git: 96fe8f7ab1ef - main - science/nest: Update 3.1 -> 3.2
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Date: Thu, 27 Jan 2022 20:28:13 UTC
The branch main has been updated by yuri:
URL: https://cgit.FreeBSD.org/ports/commit/?id=96fe8f7ab1ef31c13cf71d79b6f8d15466544c9a
commit 96fe8f7ab1ef31c13cf71d79b6f8d15466544c9a
Author: Yuri Victorovich <yuri@FreeBSD.org>
AuthorDate: 2022-01-27 20:15:50 +0000
Commit: Yuri Victorovich <yuri@FreeBSD.org>
CommitDate: 2022-01-27 20:27:58 +0000
science/nest: Update 3.1 -> 3.2
Reported by: portscout
---
science/nest/Makefile | 7 +-
science/nest/distinfo | 6 +-
science/nest/files/patch-CMakeLists.txt | 19 ++-
.../nest/files/patch-cmake_ProcessOptions.cmake | 25 ++-
science/nest/pkg-plist | 169 +--------------------
5 files changed, 45 insertions(+), 181 deletions(-)
diff --git a/science/nest/Makefile b/science/nest/Makefile
index 01008b721fbd..5c3f17e9cebf 100644
--- a/science/nest/Makefile
+++ b/science/nest/Makefile
@@ -1,7 +1,6 @@
PORTNAME= nest
DISTVERSIONPREFIX= v
-DISTVERSION= 3.1
-PORTREVISION= 1
+DISTVERSION= 3.2
CATEGORIES= science biology # NEST is used in neuroscience
MAINTAINER= yuri@FreeBSD.org
@@ -23,7 +22,7 @@ USE_LDCONFIG= yes
USE_GITHUB= yes
GH_PROJECT= nest-simulator
-SHEBANG_FILES= extras/nest-server extras/nest-server-mpi testsuite/do_tests.sh
+SHEBANG_FILES= bin/nest-server bin/nest-server-mpi testsuite/do_tests.sh
OPTIONS_DEFINE= PYTHON DOCS
OPTIONS_DEFAULT= PYTHON
@@ -31,7 +30,7 @@ OPTIONS_SUB= yes
PYTHON_CMAKE_BOOL= BUILD_PYTHON
PYTHON_USE= python=cython
-PYTHON_CMAKE_ON= -DCYTHON_EXECUTABLE:STRING=${PREFIX}/bin/cython-${PYTHON_VER}
+PYTHON_CMAKE_ON= -DFREEBSD_PYTHON_VER:STRING=${PYTHON_VER} -DCYTHON_EXECUTABLE:STRING=${PREFIX}/bin/cython-${PYTHON_VER}
PORTDOCS= *
diff --git a/science/nest/distinfo b/science/nest/distinfo
index 58939e8d2162..e7aad6677eb6 100644
--- a/science/nest/distinfo
+++ b/science/nest/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1634790045
-SHA256 (nest-nest-simulator-v3.1_GH0.tar.gz) = 5c11dd6b451c4c6bf93037bf29d5231c6c75a0e1a8863344f6fb9bb225f279ca
-SIZE (nest-nest-simulator-v3.1_GH0.tar.gz) = 12028051
+TIMESTAMP = 1643310018
+SHA256 (nest-nest-simulator-v3.2_GH0.tar.gz) = 583d5725882ad5e8fd4fc7ffab425da97cbbb91fadbc327e940c184e8892b958
+SIZE (nest-nest-simulator-v3.2_GH0.tar.gz) = 10992802
diff --git a/science/nest/files/patch-CMakeLists.txt b/science/nest/files/patch-CMakeLists.txt
index 7f7fc651d7b8..c77579033a51 100644
--- a/science/nest/files/patch-CMakeLists.txt
+++ b/science/nest/files/patch-CMakeLists.txt
@@ -1,6 +1,6 @@
---- CMakeLists.txt.orig 2021-09-15 13:04:13 UTC
+--- CMakeLists.txt.orig 2022-01-21 18:01:36 UTC
+++ CMakeLists.txt
-@@ -92,7 +92,7 @@ set( CMAKE_INSTALL_DATADIR "share/${PROJECT_NAME}" CAC
+@@ -100,7 +100,7 @@ set( CMAKE_INSTALL_DATADIR "share/${PROJECT_NAME}" CAC
################################################################################
# needed for pynest test suite
@@ -9,7 +9,7 @@
find_program( NOSETESTS NAMES nosetests )
endif ()
-@@ -194,7 +194,7 @@ message("-- NEST version: ${NEST_VERSION_STRING}")
+@@ -202,7 +202,7 @@ message("-- NEST version: ${NEST_VERSION_STRING}")
enable_testing()
set( TEST_OPTS "" )
@@ -18,22 +18,21 @@
set( TEST_OPTS "${TEST_OPTS};--with-python=${PYTHON}" )
endif ()
-@@ -223,8 +223,12 @@ add_custom_target( installcheck
+@@ -231,9 +231,13 @@ add_custom_target( installcheck
