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-rw-r--r--science/afni/Makefile2
-rw-r--r--science/afni/distinfo6
-rw-r--r--science/fastjet/Makefile4
-rw-r--r--science/fastjet/distinfo6
-rw-r--r--science/fastjet/pkg-plist9
-rw-r--r--science/openmodelica/Makefile9
-rw-r--r--science/openmodelica/distinfo38
-rw-r--r--science/openmodelica/pkg-plist3
-rw-r--r--science/qt6-quick3dphysics/distinfo6
-rw-r--r--science/smoldyn/Makefile6
-rw-r--r--science/smoldyn/distinfo6
-rw-r--r--science/tinker/Makefile1
-rw-r--r--science/tinker/distinfo6
13 files changed, 53 insertions, 49 deletions
diff --git a/science/afni/Makefile b/science/afni/Makefile
index 03b6c1293688..c555c6c25e04 100644
--- a/science/afni/Makefile
+++ b/science/afni/Makefile
@@ -1,6 +1,6 @@
PORTNAME= afni
DISTVERSIONPREFIX= AFNI_
-DISTVERSION= 25.2.08
+DISTVERSION= 25.2.09
CATEGORIES= science biology graphics perl5 python
MAINTAINER= fernape@FreeBSD.org
diff --git a/science/afni/distinfo b/science/afni/distinfo
index 868bd723038d..4ec769ac8338 100644
--- a/science/afni/distinfo
+++ b/science/afni/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1755363504
-SHA256 (afni-afni-AFNI_25.2.08_GH0.tar.gz) = 99738df9ba9c7bfb8489b5f3bdc63588fa62045353c97807b510e08d90beebe3
-SIZE (afni-afni-AFNI_25.2.08_GH0.tar.gz) = 53323276
+TIMESTAMP = 1756108500
+SHA256 (afni-afni-AFNI_25.2.09_GH0.tar.gz) = ff6aacf8a4f2b0b60ea584ece08e23db665488bfb1978957f05f30df6c394e05
+SIZE (afni-afni-AFNI_25.2.09_GH0.tar.gz) = 53321640
diff --git a/science/fastjet/Makefile b/science/fastjet/Makefile
index 8990a1950f62..00a5ee17b4c4 100644
--- a/science/fastjet/Makefile
+++ b/science/fastjet/Makefile
@@ -1,5 +1,5 @@
PORTNAME= fastjet
-DISTVERSION= 3.4.3
+DISTVERSION= 3.5.1
CATEGORIES= science
MASTER_SITES= https://fastjet.fr/repo/
@@ -46,7 +46,7 @@ post-install:
@${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/lib*.so*
post-install-PYTHON-on:
- @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/_fastjet.so.0.0.0
+ @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/_fastjet_swig.so.0.0.0
do-test:
# python tests
diff --git a/science/fastjet/distinfo b/science/fastjet/distinfo
index c318c545d2f6..896e7e12357e 100644
--- a/science/fastjet/distinfo
+++ b/science/fastjet/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1730346663
-SHA256 (fastjet-3.4.3.tar.gz) = cc175471bfab8656b8c6183a8e5e9ad05d5f7506e46f3212a9a8230905b8f6a3
-SIZE (fastjet-3.4.3.tar.gz) = 2984798
+TIMESTAMP = 1755888400
+SHA256 (fastjet-3.5.1.tar.gz) = 9a4154163e72041dee3fdde9cb24e814625e178091a8734a6ad5375e5371b423
+SIZE (fastjet-3.5.1.tar.gz) = 3069022
diff --git a/science/fastjet/pkg-plist b/science/fastjet/pkg-plist
index 35b8c8caf328..5f83019a7641 100644
--- a/science/fastjet/pkg-plist
+++ b/science/fastjet/pkg-plist
@@ -129,11 +129,12 @@ lib/libsiscone_spherical.so
lib/libsiscone_spherical.so.0
lib/libsiscone_spherical.so.0.0.0
