is.broadpeak FALSE 
[1] "Fix 1 stops\n"
read A549-100nM-Dex-30min-H3K27ac-ENCFF432NFM.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.top100K-p-value-sort :  100000 peaks
 100000 peaks are left after cleaning
 A549-100nM-Dex-30min-H3K27ac-ENCFF943CYX.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.top100K-p-value-sort :  100000 peaks
 100000  peaks are left after cleaninghalf.width= reported 
significant measure= p.value 
URI is done
URI is saved at: IDR-A549-100nM-Dex-30min-H3K27ac-ENCFF432NFM-vs-ENCFF943CYX-uri.sav 
EM is done

EM is saved at: IDR-A549-100nM-Dex-30min-H3K27ac-ENCFF432NFM-vs-ENCFF943CYX-em.sav 
EM estimation for the following files
A549-100nM-Dex-30min-H3K27ac-ENCFF432NFM.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.top100K-p-value-sort
A549-100nM-Dex-30min-H3K27ac-ENCFF943CYX.hg20-male.36mers.unique.MACS-2.1.0.p1e-1_peaks.narrowPeak.top100K-p-value-sort
$p
[1] 0.6881804

$rho1
[1] 0.8861934

$rho2
[1] 0

Write overlapped peaks and local idr to: IDR-A549-100nM-Dex-30min-H3K27ac-ENCFF432NFM-vs-ENCFF943CYX-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] 21768.22

$x.mean2
[1] 45500.35

$y.mean1
[1] 21760.08

$y.mean2
[1] 45518.28

$x.sd1
[1] 14135.91

$x.sd2
[1] 8999.105

$y.sd1
[1] 14163.97

$y.sd2
[1] 8853.395