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===> PyVCF3 <<===

Open dridk opened this issue 3 years ago • 9 comments

PYVCF3 is available here : https://pypi.org/project/PyVCF3/

As the project is not maintained anymore, but very used... I suggest to make a fork and rename the project as "PyVCF2" on pypi. We will finally be able merge the pull requests. Who's motivated?

dridk avatar Jan 13 '22 21:01 dridk

I suggest to start from the last critical fix

https://github.com/ousamg/[email protected]

dridk avatar Jan 13 '22 22:01 dridk

I did one here named "PyVCF3" . Those one works on python3 only :

https://pypi.org/project/PyVCF3/1.0.0/

I m going to merge some pull request right now.

dridk avatar Jan 28 '22 19:01 dridk

I'll start using that and have some fixes I can prob add. This has been abandoned a long time, but still one of the better VCF parsers. Thanks for rescuing it.

iamh2o avatar Jan 30 '22 15:01 iamh2o

No problem ! I already merge some pull request and did some improvement

dridk avatar Jan 30 '22 17:01 dridk

@dridk Thank you. I don't work with vcf files that often and just found the bug in the original version. Unfortunately, maintaining repos is a drudge.

pkMyt1 avatar Feb 11 '22 15:02 pkMyt1

Thank you very much @dridk

Could you open the issues on your repository? I encounter #337 even with PyVCF3 (edit: the problem was the VCF file and not pyvcf)

gdurif avatar Mar 01 '22 18:03 gdurif

you can rate the project to make it known by other

dridk avatar Mar 01 '22 18:03 dridk

Could you open the issues on your repository?

Agreed, this would be very handy.

I've also created a recipe on bioconda for pyvcf3 https://github.com/bioconda/bioconda-recipes/pull/34505

mbhall88 avatar Apr 26 '22 00:04 mbhall88

I just open the issues page on pyvcf3 ! It was disabled, sorry...
https://github.com/dridk/PyVCF3/issues/1

dridk avatar Apr 26 '22 07:04 dridk