Merge pull request #37 from qbic-pipelines/dev

Add tower info

Author: ggabernet

docs/index.rst

@@ -59,7 +59,7 @@ Clusters and remotes
    :caption: Analysis pipelines
    :hidden:
 
-   markdown/pipeline_releases
+   markdown/pipelines/pipeline_releases
    markdown/pipelines/exomeseq
    markdown/pipelines/rnaseq
    markdown/pipelines/ampliseq
@@ -72,6 +72,7 @@ Clusters and remotes
    :caption: Clusters and remotes
    :hidden:
 
-   markdown/running_jobs
-   markdown/denbi_cloud
-   markdown/igenomes
+   markdown/clusters/running_jobs
+   markdown/clusters/denbi_cloud
+   markdown/clusters/tower
+   markdown/clusters/igenomes

docs/markdown/denbi_cloud.md renamed to docs/markdown/clusters/denbi_cloud.md

@@ -0,0 +1,22 @@
+# Nextflow tower
+
+To be able to follow the Nextflow workflow rusn via tower, you can add Tower access credentials in your Nextflow configuration file (`~/.nextflow/config`) using the following snippet:
+
+```console
+tower {
+  accessToken = '<YOUR TOKEN>'
+  workspaceId = '<YOUR WORKSPACE ID>'
+  endpoint = 'http://cfgateway1.zdv.uni-tuebingen.de/api'
+  enabled = true
+}
+```
+
+To submit a pipeline to a different Workspace using the Nextflow command line tool, you can provide the workspace ID as an environment variable. For example
+
+```console
+export TOWER_WORKSPACE_ID=000000000000000
+```
+
+The workspace ID can be found on the organisation's Workspaces overview page.
+
+For more info on how to use tower please refere to the [Tower docs](https://help.tower.nf/).