Load Genome Script

The load genome script, load_genome.pl, allows genomes to be created via the backend.

Usage:

perl load_genome.pl -name <string> -desc <string> ...

Required parameters:

fasta_files     comma-separated list of FASTA files
staging_dir   temporary staging directory for processing files, use "."
install_dir      permanent installation directory for genome files with DATADIR in configuration file
user_id         user ID
config           configuration file

Optional parameters:

name                String name of the genome
desc                 String description of the genome
link                   URL to the data source or publication
version             Version of the genome data
type_id             Sequence type ID, defaults to 1 for "unmasked"
restricted          Flag to make genome private (1) or public (0)
organism_id      Organism ID
source_name    Name of data source, e.g. the lab that generated the sequence data
source_desc     Description of the data source