# Rename this file to CONFIG, and edit its contents.
# Will be included by the makefile in qualeval/qualeval.mk
# Uses makefile syntax, so you can use $(wildcard) and $(patsubst)
# and similar string-manipulating functions.

# Number of threads to use for multi-threaded sub-processes (Note that
# you can use -j to make asmeval run multiple sub-processes
# simultaneously)

THREADS := 1

# Add the name of the file containing the genome sequence here

GENOME := xxx.fasta

# The estimated genome size (used for calculating N50 etc)

GENOMESIZE := 6e8

# import SFF and Illumina data (fastq format).
# SFFs should end in .sff, Illumina should end in {1,2}.txt

SFFS    := 
FASTQPE   := 
FASTQMP :=
RNASEQ  :=

# EST-data or full-lenght transcripts.  Will be mapped with BLAT.

ESTS    :=

# BAC ends or similar, also mapped with BLAT.

BACS    :=

# Mitochondrion sequence, or contigous regions of the genome.

MITOCH  :=

# Proteomes from related species, or other peptide sequences.

PROT    :=

# End of configuration.