Print Page - Scan time error

Title: Scan time error
Post by: pphapale on June 19, 2014, 12:40:43 AM

Dear all,
Please help in sorting this error message:
Error in xcmsRaw(arg$file, profmethod = params$profmethod, profparam = params$profparam, :
Time for scan 23539 (1675.653) greater than scan 23540 (0)
In addition: Warning message:
In xcmsRaw(arg$file, profmethod = params$profmethod, profparam = params$profparam, :
There are identical scantimes.

Title: Re: Scan time error
Post by: Jan Stanstrup on June 19, 2014, 04:38:26 AM

How did you convert the files?
See http://metabolomics-forum.com/viewtopic.php?f=25&t=191 (http://metabolomics-forum.com/viewtopic.php?f=25&t=191) and viewtopic.php?f=26&t=359&p=1694 (http://www.metabolomics-forum.com/viewtopic.php?f=26&t=359&p=1694).

Title: Re: Scan time error
Post by: pphapale on June 19, 2014, 05:38:38 AM

Thanks for reply.
I have converted CDF files using Xcalibar file converter tools.
How can I check integrity of file conversion.
Regards,
Prasad

Title: Re: Scan time error
Post by: pphapale on June 19, 2014, 05:48:34 AM

Just to add I am using Q-Exactive Plus raw data files for coversion to cdf using Xcalibar

Title: Re: Scan time error
Post by: Jan Stanstrup on June 25, 2014, 06:13:28 AM

Maybe run them through msconvert as described here: http://metabolomics-forum.com/viewtopic ... aa5af76370 (http://metabolomics-forum.com/viewtopic.php?f=25&t=191&sid=3f8388bd79dbcfb287ce31aa5af76370)

From the error message it seems Xcalibar inserts scans with time 0.

Metabolomics Society Forum

Software => R => XCMS => Topic started by: pphapale on June 19, 2014, 12:40:43 AM