git: 8821501c8ec8 - main - biology/py-orange3-single-cell: Remove expired port

The branch main has been updated by rene:

URL: https://cgit.FreeBSD.org/ports/commit/?id=8821501c8ec873758bd70f04b64d756edddf6202

commit 8821501c8ec873758bd70f04b64d756edddf6202
Author:     Rene Ladan <rene@FreeBSD.org>
AuthorDate: 2025-06-23 18:49:24 +0000
Commit:     Rene Ladan <rene@FreeBSD.org>
CommitDate: 2025-06-23 18:49:24 +0000

    biology/py-orange3-single-cell: Remove expired port
    
    2025-06-21 biology/py-orange3-single-cell: Depends on expired math/py-fastdtw and expiring misc/orange3
---
 MOVED                                              |  1 +
 biology/Makefile                                   |  1 -
 biology/py-orange3-single-cell/Makefile            | 46 ----------------------
 biology/py-orange3-single-cell/distinfo            |  3 --
 .../py-orange3-single-cell/files/patch-doc_conf.py | 10 -----
 biology/py-orange3-single-cell/pkg-descr           |  2 -
 6 files changed, 1 insertion(+), 62 deletions(-)

diff --git a/MOVED b/MOVED
index 2be325716984..d793a29c8da3 100644
--- a/MOVED
+++ b/MOVED
@@ -4525,3 +4525,4 @@ devel/py-pytest4-cov||2025-06-23|Has expired: Depends on expiring devel/py-pytes
 devel/py-spyder-unittest||2025-06-23|Has expired: Depends on expiring devel/spyder
 comms/py-pynitrokey||2025-06-23|Has expired: Depends on expiring comms/py-spsdk
 devel/bit||2025-06-23|Has expired: Upstream ceased development
+biology/py-orange3-single-cell||2025-06-23|Has expired: Depends on expired math/py-fastdtw and expiring misc/orange3
diff --git a/biology/Makefile b/biology/Makefile
index 590109724958..45fce4f6412c 100644
--- a/biology/Makefile
+++ b/biology/Makefile
@@ -190,7 +190,6 @@
     SUBDIR += py-newick
     SUBDIR += py-ont-fast5-api
     SUBDIR += py-orange3-bioinformatics
-    SUBDIR += py-orange3-single-cell
     SUBDIR += py-pandas-charm
     SUBDIR += py-py2bit
     SUBDIR += py-pybigwig
diff --git a/biology/py-orange3-single-cell/Makefile b/biology/py-orange3-single-cell/Makefile
deleted file mode 100644
index 54d72a4516fd..000000000000
--- a/biology/py-orange3-single-cell/Makefile
+++ /dev/null
@@ -1,46 +0,0 @@
-PORTNAME=	orange3-single-cell
-DISTVERSION=	0.8.2
-PORTREVISION=	6
-CATEGORIES=	biology python
-PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
-
-MAINTAINER=	yuri@FreeBSD.org
-COMMENT=	Orange add-on for gene expression of single cell data
-WWW=		https://singlecell.biolab.si/
-
-LICENSE=	AGPLv3+
-
-DEPRECATED=	Depends on expired math/py-fastdtw and expiring misc/orange3
-EXPIRATION_DATE=2025-06-21
-
-RUN_DEPENDS=	orange3>0:misc/orange3 \
-		${PYTHON_PKGNAMEPREFIX}orange3-bioinformatics>0:biology/py-orange3-bioinformatics@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}astropy>0:astro/py-astropy@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}fastdtw>0:math/py-fastdtw@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}joblib>=0.11:devel/py-joblib@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}loompy>=2.0.10:biology/py-loompy@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}networkx>0:math/py-networkx@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}pandas>=0.23:math/py-pandas@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}scikit-learn>0:science/py-scikit-learn@${PY_FLAVOR} \
-		${PYNUMPY}
-
-# Supports 3.4+ but loompy 3.6+ only.
-USES=		python
-USE_GITHUB=	yes
-GH_ACCOUNT=	biolab
-USE_PYTHON=	distutils autoplist
-
-NO_ARCH=	yes
-
-OPTIONS_DEFINE=	DOCS
-
-DOCS_BUILD_DEPENDS=	gmake:devel/gmake \
-			${PYTHON_PKGNAMEPREFIX}sphinx>=0,1:textproc/py-sphinx@${PY_FLAVOR}
-
-pre-build-DOCS-on:
-	@cd ${WRKSRC}/doc && ${SETENV} ${MAKE_ENV} ${GMAKE} html htmlhelp SPHINXBUILD=${LOCALBASE}/bin/sphinx-build-${PYTHON_VER}
-
-pre-build-DOCS-off:
-	@${REINPLACE_CMD} "s|^    include_documentation|    #include_documentation|" ${WRKSRC}/setup.py
-
-.include <bsd.port.mk>
diff --git a/biology/py-orange3-single-cell/distinfo b/biology/py-orange3-single-cell/distinfo
deleted file mode 100644
index ed5f301ce6e1..000000000000
--- a/biology/py-orange3-single-cell/distinfo
+++ /dev/null
@@ -1,3 +0,0 @@
-TIMESTAMP = 1539761270
-SHA256 (biolab-orange3-single-cell-0.8.2_GH0.tar.gz) = eebda4303c208951fcbe8f383e0f310b20abedba425b0c68bbe65ae2806cc1bb
-SIZE (biolab-orange3-single-cell-0.8.2_GH0.tar.gz) = 5521782
diff --git a/biology/py-orange3-single-cell/files/patch-doc_conf.py b/biology/py-orange3-single-cell/files/patch-doc_conf.py
deleted file mode 100644
index a3ecb4c652db..000000000000
--- a/biology/py-orange3-single-cell/files/patch-doc_conf.py
+++ /dev/null
@@ -1,10 +0,0 @@
-# add_stylesheet() deprecated on Sphinx 4.0
-# https://www.sphinx-doc.org/en/master/extdev/deprecated.html
---- doc/conf.py.orig	2018-10-15 08:43:14 UTC
-+++ doc/conf.py
-@@ -288,4 +288,4 @@ texinfo_documents = [
- #texinfo_no_detailmenu = False
- 
- def setup(app):
--    app.add_stylesheet('style.css')
-+    app.add_css_file('style.css')
diff --git a/biology/py-orange3-single-cell/pkg-descr b/biology/py-orange3-single-cell/pkg-descr
deleted file mode 100644
index 05cf4bfc5f8a..000000000000
--- a/biology/py-orange3-single-cell/pkg-descr
+++ /dev/null
@@ -1,2 +0,0 @@
-The Single Cell add-on for Orange3 adds functionality for analysis of single
-cell data.