# This is a parameter file for ADZE.

# The entire line after a '#' will be ignored.



###----Main Parameters----###

MAX_G 8                #Max standardized sample size



DATA_LINES 22          #Number of lines of data



LOCI 5                 #Number of loci



NON_DATA_ROWS 1        #Number of rows preceeding data

                       #including at least the locus names

NON_DATA_COLS 5        #Number of classifier columns

                       #at the beginning of each data line



GROUP_BY_COL 5         #The column number by which to

                       #group the data



DATA_FILE small_data.stru       #Name of the datafile



R_OUT small_r           #Name of the allelic richness output file



P_OUT small_p           #Name of the private allelic richness

                        #output file



###----Combination Parameters----###

COMB 1               #Calculate private allelic richness for

                     #combinations of groupings?



K_RANGE 2             #A listing of combinations to calculate



C_OUT small_c           #Name of the private allelic richness of
                        #combinations output file



###----Advanced Options----###

MISSING -9           #Missing data representation



TOLERANCE 1          #Filter loci with a grouping having more

                     #than this fraction of missing data



FULL_R 1             #Output allelic richness results for

                     #all loci?



FULL_P 1             #Output private allelic richness results

                     #for all loci?



FULL_C 1             #Output private allelic richness for

                     #combinations results for all loci?



PRINT_PROGRESS 1     #Track calculation progress on screen?



###----Command line arguments----###

# -g MAX_G

# -d DATA_LINES

# -l LOCI

# -nr NON_DATA_ROWS

# -nc NON_DATA_COLS

# -s GROUP_BY_COL

# -f DATA_FILE

# -r R_OUT

# -p P_OUT

# -c COMB

# -k K_RANGE

# -o COUT

# -m MISSING

# -t TOLERANCE

# -tnocalc

# -fr FULL_R

# -fp FULL_P

# -fc FULL_C

# -pp PRINT_PROGRESS

###----End of file----###
