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Conda package dependencies #35

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mweberr opened this issue Dec 2, 2020 · 2 comments
Open

Conda package dependencies #35

mweberr opened this issue Dec 2, 2020 · 2 comments

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@mweberr
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mweberr commented Dec 2, 2020

Hi, I tried to conda install SeqSero2 and I was wondering about the following dependencies :
bedtools : 2.17 (instead of 2.29)
biopython: 1.73 instead of 1.74

Can this be fixed ?
Best, Michael
@VT-20
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VT-20 commented Feb 5, 2021

Please go ahead and install the updated versions of these since updated versions also work well. I ran with bedtools 2.27 (bio python 1.73 though), so I know that. Hope it helps.

@LSTUGA
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LSTUGA commented Mar 21, 2021

@MichWeb75 I ran SeqSero2 with bedtools 2.29 and it works well. Could you please let me know what the problem is?
Sorry the problem with 1.74 can't be fixed. It is due to a bug in Biopython 1.74 (biopython/biopython#2179). This bug was fixed in Biopython 1.75, so SeqSero2 should work well with Biopython 1.75.

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@mweberr @LSTUGA @VT-20