diff options
| author | Jason W. Bacon <jwb@FreeBSD.org> | 2026-08-11 17:44:32 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2026-08-11 17:44:32 +0000 |
| commit | 08256be5a8582d2a23383495dc6a1ab477da3f97 (patch) | |
| tree | f4fe7fac843126b949b4f6c137a5e4d5465676bb | |
| parent | d133edcc795d632c0516ed225a2ce32a6e39fbd0 (diff) | |
biology/py-macs2: Remove
MACS2 is dead upstream, with no plans to make it compatible with
cython 3.x or other newer dependencies. Though the port was
set to expire in another month, I'm removing it now to stop wasting
package building resources. It has not been buildable for some time.
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/py-macs2/Makefile | 40 | ||||
| -rw-r--r-- | biology/py-macs2/distinfo | 3 | ||||
| -rw-r--r-- | biology/py-macs2/pkg-descr | 4 |
4 files changed, 0 insertions, 48 deletions
diff --git a/biology/Makefile b/biology/Makefile index 802b08222e63..43554eb9416e 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -183,7 +183,6 @@ SUBDIR += py-libnuml SUBDIR += py-libsedml SUBDIR += py-loompy - SUBDIR += py-macs2 SUBDIR += py-macs3 SUBDIR += py-mrcfile SUBDIR += py-multiqc diff --git a/biology/py-macs2/Makefile b/biology/py-macs2/Makefile deleted file mode 100644 index a3795d4921ed..000000000000 --- a/biology/py-macs2/Makefile +++ /dev/null @@ -1,40 +0,0 @@ -PORTNAME= macs2 -DISTVERSIONPREFIX= v -DISTVERSION= 2.2.9.1 -PORTREVISION= 3 -CATEGORIES= biology python -PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} - -MAINTAINER= jwb@FreeBSD.org -COMMENT= Identify transcription factor binding sites -WWW= https://github.com/taoliu/MACS - -LICENSE= BSD3CLAUSE -LICENSE_FILE= ${WRKSRC}/LICENSE - -DEPRECATED= Depends on expired lang/cython0 -EXPIRATION_DATE=2026-09-15 - -BUILD_DEPENDS= ${PYTHON_PKGNAMEPREFIX}numpy>=1.16:math/py-numpy@${PY_FLAVOR} -RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}numpy>=1.16:math/py-numpy@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}cykhash>0:devel/py-cykhash@${PY_FLAVOR} -TEST_DEPENDS= ${PYTHON_PKGNAMEPREFIX}pytest>0:devel/py-pytest@${PY_FLAVOR} \ - bash:shells/bash - -USES= python shebangfix -USE_GITHUB= yes -USE_PYTHON= autoplist concurrent cython0 distutils - -GH_ACCOUNT= taoliu -GH_PROJECT= MACS -SHEBANG_FILES= test/cmdlinetest_update test/cmdlinetest test/prockreport - -post-stage: - ${STRIP_CMD} \ - ${STAGEDIR}${PYTHON_SITELIBDIR}/MACS2/*.so \ - ${STAGEDIR}${PYTHON_SITELIBDIR}/MACS2/*/*.so - -do-test: install - @cd ${WRKSRC}/test && ./cmdlinetest tag - -.include <bsd.port.mk> diff --git a/biology/py-macs2/distinfo b/biology/py-macs2/distinfo deleted file mode 100644 index e6da44033e73..000000000000 --- a/biology/py-macs2/distinfo +++ /dev/null @@ -1,3 +0,0 @@ -TIMESTAMP = 1691269587 -SHA256 (taoliu-MACS-v2.2.9.1_GH0.tar.gz) = 8e461dde82288280fe708cd4f5fec986fbf2da67b344f4dea5693af849549163 -SIZE (taoliu-MACS-v2.2.9.1_GH0.tar.gz) = 133109075 diff --git a/biology/py-macs2/pkg-descr b/biology/py-macs2/pkg-descr deleted file mode 100644 index 0310d2e092f8..000000000000 --- a/biology/py-macs2/pkg-descr +++ /dev/null @@ -1,4 +0,0 @@ -MACS is a tool for chromatin immunoprecipitation (ChIP) sequence analysis. -MACS empirically models the length of the sequenced ChIP fragments, which -tend to be shorter than sonication or library construction size estimates, -and uses it to improve the spatial resolution of predicted binding sites. |