From b42a7aa852aabdc8bc0309b7bd3a7e1a3729b748 Mon Sep 17 00:00:00 2001
From: Loraine Gueguen <loraine.gueguen@sb-roscoff.fr>
Date: Mon, 10 May 2021 14:23:33 +0200
Subject: [PATCH] Update citrus_sinensis.yml
---
examples/citrus_sinensis.yml | 12 ++++--------
1 file changed, 4 insertions(+), 8 deletions(-)
diff --git a/examples/citrus_sinensis.yml b/examples/citrus_sinensis.yml
index faa3aec..14fe1dc 100644
--- a/examples/citrus_sinensis.yml
+++ b/examples/citrus_sinensis.yml
@@ -1,8 +1,7 @@
# Input file for the automated creation GGA docker stacks
# The file consists in a "list" of species for which the script will have to create these stacks/load data into galaxy/run workflows
-# This file is internally turned into a list of dictionaries by the scripts
-- name: citrus_sinensis # Dummy value to designate the species (isn't used by the script)
+- name: citrus_sinensis
description:
# Species description, leave blank if unknown or you don't want it to be used
# These parameters are used to set up the various urls and adresses in different containers
@@ -13,11 +12,8 @@
strain: ""
common_name: ""
origin: ""
- # the sex and strain, the script will look for files containing the genus, species, sex and strain of the species)
- # If no file corresponding to the description is found, this path will be considered empty and the script will
- # proceed to the next step (create the directory tree for the GGA docker stack)
data:
- # Sequence of paths to the different datasets to copy and import into the galaxy container (as a shared library)
+ # Paths to the different datasets to copy and import into the galaxy container (as a shared library)
# Must be absolute paths to the dataset
genome_path: "/path/to/repo/examples/src_data/genome/v1.0/Citrus_sinensis-scaffold00001.fasta" # Mandatory!
transcripts_path: "/path/to/repo/examples/src_data/annotation/v1.0/Citrus_sinensis-orange1.1g015632m.g.fasta" # Mandatory!
@@ -35,8 +31,8 @@
ogs_version: "1.0"
performed_by: ""
services:
- # Describe what optional services to deploy for the stack
- # By default, only tripal, tripaldb and galaxy services will be deployed
+ # List the optional services to be deploy in the stack
+ # By default, only tripal, tripaldb, galaxy, jbrowse and elasticsearch services will be deployed
blast: "False"
wiki: "False"
apollo: "False"
\ No newline at end of file
--
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