X-Git-Url: https://git.arvados.org/arvados.git/blobdiff_plain/215d15bc03a38be1965a5d9df21417a3f7eae032..refs/heads/16377-test-check:/doc/user/cwl/cwl-runner.html.textile.liquid diff --git a/doc/user/cwl/cwl-runner.html.textile.liquid b/doc/user/cwl/cwl-runner.html.textile.liquid index fbce8e17be..2be803b52a 100644 --- a/doc/user/cwl/cwl-runner.html.textile.liquid +++ b/doc/user/cwl/cwl-runner.html.textile.liquid @@ -25,10 +25,10 @@ h2. Running arvados-cwl-runner h3. Get the example files -The tutorial files are located in the "documentation section of the Arvados source repository:":https://github.com/curoverse/arvados/tree/master/doc/user/cwl/bwa-mem +The tutorial files are located in the "documentation section of the Arvados source repository:":https://github.com/arvados/arvados/tree/master/doc/user/cwl/bwa-mem -
~$ git clone https://github.com/curoverse/arvados
+
~$ git clone https://github.com/arvados/arvados
 ~$ cd arvados/doc/user/cwl/bwa-mem
 
@@ -84,7 +84,7 @@ When running a workflow on an Arvados cluster, the input files must be stored in 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.