USAGE
  blast_vdb_cmd [-h] [-help] -db VDB_ACCESSIONS
    -dbs_file Input_File_with_VDB_ACCESSIONS [-outfmt format]
    [-entry sequence_identifier] [-entry_batch input_file]
    [-line_length number] [-include_filtered_reads] [-info] [-ref] [-paths]
    [-paths_all] [-out output_file] [-logfile File_Name] [-version]

DESCRIPTION
   BLAST-VDB Cmd

REQUIRED ARGUMENTS
 -db <String>
   List of whitespace-separated VDB accessions
    * Incompatible with:  dbs_file
 -dbs_file <File_In>
   File with a newline delimited list of VDB Run accessions
    * Incompatible with:  db

OPTIONAL ARGUMENTS
 -h
   Print USAGE and DESCRIPTION;  ignore all other parameters
 -help
   Print USAGE, DESCRIPTION and ARGUMENTS; ignore all other parameters
 -version
   Print version number;  ignore other arguments

 *** VDB 'BLASTDB' options
 -outfmt <String>
   Output format, where the available format specifiers are:
   		%f means sequence in FASTA format
   		%s means sequence data (without defline)
   		%a means accession
   		%o means ordinal id (OID)
   		%i means sequence id
   		%t means sequence title
   		%l means sequence length
   	For every format except '%f', each line of output will correspond
   	to a sequence.
   Default = `%f'

 *** Retrieval options
 -entry <String>
   Comma-delimited search string(s) of sequence identifiers:
   	e.g.: 'gnl|SRR|SRR066117.18823.2', or 'all' to select all
   	sequences in the database
    * Incompatible with:  entry_batch, info, paths, paths_all
 -entry_batch <File_In>
   Input file for batch processing (Format: one entry per line)
    * Incompatible with:  entry, info, ref, paths, paths_all
 -line_length <Integer, >=1>
   Line length for output
   Default = `80'
 -include_filtered_reads
   Include Filtered reads
    * Incompatible with:  info, ref, paths, paths_all
 -info
   Print VDB information
    * Incompatible with:  include_filtered_reads, entry, entry_batch, ref,
   paths, paths_all
 -ref
   Dump reference seqs
    * Incompatible with:  info, entry_batch, include_filtered_reads
 -paths
   Get top level paths
    * Incompatible with:  scan_uncompressed, scan_compressed, info, entry,
   entry_batch, include_filtered_reads
 -paths_all
   Get all vdb and alias paths
    * Incompatible with:  scan_uncompressed, scan_compressed, info, entry,
   entry_batch, include_filtered_reads

 *** Output configuration options
 -out <File_Out>
   Output file name
   Default = `-'
 -logfile <File_Out>
   File to which the program log should be redirected