Re: [Biopython] Planning Biopython 1.87

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Also https://github.com/biopython/biopython/issues/5109 which Michiel has
been working on.

Peter

On Wed, Jan 21, 2026 at 2:29=E2=80=AFPM Peter Cock <[email protected]=
om>
wrote:

> Dear Biopythoneers,
>
> I think once the following are resolved (they have pull requests), we
> should do the next release:
>
> * NumPy 2.4 compatibility
>    https://github.com/biopython/biopython/issues/5135
>
> * Using pyproject.toml rather than setup.py
>    https://github.com/biopython/biopython/pull/5142
>
> Ideally sooner rather than later as the PDB _ATOM_FORMAT_STRING glitch
> introduced in Biopython 1.86 seems to be hitting a lot of people:
> https://github.com/biopython/biopython/issues/5097
>
> Is there anything else you think is urgent enough to wait on?
>
> Thanks,
>
> Peter
>

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<div dir=3D"ltr"><div>Also=C2=A0<a href=3D"https://github.com/biopython/bio=
python/issues/5109">https://github.com/biopython/biopython/issues/5109</a> =
which=C2=A0<span class=3D"gmail-kY2IgmnCmOGjharHErah"><span>Michiel</span><=
/span>=C2=A0has been working on.</div><div><br></div><div>Peter</div></div>=
<br><div class=3D"gmail_quote gmail_quote_container"><div dir=3D"ltr" class=
=3D"gmail_attr">On Wed, Jan 21, 2026 at 2:29=E2=80=AFPM Peter Cock &lt;<a h=
ref=3D"mailto:[email protected]">[email protected]</a>&gt; =
wrote:<br></div><blockquote class=3D"gmail_quote" style=3D"margin:0px 0px 0=
px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div dir=
=3D"ltr"><div>Dear Biopythoneers,</div><div><br></div><div>I think once the=
 following are resolved (they have pull requests), we should do the next re=
lease:</div><div><br></div><div>* NumPy 2.4 compatibility</div><div>=C2=A0 =
=C2=A0<a href=3D"https://github.com/biopython/biopython/issues/5135" target=
=3D"_blank">https://github.com/biopython/biopython/issues/5135</a></div><di=
v><br></div><div>* Using pyproject.toml rather than setup.py</div><div>=C2=
=A0 =C2=A0<a href=3D"https://github.com/biopython/biopython/pull/5142" targ=
et=3D"_blank">https://github.com/biopython/biopython/pull/5142</a></div><di=
v><br></div><div>Ideally sooner rather than later as the PDB=C2=A0_ATOM_FOR=
MAT_STRING glitch introduced in=C2=A0Biopython 1.86 seems to be hitting a l=
ot of people:</div><div><a href=3D"https://github.com/biopython/biopython/i=
ssues/5097" target=3D"_blank">https://github.com/biopython/biopython/issues=
/5097</a></div><div><br></div><div>Is there anything else you think is urge=
nt enough to wait on?</div><div><br></div><div>Thanks,</div><div><br></div>=
<div>Peter</div></div>
</blockquote></div>

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