%%PYTHON%%%%PYTHON_SITELIBDIR%%/__pycache__/fastjet%%PYTHON_TAG%%.opt-1.pyc
+%%PYTHON%%%%PYTHON_SITELIBDIR%%/__pycache__/fastjet%%PYTHON_TAG%%.opt-2.pyc
%%PYTHON%%%%PYTHON_SITELIBDIR%%/__pycache__/fastjet%%PYTHON_TAG%%.pyc
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet.a
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet.so
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet.so.0
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet.so.0.0.0
+%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet_swig.a
+%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet_swig.so
+%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet_swig.so.0
+%%PYTHON%%%%PYTHON_SITELIBDIR%%/_fastjet_swig.so.0.0.0
%%PYTHON%%%%PYTHON_SITELIBDIR%%/fastjet.py
%%PYTHON%%%%DATADIR%%/pyinterface/FastJetPythonExtensions.hh
%%PYTHON%%%%DATADIR%%/pyinterface/fastjet-doc.i
diff --git a/science/openmodelica/Makefile b/science/openmodelica/Makefile
index dafafc57c8da..fd76e7f0a190 100644
--- a/science/openmodelica/Makefile
+++ b/science/openmodelica/Makefile
@@ -1,7 +1,6 @@
PORTNAME= openmodelica
DISTVERSIONPREFIX= v
-DISTVERSION= 1.25.1
-PORTREVISION= 1
+DISTVERSION= 1.25.2
CATEGORIES= science cad java
DIST_SUBDIR= ${PORTNAME}-${PORTVERSION}
@@ -54,15 +53,15 @@ GH_PROJECT= OpenModelica
SHEBANG_GLOB= *.sh *.in *.ac
GH_TUPLE= \
- OpenModelica:OMOptim:f1036f43db18c5015da259771004cfb80e08a110:OpenModelica_OMOptim/OMOptim \
- OpenModelica:OMSimulator:46fa40f:OpenModelica_OMSimulator/OMSimulator \
+ OpenModelica:OMOptim:d53288b:OpenModelica_OMOptim/OMOptim \
+ OpenModelica:OMSimulator:e3a3aeb:OpenModelica_OMSimulator/OMSimulator \
OpenModelica:OMSimulator-3rdParty:5c10de1648d1134a577d9284b58580a72383d89f:OpenModelica_OMSimulator_3rdParty/OMSimulator/3rdParty \
OpenModelica:OMCompiler-3rdParty:520663f:OpenModelica_OMCompiler_3rdParty/OMCompiler/3rdParty \
OpenModelica:OMSens:093ad11:OpenModelica_OMSens/OMSens \
OpenModelica:OMSens_Qt:bab329a:OpenModelica_OMSens_Qt/OMSens_Qt \
OpenModelica:OpenModelica-common:08a01802db5ba5edb540383c46718b89ff229ef2:OpenModelica_OpenModelica_common/OMOptim/common \
OpenModelica:OpenModelica-common:08a01802db5ba5edb540383c46718b89ff229ef2:OpenModelica_OpenModelica_common/OMSens_Qt/common
-GH_TUPLE+= OpenModelica:OMBootstrapping:91938f0acbdc6e9ba91114376e3640ca6147b579:bootstrapping/OMCompiler/Compiler/boot/bomc # downloaded by cmake
+GH_TUPLE+= OpenModelica:OMBootstrapping:04d16f7461e5401321f0f72613daf466ae2f76be:bootstrapping/OMCompiler/Compiler/boot/bomc # downloaded by cmake
# this should change make program everywhere, but it doesn't,
# hence the patches in OMCompiler/Compiler/runtime/CMakeLists.txt, OMEdit/OMEditLIB/Simulation/SimulationOutputWidget.cpp
diff --git a/science/openmodelica/distinfo b/science/openmodelica/distinfo
index 66b481d27d53..56ac7fddde4b 100644
--- a/science/openmodelica/distinfo
+++ b/science/openmodelica/distinfo
@@ -1,19 +1,19 @@
