bits_tests

export PATH=/usr/local/cuda/bin:$PATH
export DYLD_LIBRARY_PATH=/usr/local/cuda/lib:$DYLD_LIBRARY_PATH

A=data/rmsk.hg18.chr21.bed
B=data/knownGene.hg18.chr21.bed
G=genomes/human.hg18.genome
N=1000

echo bits_count
bin/bits_count -a $A -b $B -g $G

echo bits_count_cuda
bin/bits_count_cuda -a $A -b $B -g $G

echo bits_count_per_interval
bin/bits_count_per_interval -a $A -b $B -g $G \
	| awk '{ SUM += $4} END { print SUM }' 

echo bits_count_per_interval_cuda
bin/bits_count_per_interval_cuda -a $A -b $B -g $G \
	| awk '{ SUM += $4} END { print SUM }' 

echo bits_enumerate
bin/bits_enumerate -a $A -b $B -g $G | wc -l

echo bits_enumerate_cuda
bin/bits_enumerate_cuda -a $A -b $B -g $G | wc -l

echo bits_test
bin/bits_test -a $A -b $B -g $G -n $N 

echo bits_test_cuda
bin/bits_test_cuda -a $A -b $B -g $G -n $N