From 47a201027289ba1e6cdcf0d2613e0d9b55a96319 Mon Sep 17 00:00:00 2001
From: Vitor Trovisco <vmt25@cam.ac.uk>
Date: Thu, 8 Oct 2020 15:07:19 +0000
Subject: [PATCH] Update starting-pack.sh. Adding CV terms to Canto's database
 for triage statuses, which are used to subdivide the publication list.

---
 starting-pack.sh | 10 ++++++++++
 1 file changed, 10 insertions(+)

diff --git a/starting-pack.sh b/starting-pack.sh
index a50ece6..6642a10 100644
--- a/starting-pack.sh
+++ b/starting-pack.sh
@@ -37,6 +37,16 @@ $score
 done
 
 
+this section will create CV terms for triage statuses, so that the publication list can be sub-divifed into more specific lists. This list is the current in use for phenotype curation (e.g. disease, pheno, training, etc).
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "DISEASE"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "PHENO"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "PHENO_ANAT"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "PHENO_CHEM"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "PHENO_DATASET"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "LOW_PRIORITY"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "TRAINING"
+sudo ./canto/script/canto_docker ./script/canto_add.pl --cvterm "Canto publication triage status" "HIGH_PRIORITY"
+
 #canfigure the taxon (Drosophila melanogaster)
 sudo ./canto/script/canto_docker ./script/canto_add.pl --organism "Drosophila melanogaster" 7227 [fruit fly]
 
-- 
GitLab