-TIMESTAMP = 1750120788
-SHA256 (openmodelica-1.25.1/OpenModelica-OpenModelica-v1.25.1_GH0.tar.gz) = f7d819fd7b838bad5ddbbd9ee585e49053464db68c0b9a406b2f9fea400ac2e5
-SIZE (openmodelica-1.25.1/OpenModelica-OpenModelica-v1.25.1_GH0.tar.gz) = 148275827
-SHA256 (openmodelica-1.25.1/OpenModelica-OMOptim-f1036f43db18c5015da259771004cfb80e08a110_GH0.tar.gz) = 11189c8ab3fb9d22ed805271ef53b9698b0d41007a1708d7a77ef074a5b20447
-SIZE (openmodelica-1.25.1/OpenModelica-OMOptim-f1036f43db18c5015da259771004cfb80e08a110_GH0.tar.gz) = 4022842
-SHA256 (openmodelica-1.25.1/OpenModelica-OMSimulator-46fa40f_GH0.tar.gz) = eb5fbb88b2cf6a3556c43ee4c0b446fb26a70be06ddfb4031e50636dc1af1048
-SIZE (openmodelica-1.25.1/OpenModelica-OMSimulator-46fa40f_GH0.tar.gz) = 92370094
-SHA256 (openmodelica-1.25.1/OpenModelica-OMSimulator-3rdParty-5c10de1648d1134a577d9284b58580a72383d89f_GH0.tar.gz) = ea57e90ea76eca2657e8ddaa6c87301a16661200b3e8a00347a12bfdbb5f973d
-SIZE (openmodelica-1.25.1/OpenModelica-OMSimulator-3rdParty-5c10de1648d1134a577d9284b58580a72383d89f_GH0.tar.gz) = 7637943
-SHA256 (openmodelica-1.25.1/OpenModelica-OMCompiler-3rdParty-520663f_GH0.tar.gz) = 37c82357fc1e862eb13d79cf1ff2d143f263502472db9bb2c350c0c551022954
-SIZE (openmodelica-1.25.1/OpenModelica-OMCompiler-3rdParty-520663f_GH0.tar.gz) = 50256095
-SHA256 (openmodelica-1.25.1/OpenModelica-OMSens-093ad11_GH0.tar.gz) = 335512c08f94902bb07e75278cea791370a551336272f7bebef8c707ef5e5e2b
-SIZE (openmodelica-1.25.1/OpenModelica-OMSens-093ad11_GH0.tar.gz) = 8871049
-SHA256 (openmodelica-1.25.1/OpenModelica-OMSens_Qt-bab329a_GH0.tar.gz) = 2f2dcba4defd7f13e9fd5e0c26bb4951b9f1fcc7da64960a6ad1cee32a628efa
-SIZE (openmodelica-1.25.1/OpenModelica-OMSens_Qt-bab329a_GH0.tar.gz) = 211270
-SHA256 (openmodelica-1.25.1/OpenModelica-OpenModelica-common-08a01802db5ba5edb540383c46718b89ff229ef2_GH0.tar.gz) = fdb5bb442da0375373ef221cf26195114bf149511c1c2be051caad6301c21c9a
-SIZE (openmodelica-1.25.1/OpenModelica-OpenModelica-common-08a01802db5ba5edb540383c46718b89ff229ef2_GH0.tar.gz) = 36148
-SHA256 (openmodelica-1.25.1/OpenModelica-OMBootstrapping-91938f0acbdc6e9ba91114376e3640ca6147b579_GH0.tar.gz) = 1a0327dabedd09dab3aa872af194b6d4e79bacc45659ea3154076e7f1f54b2cc
-SIZE (openmodelica-1.25.1/OpenModelica-OMBootstrapping-91938f0acbdc6e9ba91114376e3640ca6147b579_GH0.tar.gz) = 3328929
+TIMESTAMP = 1756357301
+SHA256 (openmodelica-1.25.2/OpenModelica-OpenModelica-v1.25.2_GH0.tar.gz) = a56f60074842f8b10c05d8ad323e89937b38ecbea0c9f062858f57d5ab8dbf7c
+SIZE (openmodelica-1.25.2/OpenModelica-OpenModelica-v1.25.2_GH0.tar.gz) = 148277183
+SHA256 (openmodelica-1.25.2/OpenModelica-OMOptim-d53288b_GH0.tar.gz) = d5012951f43e90dce03d7866d221278ee11ddfbdac4db20fe43d93adbc3748e7
+SIZE (openmodelica-1.25.2/OpenModelica-OMOptim-d53288b_GH0.tar.gz) = 4024177
+SHA256 (openmodelica-1.25.2/OpenModelica-OMSimulator-e3a3aeb_GH0.tar.gz) = 6192d933c258950fb0171f5d0ddac0353632d17ee99f6974ba53dd654f547e49
