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mckennalab / FlashFry

FlashFry: The rapid CRISPR target site characterization tool
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Input string error #8

Closed lo2811 closed 5 years ago

lo2811 commented 5 years ago

Hi Aaron,

I am running into a error while testing FlashFry to look for gRNA in my dataset. I have 12 sequences(100bp/each), use hg38 assembly. I was able to get the "discover" function to work (output file looked fine), however I received this error for the "score" function:

screen shot 2019-02-04 at 11 24 26 am

I was able to get through "score" function to get the scoring for individual sequences, but not the whole dataset. Do you know what went wrong?

Thank you, Linh

aaronmck commented 5 years ago

Hi Linh,

Sorry, it looks like it found an empty line in the input file, I'll see if I can track it down. If your input data file isn't too sensitive, is there a chance you could share it with me? My email is aaronmck at uw.edu. If not no worries, I should still be able to figure it out.

Thanks! -Aaron

aaronmck commented 5 years ago

We figured out the problem was spaces / tabs in the names of the input fasta file. I'll add some detection for this issue.