You must specify a batch ID and it must be an integer (e.g. 1, 2, 3).
ref_map.pl 1.35
ref_map.pl -p path -r path [-s path] -o path [-n mismatches] [-m min_cov] [-T num_threads] [-A type] [-O popmap] [-B db -b batch_id -D "desc" -a yyyy-mm-dd] [-S -i id] [-e path] [-d] [-h]
    p: path to a Bowtie/SAM/BAM file containing parent sequences from a mapping cross.
    r: path to a Bowtie/SAM/BAM file containing progeny sequences from a mapping cross.
    s: path to a Bowtie/SAM/BAM file containing an individual sample from a population.
    o: path to write pipeline output files.
    A: if processing a genetic map, specify the cross type, 'CP', 'F2', 'BC1', 'DH', or 'GEN'.
    n: specify the number of mismatches allowed between loci when building the catalog (default 1).
    T: specify the number of threads to execute.
    m: specify the minimum depth of coverage to report a stack in pstacks (default 1).
    O: if analyzing one or more populations, specify a pOpulation map
    e: executable path, location of pipeline programs.
    d: perform a dry run. Do not actually execute any programs, just print what would be executed.
    h: display this help message.

   Database options:
    B: specify a database to load data into.
    b: batch ID representing this dataset in the database.
    D: batch description
    a: batch run date, yyyy-mm-dd
    S: disable recording SQL data in the database.
    i: starting sample_id, this is determined automatically if database interaction is enabled.

   SNP Model Options (these options are passed on to pstacks):
    --bound_low <num>: lower bound for epsilon, the error rate, between 0 and 1.0 (default 0).
    --bound_high <num>: upper bound for epsilon, the error rate, between 0 and 1.0 (default 1).
    --alpha <num>: chi square significance level required to call a heterozygote or homozygote, either 0.1, 0.05 (default), 0.01, or 0.001.

  Arbitrary command line options:
    -X "program:option": pass a command line option to one of the pipeline components, e.g.'-X "sstacks:-x"'.