table of contents
| GENBANK_GET_GENOMES_BY_TAXON.PY(1) | User Commands | GENBANK_GET_GENOMES_BY_TAXON.PY(1) |
NAME¶
genbank_get_genomes_by_taxon.py - genbank get genomes by taxon
DESCRIPTION¶
usage: genbank_get_genomes_by_taxon.py [-h] -o OUTDIRNAME [-t TAXON] [-v] [-f]
- [--noclobber] [-l LOGFILE]
- [--format FORMAT] --email EMAIL [--retries RETRIES] [--batchsize BATCHSIZE] [--timeout TIMEOUT]
optional arguments:¶
- -h, --help
- show this help message and exit
- -o OUTDIRNAME, --outdir OUTDIRNAME
- Output directory (required)
- -t TAXON, --taxon TAXON
- NCBI taxonomy ID
- -v, --verbose
- Give verbose output
- -f, --force
- Force file overwriting
- --noclobber
- Don't nuke existing files
- -l LOGFILE, --logfile LOGFILE
- Logfile location
- --format FORMAT
- Output file format [gbk|fasta]
- --email EMAIL
- Email associated with NCBI queries (required)
- --retries RETRIES
- Number of Entrez retry attempts per request.
- --batchsize BATCHSIZE
- Entrez record return batch size
- --timeout TIMEOUT
- Timeout for URL connection (s)
AUTHOR¶
This manpage was written by Nilesh Patra for the Debian
distribution and
can be used for any other usage of the program.
| July 2021 | genbank_get_genomes_by_taxon.py 0.2.11 |