I know someone else got the "Search failed" message before and I had some theories about what might have gone wrong, but I did not hear back so I am not sure if any of those theories were correct:
https://skyline.ms/announcements/home/support/thread.view?rowId=61146
If you would like, you could send us your files and we could see if we can figure out what is going wrong.
You could zip up all your files and upload them here:
https://skyline.ms/files.url
It would also be helpful if you could include some screenshots of the pages of the "Import Peptide Search" wizard so that we can see which settings you used when we try to reproduce your error.
I think in some of these cases the reason that the search failed was that the FASTA file was much too small. I am not sure what the minimum size of the FASTA file should be, but I imagine it should be a few hundred proteins at least.
-- Nick