################## Define Subdirectories here ##################
################################################################################
--add_subdirectory( doc )
--add_subdirectory( examples )
+if (INSTALL_DOCS)
-+ add_subdirectory( doc )
+ add_subdirectory( doc )
+endif()
+ add_subdirectory( bin )
+if (INSTALL_EXAMPLES)
-+ add_subdirectory( examples )
+ add_subdirectory( examples )
+endif()
- add_subdirectory( extras )
+ add_subdirectory( build_support )
add_subdirectory( lib )
add_subdirectory( libnestutil )
-@@ -234,7 +238,7 @@ add_subdirectory( nest )
+@@ -243,7 +247,7 @@ add_subdirectory( nest )
add_subdirectory( nestkernel )
add_subdirectory( thirdparty )
add_subdirectory( testsuite )
diff --git a/science/nest/files/patch-cmake_ProcessOptions.cmake b/science/nest/files/patch-cmake_ProcessOptions.cmake
index 979ff8fc6835..1282cb5c2b40 100644
--- a/science/nest/files/patch-cmake_ProcessOptions.cmake
+++ b/science/nest/files/patch-cmake_ProcessOptions.cmake
@@ -1,6 +1,27 @@
---- cmake/ProcessOptions.cmake.orig 2021-10-21 05:42:49 UTC
+--- cmake/ProcessOptions.cmake.orig 2022-01-21 18:01:36 UTC
+++ cmake/ProcessOptions.cmake
-@@ -421,7 +421,7 @@ function( NEST_PROCESS_WITH_PYTHON )
+@@ -392,9 +392,9 @@ function( NEST_PROCESS_WITH_PYTHON )
+ elseif ( ${with-python} STREQUAL "ON" )
+
+ # Localize the Python interpreter and ABI
+- find_package( Python 3.8 QUIET COMPONENTS Interpreter Development.Module )
++ find_package( Python ${FREEBSD_PYTHON_VER} EXACT QUIET COMPONENTS Interpreter Development.Module )
+ if ( NOT Python_FOUND )
+- find_package( Python 3.8 REQUIRED Interpreter Development )
++ find_package( Python ${FREEBSD_PYTHON_VER} EXACT REQUIRED Interpreter Development )
+ string( CONCAT PYABI_WARN "Could not locate Python ABI"
+ ", using shared libraries and header file instead."
+ " Please clear your CMake cache and build folder and verify that CMake"
+@@ -402,7 +402,7 @@ function( NEST_PROCESS_WITH_PYTHON )
+ )
+ message( WARNING "${PYABI_WARN}")
+ else()
+- find_package( Python 3.8 REQUIRED Interpreter Development.Module )
++ find_package( Python ${FREEBSD_PYTHON_VER} EXACT REQUIRED Interpreter Development.Module )
+ endif()
+
+ if ( Python_FOUND )
+@@ -432,7 +432,7 @@ function( NEST_PROCESS_WITH_PYTHON )
set( Python_INCLUDE_DIRS "${Python_INCLUDE_DIRS}" PARENT_SCOPE )
set( Python_LIBRARIES "${Python_LIBRARIES}" PARENT_SCOPE )
diff --git a/science/nest/pkg-plist b/science/nest/pkg-plist
index 884e8c3e70ae..21eb7381cd56 100644
--- a/science/nest/pkg-plist
+++ b/science/nest/pkg-plist
@@ -165,7 +165,6 @@ include/nest/layer_impl.h
include/nest/lin_rate.h
include/nest/lockptr.h
include/nest/lockptrdatum.h
-include/nest/lockptrdatum_impl.h
include/nest/logging.h
include/nest/logging_event.h
include/nest/logging_manager.h
@@ -212,7 +211,6 @@ include/nest/noise_generator.h
include/nest/ntree.h
include/nest/ntree_impl.h
include/nest/numericdatum.h
-include/nest/numericdatum_impl.h
include/nest/numerics.h
include/nest/oosupport.h
include/nest/parameter.h
@@ -316,7 +314,6 @@ include/nest/step_rate_generator.h
include/nest/stimulation_backend.h
include/nest/stimulation_device.h
include/nest/stopwatch.h
-include/nest/streamers.h
include/nest/string_utils.h
include/nest/stringdatum.h
include/nest/structural_plasticity_node.h
@@ -361,8 +358,6 @@ lib/nest/libnestutil.so
lib/nest/libsli.so
