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Fix bed file output's trailing tabs

Open gartician opened this issue 5 years ago • 1 comments

Hi RGT devs, thank you for your valuable bioinformatic contribution to the regulatory genetics space. This issue pertains to multiple packages in RGT.

There is a trailing tab the bed outputs of footprinting step in HINT-ATAC and the motifanalysis function. While seemingly benign, software like bedtools would throw an error which inhibits users from further downstream analysis. Since this problem happens across different RGT packages, I am hesitant to fix everything at once and just want to notify everyone in general.

These trailing tabs can be viewed by cat -t <file.bed> | head. The following is the output of footprinting and motifanalysis, respectively:

footprinting

image

motifanalysis

image

gartician avatar Sep 17 '20 00:09 gartician

Thanks, we'll have a look.

fabio-t avatar Sep 17 '20 06:09 fabio-t