Keller McKowen

[shortcis.txt](https://github.com/daler/metaseq/files/556316/shortcis.txt)

Yes, here is the first line of the output: (u'chr2R', 702320, 702325) not sure what the significance of the 'u' is. I'll attach the full gff3. [htscis.txt](https://github.com/daler/metaseq/files/556363/htscis.txt)

Can gffutils make a database from BED files? I have used the same formatting before (with blank fields). But thank you for the sanity check.

python script: [htshort.txt](https://github.com/daler/metaseq/files/556576/htshort.txt) signal file: (I was using Bigwigs but switched to gff3 in order to send it on this message board. [h3k27ac.txt](https://github.com/daler/metaseq/files/556579/h3k27ac.txt) Window file: I have sent previously as...

Ah I am sorry. Oddly enough it did reproduce the same error message. The chromosome name will definately cause a subsequent error. As I am sure you know the fly...