is.broadpeak FALSE 
[1] "Fix 6 stops\n"
[1] "Fix 11 stops\n"
read /broad/hptmp/anshul/idr_1580616803/dPeak3-P300-K562-Rep1.relaxed.narrowPeak_1580616803 :  75220 peaks
 75220 peaks are left after cleaning
 /broad/hptmp/anshul/idr_1580616803/dPeak3-P300-K562-Rep2.relaxed.narrowPeak_1580616803 :  95247 peaks
 95247  peaks are left after cleaninghalf.width= reported 
significant measure= signal.value 
URI is done
URI is saved at: /broad/compbio/anshul/projects/encode3/evaluation/tfs/phase1/idrResults/origWidth/dPeak3/idr/dPeak3-P300-K562-Rep1_VS_dPeak3-P300-K562-Rep2-uri.sav 
EM is done

EM is saved at: /broad/compbio/anshul/projects/encode3/evaluation/tfs/phase1/idrResults/origWidth/dPeak3/idr/dPeak3-P300-K562-Rep1_VS_dPeak3-P300-K562-Rep2-em.sav 
EM estimation for the following files
/broad/hptmp/anshul/idr_1580616803/dPeak3-P300-K562-Rep1.relaxed.narrowPeak_1580616803
/broad/hptmp/anshul/idr_1580616803/dPeak3-P300-K562-Rep2.relaxed.narrowPeak_1580616803
$p
[1] 0.6604739

$rho1
[1] 0.7790013

$rho2
[1] 0

Write overlapped peaks and local idr to: /broad/compbio/anshul/projects/encode3/evaluation/tfs/phase1/idrResults/origWidth/dPeak3/idr/dPeak3-P300-K562-Rep1_VS_dPeak3-P300-K562-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] 16246.6

$x.mean2
[1] 28774.38

$y.mean1
[1] 16586.84

$y.mean2
[1] 28113.67

$x.sd1
[1] 10811.96

$x.sd2
[1] 9032.037

$y.sd1
[1] 11078.2

$y.sd2
[1] 9281.883