Protblem with retcor.orbiwarp

November 20, 2013, 05:06:35 PM

Hello,

I have the following dataset named 's' :

An "xcmsSet" object with 11 samples

Time range: 1-29867.1 seconds (0-497.8 minutes)
Mass range: 380.0953-1997.3205 m/z
Peaks: 1277863 (about 116169 per sample)
Peak Groups: 58175
Sample classes: Invasive, Non_invasive

Profile settings: method = bin
step = 0.1

Memory usage: 120 MB

This set has been grouped with bw=30

and then I ran the following:

s.rc<-retcor(s,method="obiwarp",plottype="deviation")

and I get the following:
center sample: BCa17-pT2
Processing: BCa09-pT2 Found gaps: cut scantime-vector at 3579.31 seconds
Found gaps: cut scantime-vector at 2732.76 seconds
BCa12-pT2 Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 4085.53 seconds
BCa13-pT2 Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 3689.54 seconds
BCa14-pT2 Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 3647.25 seconds
BCa15-pT2 Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 3255.16 seconds
BCa03-pTa Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 3896.2 seconds
BCa06-pTa Found gaps: cut scantime-vector at 3579.31 seconds
Found gaps: cut scantime-vector at 2823.66 seconds
BCa11-pTa Found gaps: cut scantime-vector at 3579.31 seconds
Found gaps: cut scantime-vector at 3981.56 seconds
BCa16-pTa Found gaps: cut scantime-vector at 3579.31 seconds
Found gaps: cut scantime-vector at 3010.19 seconds
BCa19-pTa Found gaps: cut scantime-vector at 3555.44 seconds
Found gaps: cut scantime-vector at 1795.01 seconds

Any idea what's wrong?

Thanks in advance

Re: Protblem with retcor.orbiwarp

Reply #1 – June 27, 2014, 04:17:14 AM

Hello,

I experimented exactly the same error.

Any suggestion?

Thanks