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-rw-r--r--biology/atac-seq/Makefile1
-rw-r--r--biology/biostar-tools/Makefile1
-rw-r--r--biology/chip-seq/Makefile1
-rw-r--r--biology/coverm/Makefile2
-rw-r--r--biology/fasda-utils/Makefile1
-rw-r--r--biology/groopm/Makefile2
-rw-r--r--biology/kmcp/Makefile2
-rw-r--r--biology/linux-foldingathome/Makefile6
-rw-r--r--biology/ncbi-entrez-direct/Makefile2
-rw-r--r--biology/peak-classifier/Makefile2
-rw-r--r--biology/prodigy-lig/Makefile1
-rw-r--r--biology/py-PySCeS/Makefile1
-rw-r--r--biology/py-biopython/Makefile2
-rw-r--r--biology/py-deeptools/Makefile2
-rw-r--r--biology/py-dna-features-viewer/Makefile2
-rw-r--r--biology/py-gtfparse/Makefile1
-rw-r--r--biology/py-htseq/Makefile2
-rw-r--r--biology/py-multiqc/Makefile2
-rw-r--r--biology/py-pydeseq2/Makefile1
-rw-r--r--biology/py-scikit-bio/Makefile1
-rw-r--r--biology/rna-seq/Makefile1
-rw-r--r--biology/seqkit/Makefile2
-rw-r--r--biology/taxonkit/Makefile2
-rw-r--r--biology/unikmer/Makefile2
24 files changed, 26 insertions, 16 deletions
diff --git a/biology/atac-seq/Makefile b/biology/atac-seq/Makefile
index d55ab7d3d40d..d24e8007fcf1 100644
--- a/biology/atac-seq/Makefile
+++ b/biology/atac-seq/Makefile
@@ -1,5 +1,6 @@
PORTNAME= atac-seq
DISTVERSION= 0.2.0
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= # empty
diff --git a/biology/biostar-tools/Makefile b/biology/biostar-tools/Makefile
index 6002cae2fc71..2be07b115d09 100644
--- a/biology/biostar-tools/Makefile
+++ b/biology/biostar-tools/Makefile
@@ -1,5 +1,6 @@
PORTNAME= biostar-tools
PORTVERSION= 2.0
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= # empty
diff --git a/biology/chip-seq/Makefile b/biology/chip-seq/Makefile
index 5714a40951dd..6218595cd628 100644
--- a/biology/chip-seq/Makefile
+++ b/biology/chip-seq/Makefile
@@ -1,5 +1,6 @@
PORTNAME= chip-seq
DISTVERSION= 0.1.2
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= # empty
diff --git a/biology/coverm/Makefile b/biology/coverm/Makefile
index 366b6787dce1..9256b1dfe0c8 100644
--- a/biology/coverm/Makefile
+++ b/biology/coverm/Makefile
@@ -1,7 +1,7 @@
PORTNAME= coverm
DISTVERSIONPREFIX= v
DISTVERSION= 0.7.0
-PORTREVISION= 7
+PORTREVISION= 8
CATEGORIES= biology
MAINTAINER= yuri@FreeBSD.org
diff --git a/biology/fasda-utils/Makefile b/biology/fasda-utils/Makefile
index 854b7f13b7e0..510bc0a8309d 100644
--- a/biology/fasda-utils/Makefile
+++ b/biology/fasda-utils/Makefile
@@ -1,6 +1,7 @@
PORTNAME= fasda-utils
DISTVERSION= 0.1.0-2
DISTVERSIONSUFFIX= -gf9217f0
+PORTREVISION= 1
CATEGORIES= biology
MAINTAINER= jwb@FreeBSD.org
diff --git a/biology/groopm/Makefile b/biology/groopm/Makefile
index e4327194012a..e4767e0271e2 100644
--- a/biology/groopm/Makefile
+++ b/biology/groopm/Makefile
@@ -1,6 +1,6 @@
PORTNAME= GroopM
DISTVERSION= 0.3.4
-PORTREVISION= 5
+PORTREVISION= 6
CATEGORIES= biology python
MASTER_SITES= PYPI
diff --git a/biology/kmcp/Makefile b/biology/kmcp/Makefile
index 436e9292944d..a8ce982e074e 100644
--- a/biology/kmcp/Makefile
+++ b/biology/kmcp/Makefile
@@ -1,7 +1,7 @@
PORTNAME= kmcp
DISTVERSIONPREFIX= v
DISTVERSION= 0.9.4
-PORTREVISION= 14
+PORTREVISION= 15
CATEGORIES= biology
MAINTAINER= yuri@FreeBSD.org
