Peak calling fixing the merging bug

[anastasiia]

fixing the bug with merging of footprints, the code will soon be edited to look nice

[renewiegandt]

Thank you! The script is working. Please clean it up a little bit. Then it's ready to be merged.

[renewiegandt]

I noticed that your max pos column shows weird values:

#chr	start	end	name	score	strand	len	max_pos	bonus_info	contains_maxpos	sequence
chr1	3062850	3062913	f_265557.0	0.646041	.	63	-3062842	mDuxNeg_1,mDuxPos_1;NA;NA;NA;NA;NA;NA;NA;NA;NA	0	TCTTGGTGCCTGTTGCCAGCCTGTAGGTGATTTGCTGGATACTGTCTCCTGAATATCTCAAGG
chr1	3062931	3062945	f_265557.1	0.646041	.	14	-3062923	mDuxNeg_1,mDuxPos_1;NA;NA;NA;NA;NA;NA;NA;NA;NA	0	GTGTCTTGGAGAAC
chr1	3063012	3063058	f_265559.0	0.643709	.	46	-3062988	mDuxNeg_1,mDuxPos_1;NA;NA;NA;NA;NA;NA;NA;NA;NA	0	AGTGGCACCAAGGACTAAGCCAGCCTACTCAAGGCTGGGGGAGGCT
chr1	3063102	3063122	f_265559.1	0.643709	.	20	-3063078	mDuxNeg_1,mDuxPos_1;NA;NA;NA;NA;NA;NA;NA;NA;NA	0	CTTATTTCACATACTGAATA

[anastasiia]

the shown output is not from my script, as I don't write the column with the sequence

[renewiegandt]

Yeah i noticed it. Sorry, it was late at night :D

[renewiegandt]

My suggestion is to merge it to dev even if it may contain a bug. We need to get everything together to do a proper check.
But please remove the comments that contain code.

[renewiegandt]

I would rename the parameter max_bp_between to max_gapor max_bp_gap

[anastasiia]

ok, I have changed the name of parameter from max_bp_between to min_gap