USAGE
  makeblastdb [-h] [-help] [-in input_file] [-input_type type]
    -dbtype molecule_type [-title database_title] [-parse_seqids]
    [-hash_index] [-mask_data mask_data_files] [-mask_id mask_algo_ids]
    [-mask_desc mask_algo_descriptions] [-gi_mask]
    [-gi_mask_name gi_based_mask_names] [-out database_name]
    [-blastdb_version version] [-max_file_sz number_of_bytes]
    [-metadata_output_prefix ] [-logfile File_Name] [-taxid TaxID]
    [-taxid_map TaxIDMapFile] [-oid_masks oid_masks] [-version]

DESCRIPTION
   Application to create BLAST databases, version 2.14.0+

REQUIRED ARGUMENTS
 -dbtype <String, `nucl', `prot'>
   Molecule type of target 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

 *** Input options
 -in <File_In>
   Input file/database name
   Default = `-'
 -input_type <String, `asn1_bin', `asn1_txt', `blastdb', `fasta'>
   Type of the data specified in input_file
   Default = `fasta'

 *** Configuration options
 -title <String>
   Title for BLAST database
   Default = input file name provided to -in argument
 -parse_seqids
   Option to parse seqid for FASTA input if set, for all other input types
   seqids are parsed automatically
 -hash_index
   Create index of sequence hash values.

 *** Sequence masking options
 -mask_data <String>
   Comma-separated list of input files containing masking data as produced by
   NCBI masking applications (e.g. dustmasker, segmasker, windowmasker)
 -mask_id <String>
   Comma-separated list of strings to uniquely identify the masking algorithm
    * Requires:  mask_data
    * Incompatible with:  gi_mask
 -mask_desc <String>
   Comma-separated list of free form strings to describe the masking algorithm
   details
    * Requires:  mask_id
 -gi_mask
   Create GI indexed masking data.
    * Requires:  parse_seqids
    * Incompatible with:  mask_id
 -gi_mask_name <String>
   Comma-separated list of masking data output files.
    * Requires:  mask_data, gi_mask

 *** Output options
 -out <String>
   Name of BLAST database to be created
   Default = input file name provided to -in argumentRequired if multiple
   file(s)/database(s) are provided as input
 -blastdb_version <Integer, 4..5>
   Version of BLAST database to be created
   Default = `5'
 -max_file_sz <String>
   Maximum file size for BLAST database files
   Default = `3GB'
 -metadata_output_prefix <String>
   Path prefix for location of database files in metadata
 -logfile <File_Out>
   File to which the program log should be redirected

 *** Taxonomy options
 -taxid <Integer, >=0>
   Taxonomy ID to assign to all sequences
    * Incompatible with:  taxid_map
 -taxid_map <File_In>
   Text file mapping sequence IDs to taxonomy IDs.
   Format:<SequenceId> <TaxonomyId><newline>
    * Requires:  parse_seqids
    * Incompatible with:  taxid
 -oid_masks <Integer>
   0x01 Exclude Model