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can't create a bigwig file about pybigwig HOT 7 CLOSED

deeptools avatar deeptools commented on July 17, 2024
can't create a bigwig file

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Comments (7)

dpryan79 avatar dpryan79 commented on July 17, 2024

I wonder if this is a reproducible example of this deeptools/deepTools#641

Thanks for reporting this issue, I'll have a look!

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dpryan79 avatar dpryan79 commented on July 17, 2024

I can reproduce this with python 3.5 but not 2.7, I suspect it's a weird python 3 issue that I never took care of.

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rfarouni avatar rfarouni commented on July 17, 2024

@dpryan79 Thanks! Can I use the validate=False flag for now if I know the the order of the chromosomes?

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dpryan79 avatar dpryan79 commented on July 17, 2024

This is caused by the code incorrectly handling lists of python3 Unicode strings. Using validate=False will result in largely useless results (you won't be able to query anything), so you'll need for me to push out a fix (hopefully today or tomorrow).

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dpryan79 avatar dpryan79 commented on July 17, 2024

You've provided a nice test case, so version 0.3.10 with this fixed is likely to come out in a few hours.

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rfarouni avatar rfarouni commented on July 17, 2024

@dpryan79 Thanks!

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dpryan79 avatar dpryan79 commented on July 17, 2024

Version 0.3.10 is available via pip and I'm adding it to conda now.

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