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ay-lab / dcHiC

dcHiC: Differential compartment analysis for Hi-C datasets
MIT License
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Differential calling error #17

Closed sespesogil closed 3 years ago

sespesogil commented 3 years ago

Hi! Congrats for the nice tool!

I am a bit puzzled at the very end of running dcHiC.py where it launches the differential calling:

python /path/dchic/differentialCalling.py -inputFile input.txt -chrFile chromosomes.txt -multiComp 1 -makePlots 1 -res 100000 -genome mm10 -blacklist /path/dcHiC/files/mm10blacklist_sorted.bed

With the following error: Traceback (most recent call last): File "/path/dchic/differentialCalling.py", line 469, in main() File "/path/dchic/differentialCalling.py", line 363, in main checkInputs(0) File "/path/dchic/differentialCalling.py", line 205, in checkInputs names.append(temp[0]) IndexError: list index out of range

It seems that some of the files might not have the correct format. But it is strange , because the previous part of the code is running totally fine, getting the expected outputs.

I have a couple of samples per condition. My inputs looks like:

ctl.1 CTL /path/ctl.Rep1 ctl.2 CTL /path/ctl.Rep2 exp.1 EXP /path/exp.Rep1 exp.2 EXP /path/exp.Rep2

If I include -repParams it still gives me the same error. I will really appreciate if you could clarify. Thanks in advance

Kind regards,

S.

sespesogil commented 3 years ago

Hi again! I have solved it. One of my files was a bit funky , I rerun everything from scratch and now working nice.

Thanks!