is.broadpeak FALSE 
read A549-100nM-Dex-1h-p300-Rep1-ENCLB638EDU.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak :  289728 peaks
 289728 peaks are left after cleaning
 A549-100nM-Dex-1h-p300-Rep2-ENCLB376DZV.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak :  367238 peaks
 367238  peaks are left after cleaninghalf.width= reported 
significant measure= p.value 
URI is done
URI is saved at: IDR-A549-100nM-Dex-1h-p300-Rep1-vs-Rep2-uri.sav 
EM is done

EM is saved at: IDR-A549-100nM-Dex-1h-p300-Rep1-vs-Rep2-em.sav 
EM estimation for the following files
A549-100nM-Dex-1h-p300-Rep1-ENCLB638EDU.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak
A549-100nM-Dex-1h-p300-Rep2-ENCLB376DZV.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak
$p
[1] 0.3309455

$rho1
[1] 0.7977566

$rho2
[1] 0

Write overlapped peaks and local idr to: IDR-A549-100nM-Dex-1h-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] 9977.689

$x.mean2
[1] 20872.38

$y.mean1
[1] 10286.69

$y.mean2
[1] 20719.19

$x.sd1
[1] 8894.454

$x.sd2
[1] 8363.789

$y.sd1
[1] 8487.728

$y.sd2
[1] 8759.264