diff --git a/examples/citrus_sinensis.yml b/examples/citrus_sinensis.yml index faa3aec17faeb4131b3b8d5efd71fef79034a2b7..14fe1dcd168a0bd2ca52111ff163abdba62b41dd 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