+SIZE (openmodelica-1.25.2/OpenModelica-OMSimulator-e3a3aeb_GH0.tar.gz) = 95557541
+SHA256 (openmodelica-1.25.2/OpenModelica-OMSimulator-3rdParty-5c10de1648d1134a577d9284b58580a72383d89f_GH0.tar.gz) = ea57e90ea76eca2657e8ddaa6c87301a16661200b3e8a00347a12bfdbb5f973d
+SIZE (openmodelica-1.25.2/OpenModelica-OMSimulator-3rdParty-5c10de1648d1134a577d9284b58580a72383d89f_GH0.tar.gz) = 7637943
+SHA256 (openmodelica-1.25.2/OpenModelica-OMCompiler-3rdParty-520663f_GH0.tar.gz) = 37c82357fc1e862eb13d79cf1ff2d143f263502472db9bb2c350c0c551022954
+SIZE (openmodelica-1.25.2/OpenModelica-OMCompiler-3rdParty-520663f_GH0.tar.gz) = 50256095
+SHA256 (openmodelica-1.25.2/OpenModelica-OMSens-093ad11_GH0.tar.gz) = 335512c08f94902bb07e75278cea791370a551336272f7bebef8c707ef5e5e2b
+SIZE (openmodelica-1.25.2/OpenModelica-OMSens-093ad11_GH0.tar.gz) = 8871049
+SHA256 (openmodelica-1.25.2/OpenModelica-OMSens_Qt-bab329a_GH0.tar.gz) = 2f2dcba4defd7f13e9fd5e0c26bb4951b9f1fcc7da64960a6ad1cee32a628efa
+SIZE (openmodelica-1.25.2/OpenModelica-OMSens_Qt-bab329a_GH0.tar.gz) = 211270
+SHA256 (openmodelica-1.25.2/OpenModelica-OpenModelica-common-08a01802db5ba5edb540383c46718b89ff229ef2_GH0.tar.gz) = fdb5bb442da0375373ef221cf26195114bf149511c1c2be051caad6301c21c9a
+SIZE (openmodelica-1.25.2/OpenModelica-OpenModelica-common-08a01802db5ba5edb540383c46718b89ff229ef2_GH0.tar.gz) = 36148
+SHA256 (openmodelica-1.25.2/OpenModelica-OMBootstrapping-04d16f7461e5401321f0f72613daf466ae2f76be_GH0.tar.gz) = 9ac6d28be6a331dfb61a57b033f2bcf984448cd63bc1a4cd140d60c2f5c64a79
+SIZE (openmodelica-1.25.2/OpenModelica-OMBootstrapping-04d16f7461e5401321f0f72613daf466ae2f76be_GH0.tar.gz) = 3346859
diff --git a/science/openmodelica/pkg-plist b/science/openmodelica/pkg-plist
index 2f3a85526399..9c08ba4f8e0a 100644
--- a/science/openmodelica/pkg-plist
+++ b/science/openmodelica/pkg-plist
@@ -778,12 +778,15 @@ share/OMSimulator/schema/fmi3/fmi3Type.xsd
share/OMSimulator/schema/fmi3/fmi3Unit.xsd
share/OMSimulator/schema/fmi3/fmi3Variable.xsd
share/OMSimulator/schema/fmi3/fmi3VariableDependency.xsd
+share/OMSimulator/schema/ssp/SSPTraceabilityCommon.xsd
+share/OMSimulator/schema/ssp/SimulationResourceMetaData.xsd
share/OMSimulator/schema/ssp/SystemStructureCommon.xsd
share/OMSimulator/schema/ssp/SystemStructureDescription.xsd
share/OMSimulator/schema/ssp/SystemStructureDescription11.xsd
share/OMSimulator/schema/ssp/SystemStructureParameterMapping.xsd
share/OMSimulator/schema/ssp/SystemStructureParameterValues.xsd
share/OMSimulator/schema/ssp/SystemStructureSignalDictionary.xsd
+share/OMSimulator/schema/ssp/xlink.xsd
share/OMSimulator/scripts/OMSimulatorServer.py
share/cmake/ZeroMQ/ZeroMQConfig.cmake
share/cmake/ZeroMQ/ZeroMQConfigVersion.cmake
diff --git a/science/qt6-quick3dphysics/distinfo b/science/qt6-quick3dphysics/distinfo
index 03a1722c995d..8e99d6679edf 100644
--- a/science/qt6-quick3dphysics/distinfo