diff --git a/biology/linux-foldingathome/Makefile b/biology/linux-foldingathome/Makefile
index 7df5db1a03c8..6b8c70ff3e5d 100644
--- a/biology/linux-foldingathome/Makefile
+++ b/biology/linux-foldingathome/Makefile
@@ -12,7 +12,7 @@ WWW= https://foldingathome.org/
# Distribution without permission is prohibited
LICENSE= FAHSL
LICENSE_NAME= Folding@home Software License
-LICENSE_FILE= ${WRKSRC}/${DISTNAME}/LICENSE
+LICENSE_FILE= ${WRKSRC}/${DISTNAME:T}/LICENSE
LICENSE_PERMS= no-dist-mirror no-dist-sell no-pkg-mirror no-pkg-sell \
auto-accept
@@ -55,7 +55,7 @@ DISTFILES= ${ONLY_FOR_ARCHS:@.ARCH.@${_DISTNAME_${.ARCH.}}${EXTRACT_SUFX}@}
.endif
do-install:
- ${INSTALL_PROGRAM} ${WRKSRC}/${DISTNAME}/fah-client ${STAGEDIR}${PREFIX}/bin/
+ ${INSTALL_PROGRAM} ${WRKSRC}/${DISTNAME:T}/fah-client ${STAGEDIR}${PREFIX}/bin/
@${MKDIR} ${STAGEDIR}${ETCDIR}
${INSTALL_DATA} ${FILESDIR}/config.xml.sample \
${STAGEDIR}${_FAHCLIENT_CONFIG_XML}.sample
@@ -63,7 +63,7 @@ do-install:
post-install-DOCS-on:
@${MKDIR} ${STAGEDIR}${DOCSDIR}
- ${INSTALL_MAN} ${PORTDOCS:S|^|${WRKSRC}/${DISTNAME}/|} \
+ ${INSTALL_MAN} ${PORTDOCS:S|^|${WRKSRC}/${DISTNAME:T}/|} \
${STAGEDIR}${DOCSDIR}
.include <bsd.port.mk>
diff --git a/biology/ncbi-entrez-direct/Makefile b/biology/ncbi-entrez-direct/Makefile
index 85ba1fe80dd4..eec6fb0553ef 100644
--- a/biology/ncbi-entrez-direct/Makefile
+++ b/biology/ncbi-entrez-direct/Makefile
@@ -1,6 +1,6 @@
PORTNAME= ncbi-entrez-direct
DISTVERSION= 14.9.20210423
-PORTREVISION= 30
+PORTREVISION= 31
CATEGORIES= biology perl5
MASTER_SITES= ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/versions/${PORTVERSION}/
DISTFILES= edirect.tar.gz
diff --git a/biology/peak-classifier/Makefile b/biology/peak-classifier/Makefile
index fc7ddb9226a8..68494512fcc6 100644
--- a/biology/peak-classifier/Makefile
+++ b/biology/peak-classifier/Makefile
@@ -1,7 +1,7 @@
PORTNAME= peak-classifier
DISTVERSION= 0.1.4-13
DISTVERSIONSUFFIX= -gfb89af3
-PORTREVISION= 1
+PORTREVISION= 2
CATEGORIES= biology
MAINTAINER= jwb@FreeBSD.org
diff --git a/biology/prodigy-lig/Makefile b/biology/prodigy-lig/Makefile
index ec7ceaea67be..37913457187b 100644
--- a/biology/prodigy-lig/Makefile
+++ b/biology/prodigy-lig/Makefile
@@ -1,6 +1,7 @@
PORTNAME= prodigy-lig
DISTVERSIONPREFIX= v
DISTVERSION= 1.1.3
+PORTREVISION= 1
CATEGORIES= biology python
MAINTAINER= yuri@FreeBSD.org
diff --git a/biology/py-PySCeS/Makefile b/biology/py-PySCeS/Makefile
index 5d0d40274f5a..7291292a9a83 100644
--- a/biology/py-PySCeS/Makefile
+++ b/biology/py-PySCeS/Makefile
@@ -1,5 +1,6 @@
PORTNAME= pysces
DISTVERSION= 1.2.2
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-biopython/Makefile b/biology/py-biopython/Makefile
index 2bfba7847829..4a6221924aac 100644
--- a/biology/py-biopython/Makefile
+++ b/biology/py-biopython/Makefile
@@ -1,6 +1,6 @@
PORTNAME= biopython
DISTVERSION= 1.85
-PORTREVISION= 1
+PORTREVISION= 2
CATEGORIES= biology python
MASTER_SITES= http://www.biopython.org/DIST/
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-deeptools/Makefile b/biology/py-deeptools/Makefile
index fcf917e832ff..383412b04c15 100644
--- a/biology/py-deeptools/Makefile
+++ b/biology/py-deeptools/Makefile
@@ -1,6 +1,6 @@
PORTNAME= deepTools
DISTVERSION= 3.5.2
-PORTREVISION= 1
