is.broadpeak FALSE 
[1] "Fix 1 stops\n"
[1] "Fix 1 stops\n"
read SPP-300K-C2C12-exp-p300-37C-16506-vs-16511-Rep1/C2C12-exp-p300-37oC-5271-5406-IP-4C-16506.mm10.36mers.unique_VS_C2C12-myoblast-1PCR-Input-RT-5273-IN-4-5269-16271.mm10.36mers.unique.regionPeak :  300000 peaks
 300000 peaks are left after cleaning
 SPP-300K-C2C12-exp-p300-37C-16506-vs-16511-Rep2/C2C12-exp-p300-37oC-6663-5406-IP-5B-16511.mm10.36mers.unique_VS_C2C12-myoblast-1PCR-Input-RT-5273-IN-4-5269-16271.mm10.36mers.unique.regionPeak :  300000 peaks
 300000  peaks are left after cleaninghalf.width= reported 
significant measure= signal.value 
URI is done
URI is saved at: IDR-SPP-C2C12-exp-p300-37C-16506-vs-16511-uri.sav 
EM is done

EM is saved at: IDR-SPP-C2C12-exp-p300-37C-16506-vs-16511-em.sav 
EM estimation for the following files
SPP-300K-C2C12-exp-p300-37C-16506-vs-16511-Rep1/C2C12-exp-p300-37oC-5271-5406-IP-4C-16506.mm10.36mers.unique_VS_C2C12-myoblast-1PCR-Input-RT-5273-IN-4-5269-16271.mm10.36mers.unique.regionPeak
SPP-300K-C2C12-exp-p300-37C-16506-vs-16511-Rep2/C2C12-exp-p300-37oC-6663-5406-IP-5B-16511.mm10.36mers.unique_VS_C2C12-myoblast-1PCR-Input-RT-5273-IN-4-5269-16271.mm10.36mers.unique.regionPeak
$p
[1] 0.502001

$rho1
[1] 0.9122479

$rho2
[1] 0

Write overlapped peaks and local idr to: IDR-SPP-C2C12-exp-p300-37C-16506-vs-16511-overlapped-peaks.txt
Write number of peaks above IDR cutoff [0.01, 0.25]: npeaks-aboveIDR.txt
Marginal mean of two components:
$x.mean1
[1] 22095.87

$x.mean2
[1] 53134.18

$y.mean1
[1] 22058.31

$y.mean2
[1] 53172.04

$x.sd1
[1] 16056.65

$x.sd2
[1] 14146.22

$y.sd1
[1] 16055.58

$y.sd2
[1] 14064.03