is.broadpeak FALSE 
read A549-100nM-Dex-0.5h-p300-Rep1-ENCLB019IVZ.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak :  204271 peaks
 204271 peaks are left after cleaning
 A549-100nM-Dex-0.5h-p300-Rep2-ENCLB591AUL.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak :  241199 peaks
 241199  peaks are left after cleaninghalf.width= reported 
significant measure= p.value 
URI is done
URI is saved at: IDR-A549-100nM-Dex-0.5h-p300-Rep1-vs-Rep2-uri.sav 
EM is done

EM is saved at: IDR-A549-100nM-Dex-0.5h-p300-Rep1-vs-Rep2-em.sav 
EM estimation for the following files
A549-100nM-Dex-0.5h-p300-Rep1-ENCLB019IVZ.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak
A549-100nM-Dex-0.5h-p300-Rep2-ENCLB591AUL.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak
$p
[1] 0.4534477

$rho1
[1] 0.7767022

$rho2
[1] 0

Write overlapped peaks and local idr to: IDR-A549-100nM-Dex-0.5h-p300-Rep1-vs-Rep2-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] 5708.407

$x.mean2
[1] 11156.3

$y.mean1
[1] 4924.936

$y.mean2
[1] 11807

$x.sd1
[1] 4585.79

$x.sd2
[1] 3883.409

$y.sd1
[1] 3723.483

$y.sd2
[1] 3606.75