p3-gto¶
Create GTO Files from BV-BRC Genomes¶
p3-gto.pl [options] genome1 genome2 ... genomeN
This script creates GenomeTypeObject files for the specified BV-BRC genomes. Each file is named using the genome ID with the suffix .gto
and placed in the current directory. The --outDir
option can be used to specify an alternate output directory. Existing files will be
replaced.
Parameters¶
The positional parameters are the IDs of the genomes to extract. A parameter of -
indicates that the standard input contains a
list of genome IDs to process. The options in Column Options can be used to specify the input column and Input Options can
be used to modify the standard input.
In addition, the following command-line options can modify the default behavior.
outDir
Name of the directory in which to put the output files. (The default is the current working directory.)
missing
Only process genomes for which files do not yet exist in the output directory. The default is to replace existing files.
verbose
Display data API status messages in the standard output.