lib/nest/libsli_readline.so
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/__init__.py
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/hl_api.py
-%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/import_libs.py
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/lib/README.md
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/lib/__init__.py
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/lib/hl_api_connection_helpers.py
@@ -395,161 +390,6 @@ lib/nest/libsli_readline.so
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/versionchecker.py
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/visualization.py
%%PYTHON%%%%PYTHON_SITELIBDIR%%/nest/voltage_trace.py
-%%DATADIR%%/extras/EditorSupport/vim/syntax/sli.vim
-%%DATADIR%%/help_generator/README.md
-%%DATADIR%%/help_generator/assets/css/ie.css
-%%DATADIR%%/help_generator/assets/css/jquery.mmenu.all.css
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@@ -573,7 +413,6 @@ lib/nest/libsli_readline.so
%%DATADIR%%/testsuite/cpptests/test_enum_bitfield.h
%%DATADIR%%/testsuite/cpptests/test_parameter.h
%%DATADIR%%/testsuite/cpptests/test_sort.h
-%%DATADIR%%/testsuite/cpptests/test_streamers.h
%%DATADIR%%/testsuite/cpptests/test_target_fields.h
%%DATADIR%%/testsuite/do_tests.sh
%%DATADIR%%/testsuite/junit_xml.sh
@@ -647,6 +486,8 @@ lib/nest/libsli_readline.so
%%DATADIR%%/testsuite/mpitests/test_sinusoidal_poisson_generator_4.sli
%%DATADIR%%/testsuite/mpitests/test_sinusoidal_poisson_generator_5.sli
%%DATADIR%%/testsuite/mpitests/test_sinusoidal_poisson_generator_6.sli
+%%DATADIR%%/testsuite/mpitests/test_spatial_distributed_positions.sli
+%%DATADIR%%/testsuite/mpitests/test_spatial_pairwise_bernoulli_on_source_param.sli
%%DATADIR%%/testsuite/mpitests/test_symmetric_connections_mpi.sli
%%DATADIR%%/testsuite/mpitests/ticket-400.sli
%%DATADIR%%/testsuite/mpitests/ticket-516.sli
@@ -688,7 +529,10 @@ lib/nest/libsli_readline.so
%%DATADIR%%/testsuite/pytests/mpi/2/test_connect_pairwise_bernoulli.py
%%DATADIR%%/testsuite/pytests/mpi/2/test_connect_symmetric_pairwise_bernoulli.py
%%DATADIR%%/testsuite/pytests/mpi/2/test_issue_576.py
+%%DATADIR%%/testsuite/pytests/mpi/2/test_spatial_positions.py
+%%DATADIR%%/testsuite/pytests/mpi/2/test_synapsecollection_mpi.py
%%DATADIR%%/testsuite/pytests/mpi/4/test_consistent_local_vps.py
+%%DATADIR%%/testsuite/pytests/mpi/4/test_spatial_positions.py
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%%DATADIR%%/testsuite/pytests/test_NodeCollection.py
%%DATADIR%%/testsuite/pytests/test_aeif_data_lsodar.dat
@@ -755,7 +599,6 @@ lib/nest/libsli_readline.so
%%DATADIR%%/testsuite/pytests/test_sp/test_sp_manager.py
%%DATADIR%%/testsuite/pytests/test_sp/test_synaptic_elements.py
%%DATADIR%%/testsuite/pytests/test_sp/test_update_synaptic_elements.py
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%%DATADIR%%/testsuite/pytests/test_spatial/test_SynapseCollection_distance.py
%%DATADIR%%/testsuite/pytests/test_spatial/test_basics.py
%%DATADIR%%/testsuite/pytests/test_spatial/test_connect_layers.py
@@ -769,11 +612,13 @@ lib/nest/libsli_readline.so
%%DATADIR%%/testsuite/pytests/test_spatial/test_rotated_rect_mask.py
%%DATADIR%%/testsuite/pytests/test_spatial/test_selection_function_and_elliptical_mask.py
%%DATADIR%%/testsuite/pytests/test_spatial/test_spatial_distributions.py
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