see the "CWL User Guide":https://www.commonwl.org/user_guide and the "CWL Specification":http://commonwl.org/v1.0 .
 
 See "Best Practices for writing CWL":{{site.baseurl}}/user/cwl/cwl-style.html and "Arvados CWL Extensions":{{site.baseurl}}/user/cwl/cwl-extensions.html for additional information about using CWL on Arvados.
 
+h2. Using Composer
+
+You can create new workflows in the browser using "Arvados Composer":{{site.baseurl}}/user/composer/composer.html
+
 h2. Registering a workflow to use in Workbench
 
 Use @--create-workflow@ to register a CWL workflow with Arvados.  This enables you to share workflows with other Arvados users, and run them by clicking the <span class="btn btn-sm btn-primary"><i class="fa fa-fw fa-gear"></i> Run a process...</span> button on the Workbench Dashboard and on the command line by UUID.
@@ -36,7 +45,7 @@ arvados-cwl-runner 1.0.20160628195002, arvados-python-client 0.1.20160616015107,
 2016-07-01 14:09:50 arvados.arv-run[3730] INFO: Upload local files: "bwa-mem.cwl"
 2016-07-01 14:09:50 arvados.arv-run[3730] INFO: Uploaded to qr1hi-4zz18-0f91qkovk4ml18o
 2016-07-01 14:09:50 arvados.cwl-runner[3730] INFO: Created template qr1hi-p5p6p-0deqe6nuuyqns2i
-qr1hi-p5p6p-0deqe6nuuyqns2i
+qr1hi-p5p6p-zuniv58hn8d0qd8
 </code></pre>
 </notextile>
 
@@ -45,10 +54,10 @@ h3. Running registered workflows at the command line
 You can run a registered workflow at the command line by its UUID:
 
 <notextile>
-<pre><code>~/arvados/doc/user/cwl/bwa-mem$ <span class="userinput">arvados-cwl-runner 962eh-7fd4e-660fw86nz0w77mk --help</span>
+<pre><code>~/arvados/doc/user/cwl/bwa-mem$ <span class="userinput">arvados-cwl-runner qr1hi-p5p6p-zuniv58hn8d0qd8 --help</span>
 /home/peter/work/scripts/venv/bin/arvados-cwl-runner 0d62edcb9d25bf4dcdb20d8872ea7b438e12fc59 1.0.20161209192028, arvados-python-client 0.1.20161212125425, cwltool 1.0.20161207161158
-Resolved '962eh-7fd4e-660fw86nz0w77mk' to 'arvwf:962eh-7fd4e-660fw86nz0w77mk#main'
-usage: 962eh-7fd4e-660fw86nz0w77mk [-h] [--PL PL] --group_id GROUP_ID
+Resolved 'qr1hi-p5p6p-zuniv58hn8d0qd8' to 'keep:655c6cd07550151b210961ed1d3852cf+57/bwa-mem.cwl'
+usage: qr1hi-p5p6p-zuniv58hn8d0qd8 [-h] [--PL PL] --group_id GROUP_ID
                                    --read_p1 READ_P1 [--read_p2 READ_P2]
                                    [--reference REFERENCE] --sample_id
                                    SAMPLE_ID