Package won't recognise raw data files
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bhgyu ▴ 30
@bhgyu-13069
Last seen 3.2 years ago

Hi guys, 

I'm running the CAMERA package from bioconductor. 

I've created an xcmsSet by c-binding multiple single xcmsSets, which all works fine. However, when I then later come back to the saved session to do annotation, Camera throws in the following error:

xsaC <- groupCorr(xsaF) 
Start grouping after correlation.
Generating EIC's .. 
Error in getAllPeakEICs(object, index = index) : 
  Raw data file:D:/Metab/Data/DATA FOR R/Aqueous Neg/SJ55.CDF not found ! 

I've set the working directory to 

D:/Metab/Data/DATA FOR R/Aqueous Neg which contains all the raw files including SJ55.CDF, but the error remains. 

Can I somehow point to the file for the package to recognise it?


Cheers!

 

camera metabolomics r • 662 views
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Did you move the original CDF files after having performed the peak detection?

what is the output of filepaths(xsaF) (assuming xsaF is an xcmsSet object)?

And can you please provide the output from sessionInfo()?

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Yes, they were moved between computers,

Overwriting "filepaths" works!

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