Issue 239: Raw data for certain transitions not being imported from Xevo into Skyline

Assigned To:Guest
Opened:2013-05-16 by rschoenh
Changed:2017-10-18 by Brendan MacLean
Resolved:2013-08-09 by Brendan MacLean
Closed:2017-10-18 by Brendan MacLean
2013-05-16 rschoenh
Title»Raw data for certain transitions not being imported from Xevo into Skyline
Assigned To»
Hi Brendan,

I’m working on a Xevo at the moment, and I noticed that some of the MRM raw data for certain transitions are not being imported into Skyline (basically no data is shown for the transition in Skyline, not even noise, as if no raw data was even acquired for it, see attached). If I look at the transition’s raw data in the Xevo MassLynx software, however, I can see that data was acquired for that transition. I also tried to increase the "Method match tolerance m/z" setting from 0.055 to 0.1 and then reimporting the data, but that did not help. (My operating system is Windows 7 and I'm using Skyline-daily version

Thanks very much in advance for your help!


2013-06-22 Brendan MacLean
Assigned»Brendan MacLean
This turns out to be an issue in the Waters method export library where it exports transitions after the 5th per precursor with slightly different precursor m/z values. I have looked at the code in Skyline, and it would not be easy for skyline to recognize transitions with different precursor m/z values as coming from the same precursor.

So, the fix for this is going to have be integrating a new Waters method export library that maintains the same precursor m/z for all transitions of the same precursor.

2013-08-09 Brendan MacLean
resolve as Fixed
Assigned ToBrendan MacLean»
The issue in Waters method export has been fixed. Please close this issue, if you agree.

2017-10-18 Brendan MacLean