Skyline is not a good tool for looking at direct infusion data.
Probably the biggest problem is that Skyline assumes that the "background" level can be determined by taking the lower of either the amount of signal at the start or end of the peak:
When you have direct infusion data, the "background" level ends up being very close to the total signal.
It is possible to tell Skyline not to do background subtraction. If you go to "Settings > Transition Settings > Instrument" and check the "Triggered chromatogram acquisition" checkbox, then Skyline will no longer do background subtraction. That checkbox was put there to support Thermo SureQuant datasets, and, while it probably will also help for direct infusion data, there are probably other reasons that Skyline will not be able to do a good job on your data.
Even though the numbers that you get out of Skyline will probably not be useful, you should still be able to get chromatograms. I do not know why Skyline would be telling you that no chromatograms were found.
If you send us your Skyline document and your raw files, I could take a look.
In Skyline you can use the menu item:
File > Share
to create a .zip file containing your Skyline document and supporting files including extracted chromatograms.
If that .zip file and your raw files are less than 50MB you can attach them to this support request.
You can upload larger files here: