biology/py-htseq2.1.2_2

*/*: bump PORTREVISION after switching to NumPy 2.x

*/*: Switch to NumPy 2.x

PR:		294328
Exp-run:	antoine

python.mk: retire ${PYNUMPY}

With both math/py-numpy (2) and math/py-numpy1, the variable stopped
making sense. Also remove the upper version bound.

math/py-numpy: switch all consumers to math/py-numpy1

...and bump PORTREVISIONs of consumers with hard RUN_DEPENDS

PR: 281470

biology/py-htseq: Update 2.0.9 => 2.1.2

Changelogs:
* https://github.com/htseq/htseq/compare/release_2.0.9...release_2.1.2

* Pet portclippy(1) and portfmt(1)

Approved by: db@, yuri@ (Mentors, implicit)

all: bump PORTREVISION after updating graphics/libyuv

Using the Tools/scripts/bump_revision.pl script

*/*: Älven's ports to use FreeBSD.org email

PR:		288046
Approved by:	mentors db@, yuri@ (implicit)

python: bump all USE_PYTHON=distutils consumers after RUN_DEPENDS removal

Any missed ports, feel free to bump.

Any ports that need setuptools at runtime can have the devel/py-setuptools
manually added back to RUN_DEPENDS, but understand that this practice
is deprecated; see CHANGES for details.

py-htseq: New maintainer

biology/py-htseq: Update to 2.0.9

Numerous updates and fixes since 2.0.4
Changes: https://github.com/htseq/htseq/commits/main/

PR:             282940
Reported by:    alster@vinterdalen.se

biology/py-htseq: Fix build with python-3.11

PR:		275494
Approved by:	portmgr@(blanket, fix build)

biology/py-htseq: Update to 2.0.4

Mainly improved warnings
Changes: https://github.com/htseq/htseq

Reported by:    portscout

biology/py-htseq: Python library for sequence analysis

HTSeq is a Python library to facilitate programmatic analysis of data
from high-throughput sequencing (HTS) experiments. A popular component
of HTSeq is htseq-count, a script to quantify gene expression in bulk
and single-cell RNA-Seq and similar experiments.