asnval - validate ASN.1 biological sequence records

       The National Center for Biotechnology Information.

asnval is a command-line tool to validate ASN.1-format biological sequence records.

       asnval - validate ASN.1 biological sequence records

       A summary of options is included below.

       -      Print usage message

       -A     Validate Alignments

       -B     Validate Barcodes

       -CN   Max count

       -D     Disable message suppression

       -Estr Only Error Code to Show

       -F     Test network access

       -G     GI lookup from accession

       -J     Require ISO-JTA?

       -K     Summary to error file

       -Lfilename
              Log File

       -M     Match locus_tag against General ID

       -Nflags
              Latitude-longitude / country flags
              0      none
              1      test state/province
              2      ignore water exception
              3      both of the above

       -PN   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)

       -QN   Lowest severity for error to show, per P-RN   Severity for error in return code, per P-SN   Skip count

       -T     Use Threads

       -U     Genome center submission

       -X     Exon splice check

       -Y     Check against old IDs

       -Z     Remote CDS product fetch

       -atype
              Input ASN.1 type:
              a      Automatic (default)
              c      Catenated
              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

       -dpath
              Path to Indexed Binary ASN.1 Data

       -e     Ignore transcription/translation Exceptions

       -xstr Substring filter

       -ifilename
              Single input file (standard input by default)

       -j     Validator code performance test

       -k     Local fetching

       -l     Lock components in advance

       -ofilename
              Single output file

       -ppath
              Path to ASN.1 Files

       -q     Taxonomy lookup

       -r     Remote Fetching from ID

       -u     Recurse

       -vN   Verbosity:
              1      Standard report (default)
              2      Accession / severity / code (space delimited)
              3      Accession / severity / code (tab delimited)
              4      XML report
              5      Accession / GI / severity / code (tab delimited)
              6      Logged report

       -w     SeqSubmitParent flag

       -xstr File selection substring (.ent by default)

       -y     Special indexer tests

asndisc(1), cleanasn(1), sequin(1).

NCBI                                               2016-09-01                                          ASNVAL(1)

asnval [-] [-A] [-B] [-CN] [-D] [-Estr] [-F] [-G] [-J] [-K] [-Lfilename] [-M] [-Nflags] [-PN] [-QN]
       [-RN]  [-SN]  [-T]  [-U]  [-X] [-Y] [-Z] [-atype] [-b] [-c] [-dpath] [-e] [-fstr] [-ifilename] [-j]
       [-k] [-l] [-ofilename] [-ppath] [-q] [-r] [-u] [-vN] [-w] [-xstr] [-y]