eicParamEsts : maxPw length is zero. Check how scans are being matched.

[wushaowen1992]

Dear who it may concern:
I am trying to follow the AutoTuner.Rmd script and the data from mtbls2 package to learn how to use this good tool.
However, in the step
eicParamEsts <- EICparams(Autotuner = Autotuner,
massThresh = .005,
verbose = FALSE,
returnPpmPlots = FALSE,
useGap = TRUE)
I got an error:
Error in findPeakWidth(approvScorePeaks = approvScorePeaks, mzDb = mzDb, :
maxPw length is zero. Check how scans are being matched.

Currently on sample 1
--- Currently on peak: 1
Warning: NAs introduced by coercionWarning: NAs introduced by coercion--- Currently on peak: 2
Warning: NAs introduced by coercionWarning: NAs introduced by coercion--- Currently on peak: 3
Warning: NAs introduced by coercionWarning: NAs introduced by coercionError in findPeakWidth(approvScorePeaks = approvScorePeaks, mzDb = mzDb, :
maxPw length is zero. Check how scans are being matched.

What cause this error? how can I fix it?
Thank you for your help.

[froz9]

Could you solve it? I have the same issue and, I don't know how to fix it

[wushaowen1992]

No, I am not able to solve it.

[Pembs]

@wushaowen1992 please could you let me know whether you have managed to overcome this error - was wondering whether this is using the example data they have or did you also get this with your own data? I'm going to try with a small set of my own data and see if I get the same error - all the best

[wushaowen1992]

@Pembs unfortunately, I haven't. As I remember, I have tried both example data from mtbls2 package and my own data, and got the same error. It would be excellent if you can help to overcome this error. Thank you in advance.

[Pembs]

@wushaowen1992 thank you for your reply :) I'm also experiencing issues with my own data (I've just tried using 7 QC samples) - will certainly update if I get it working.

[yufree]

I just fixed this issue. Try this to install my open source version of Autotuner:

install.packages("Autotuner", repos="https://yufree.github.io/drat")

The major issue is the regex forheader$spectrumId is outdated. Now the spectrumId is begin with spectrum=.
If the author agree, I could send a PR. Similar to #34

[Pembs]

@yufree Thank you so much - this works now! Much appreciated, will close my #34 issue. Thanks again!