ASNVAL(1)
NAME
asnval - validate ASN.1 biological sequence records
SYNOPSIS
asnval [-] [-A] [-B] [-C N] [-E str] [-G] [-J] [-K] [-L filename] [-M] [-N flags] [-P N] [-Q N] [-R N] [-S N] [-T] [-X] [-Y] [-Z] [-a type] [-b] [-c] [-d path] [-e] [-i filename] [-k] [-l] [-o filename] [-p path] [-r] [-u] [-v N] [-x str]
DESCRIPTION
asnval is a command-line tool to validate ASN.1-format biological
sequence records.
OPTIONS
A summary of options is included below.
- Print usage message
-A Validate Alignments
-B Validate Barcodes
-C N Max count
-E str Only Error Code to Show
-G GI lookup from accession
-J Require ISO-JTA?
-K Summary to error file
- -L filename
- Log File
- -M Match locus_tag against General ID
- -N flags
- Latitude-longitude / country flags
0 none
1 test state/province
2 ignore water exception
3 both of the above - -P N Highest severity for error to show:
- 0 none
1 informational
2 warning
3 error (default for -Q)
4 grounds for rejection (default for -P, -R) - -Q N Lowest severity for error to show, per P
- -R N Severity for error in return code, per P
- -S N Skip count
- -T Use Threads
- -X Exon splice check
- -Y Check against old IDs
- -Z Remote CDS product fetch
- -a type
- Input ASN.1 type:
a Automatic (default)
z Any
e seq-Entry
b Bioseq
s bioseq-Set
m seq-subMit
t baTch bioseq-set
u batch seq-sUbmit - -b Batch file is Binary
- -c Batch file is Compressed
- -d path
- Path to Indexed Binary ASN.1 Data
- -e Ignore transcription/translation Exceptions
- -i filename
- Single input file (standard input by default)
- -k Local fetching
- -l Lock components in advance
- -o filename
- Single output file
- -p path
- Path to ASN.1 Files
- -r Remote Fetching from ID
- -u Recurse
- -v N Verbosity, from 0 to 4 (1 by default)
- -x str File selection substring (.ent by default)
AUTHOR
The National Center for Biotechnology Information.