From 0211d123c7e9ed2cb5fbe065b61ffcf7d1f77236 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 14 Dec 2020 10:23:06 -0600
Subject: [PATCH] Update docs
---
CHANGELOG.md | 1 +
README.md | 9 ++++++---
2 files changed, 7 insertions(+), 3 deletions(-)
diff --git a/CHANGELOG.md b/CHANGELOG.md
index fe06f42..97e7411 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -7,6 +7,7 @@
* Upload execution run
* Upload mRNA QC
* Create and upload output bag
+* Add optional to not upload
**Background**
* Remove (comment out) option to pull references from S3
diff --git a/README.md b/README.md
index 4baf67a..c7002c7 100644
--- a/README.md
+++ b/README.md
@@ -34,9 +34,12 @@ To Run:
* **dev** = [dev.gudmap.org](dev.gudmap.org) (default, does not contain all data)
* **staging** = [staging.gudmap.org](staging.gudmap.org) (does not contain all data)
* **production** = [www.gudmap.org](www.gudmap.org) (***does contain all data***)
- * `--refMoVersion` mouse reference version ***(optional)***
- * `--refHuVersion` human reference version ***(optional)***
- * `--refERCCVersion` human reference version ***(optional)***
+ * `--refMoVersion` mouse reference version ***(optional, default = 38.p6.vM22)***
+ * `--refHuVersion` human reference version ***(optional, default = 38.p12.v31)***
+ * `--refERCCVersion` human reference version ***(optional, default = 92)***
+ * `--upload` option to not upload output back to the data-hub ***(optional, default = true)***
+ * **true** = upload outputs to the data-hub
+ * **false** = do *NOT* upload outputs to the data-hub
* `-profile` config profile to use ***(optional)***:
* defaut = processes on BioHPC cluster
* **biohpc** = process on BioHPC cluster
--
GitLab