+PORTREVISION= 2
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-dna-features-viewer/Makefile b/biology/py-dna-features-viewer/Makefile
index d29f8e043694..ebfa72d4bdb7 100644
--- a/biology/py-dna-features-viewer/Makefile
+++ b/biology/py-dna-features-viewer/Makefile
@@ -1,6 +1,6 @@
PORTNAME= dna-features-viewer
DISTVERSION= 3.1.3
-PORTREVISION= 1
+PORTREVISION= 2
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-gtfparse/Makefile b/biology/py-gtfparse/Makefile
index 584f7935729f..00b52550618d 100644
--- a/biology/py-gtfparse/Makefile
+++ b/biology/py-gtfparse/Makefile
@@ -1,5 +1,6 @@
PORTNAME= gtfparse
DISTVERSION= 2.5.0
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-htseq/Makefile b/biology/py-htseq/Makefile
index 68a608f3c79c..311252464790 100644
--- a/biology/py-htseq/Makefile
+++ b/biology/py-htseq/Makefile
@@ -1,6 +1,6 @@
PORTNAME= HTSeq
DISTVERSION= 2.0.9
-PORTREVISION= 1
+PORTREVISION= 2
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-multiqc/Makefile b/biology/py-multiqc/Makefile
index 8d8beda640a8..c03e6022d862 100644
--- a/biology/py-multiqc/Makefile
+++ b/biology/py-multiqc/Makefile
@@ -1,6 +1,6 @@
PORTNAME= multiqc
DISTVERSION= 1.25.2
-PORTREVISION= 2
+PORTREVISION= 3
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-pydeseq2/Makefile b/biology/py-pydeseq2/Makefile
index 79df1d1ad48c..d117262003fc 100644
--- a/biology/py-pydeseq2/Makefile
+++ b/biology/py-pydeseq2/Makefile
@@ -1,5 +1,6 @@
PORTNAME= pydeseq2
DISTVERSION= 0.5.2
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/py-scikit-bio/Makefile b/biology/py-scikit-bio/Makefile
index f3451e54a4bf..cf6465dcf46e 100644
--- a/biology/py-scikit-bio/Makefile
+++ b/biology/py-scikit-bio/Makefile
@@ -1,5 +1,6 @@
PORTNAME= scikit-bio
DISTVERSION= 0.6.3
+PORTREVISION= 1
CATEGORIES= biology education python
MASTER_SITES= PYPI
PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
diff --git a/biology/rna-seq/Makefile b/biology/rna-seq/Makefile
index 61a68e7a6c0c..2a35c927e991 100644
--- a/biology/rna-seq/Makefile
+++ b/biology/rna-seq/Makefile
@@ -1,5 +1,6 @@
PORTNAME= rna-seq
DISTVERSION= 0.1.4
+PORTREVISION= 1
CATEGORIES= biology python
MASTER_SITES= # empty
diff --git a/biology/seqkit/Makefile b/biology/seqkit/Makefile
index 32feed338333..8296fb570d6a 100644
--- a/biology/seqkit/Makefile
+++ b/biology/seqkit/Makefile
@@ -1,7 +1,7 @@
PORTNAME= seqkit
DISTVERSIONPREFIX= v
DISTVERSION= 2.10.0
-PORTREVISION= 5
+PORTREVISION= 6
CATEGORIES= biology
MAINTAINER= yuri@FreeBSD.org
diff --git a/biology/taxonkit/Makefile b/biology/taxonkit/Makefile
index af4e7ff36251..d84c2b6ea635 100644
--- a/biology/taxonkit/Makefile
+++ b/biology/taxonkit/Makefile
@@ -1,7 +1,7 @@
PORTNAME= taxonkit
DISTVERSIONPREFIX= v
DISTVERSION= 0.19.0
-PORTREVISION= 5
+PORTREVISION= 6
CATEGORIES= biology
MAINTAINER= yuri@FreeBSD.org
diff --git a/biology/unikmer/Makefile b/biology/unikmer/Makefile
index 96350b97b14b..f8635b6340bc 100644
--- a/biology/unikmer/Makefile
+++ b/biology/unikmer/Makefile
@@ -1,7 +1,7 @@
PORTNAME= unikmer
DISTVERSIONPREFIX= v
DISTVERSION= 0.20.0
-PORTREVISION= 9
+PORTREVISION= 10
CATEGORIES= biology
MAINTAINER= yuri@FreeBSD.org
generated by cgit v1.2.3 (git 2.25.1) at 2025-09-05 01:09:38 +0000