Changed folder structure, AutoQC not processing files through Skyline

Changed folder structure, AutoQC not processing files through Skyline paul mathews  2023-04-24 15:41:14

I originally had all my data going to the main folder in this account. I have since created some organization based on instrument/column and ionization mode. I deleted all runs from my previous imports when doing this.

When I tried to apply autoQC to the new file directories, I got an error saying results had already been imported, but nothing shows up in my dashboard.

I then removed spectra uploads (manage results) in the skyline document. Now I get the error "no existing files found".

I have double checked the "skyline file path" and "folder to watch", and icnluded the right patterns (all QC runs save to the same folder but are differentiated by "_pos" or "_neg".

Any advice?

Vagisha Sharma responded:  2023-04-24 15:58:48

Hi Paul,

Can you please attach the log file from AutoQC Loader? It is called AutoQC.log, and you will find it in a subfolder named for the configuration in the folder that has your Skyline document. You can also open this folder from the "Log" tab in AutoQC Loader by clicking the "Open folder" button.


paul mathews responded:  2023-04-24 16:01:57

Thanks, Vagisha. Here is the log.

Vagisha Sharma responded:  2023-04-24 23:05:27

Hi Paul,

Thanks for attaching the log file. There is a bug in AutoQC Loader that causes it to not register directory-based data (e.g. Bruker .d directories) when the "Include subfolders" box is checked. I will fix the bug but it may be a few days before I can make a new release. Until then can you uncheck "Include subfolders" and have all the data in a single folder? The "Contains" file filter should work as expected if you are not monitoring subfolders.

Thanks a lot for reporting this bug!