+++ b/science/qt6-quick3dphysics/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1749162772
-SHA256 (KDE/Qt/6.9.1/qtquick3dphysics-everywhere-src-6.9.1.tar.xz) = 66e8365eb8c409a8426dec13a83203879f31845d555bf7632ce0728e8ddca24f
-SIZE (KDE/Qt/6.9.1/qtquick3dphysics-everywhere-src-6.9.1.tar.xz) = 4683360
+TIMESTAMP = 1756197855
+SHA256 (KDE/Qt/6.9.2/qtquick3dphysics-everywhere-src-6.9.2.tar.xz) = 87fc6485638f52cd33dc1a755a11c78fd992e438fe77ef53e0ca57c63505cc8b
+SIZE (KDE/Qt/6.9.2/qtquick3dphysics-everywhere-src-6.9.2.tar.xz) = 4668516
diff --git a/science/smoldyn/Makefile b/science/smoldyn/Makefile
index 965707c3adac..55178cea9aca 100644
--- a/science/smoldyn/Makefile
+++ b/science/smoldyn/Makefile
@@ -1,5 +1,5 @@
PORTNAME= smoldyn
-DISTVERSION= 2.74
+DISTVERSION= 2.75
CATEGORIES= science
MASTER_SITES= https://www.smoldyn.org/
@@ -32,8 +32,8 @@ PYTHON_CMAKE_BOOL= OPTION_PYTHON
PYTHON_USES= python
PYTHON_CMAKE_ON= -DPython3_EXECUTABLE=${PYTHON_CMD}
PYTHON_BUILD_DEPENDS= ${PY_SETUPTOOLS}
-PYTHON_RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}biosimulators-utils>0:biology/py-biosimulators-utils@${PY_FLAVOR}
-PYTHON_BROKEN= pending biology/py-biosimulators-utils completion
+#PYTHON_RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}biosimulators-utils>0:biology/py-biosimulators-utils@${PY_FLAVOR}
+PYTHON_BROKEN= some python dependencies aren't ported
post-extract: # see https://github.com/ssandrews/Smoldyn/issues/127
@${CHMOD} +x ${WRKSRC}/scripts/run_pyscript.py.in
diff --git a/science/smoldyn/distinfo b/science/smoldyn/distinfo
index 61749de73a7f..5083a957430a 100644
--- a/science/smoldyn/distinfo
+++ b/science/smoldyn/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1737604798
-SHA256 (smoldyn-2.74.tgz) = 1abae836ac515092be14e2058af58a25981d7872c3a002fbff67bde0f64fa28a
-SIZE (smoldyn-2.74.tgz) = 34348669
+TIMESTAMP = 1755906394
+SHA256 (smoldyn-2.75.tgz) = f7116e207d6ba91d3f709b6839d8054a622383ac6e0c5f81108015d083a2a094
+SIZE (smoldyn-2.75.tgz) = 34008076
diff --git a/science/tinker/Makefile b/science/tinker/Makefile
index a62f2268609b..2406c4c31a27 100644
--- a/science/tinker/Makefile
+++ b/science/tinker/Makefile
@@ -1,5 +1,6 @@
PORTNAME= tinker
DISTVERSION= 25.3
+PORTREVISION= 1
CATEGORIES= science
MASTER_SITES= https://dasher.wustl.edu/tinker/downloads/
diff --git a/science/tinker/distinfo b/science/tinker/distinfo
index 7ca60014bed4..6ebb852d7522 100644
--- a/science/tinker/distinfo
+++ b/science/tinker/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1753634645
-SHA256 (tinker-25.3.tar.gz) = d536f1d4d0d7d4394b3b3d88a52cf12ed3489312ac2ad9c6ce4d198bd681e36c
-SIZE (tinker-25.3.tar.gz) = 80772142
+TIMESTAMP = 1755934058
+SHA256 (tinker-25.3.tar.gz) = 84744d00e2936be23be6ed6acbbc251f07e016db53ead079a270280539a42145
+SIZE (tinker-25.3.tar.gz) = 80772560
generated by cgit v1.2.3 (git 2.25.1) at 2025-08-30 13:54:56 +0000