git: ccfa03aa862d - main - science/py-hoomd-blue: New port: Molecular dynamics and Monte Carlo soft matter simulation
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Date: Fri, 21 Jan 2022 10:00:33 UTC
The branch main has been updated by yuri:
URL: https://cgit.FreeBSD.org/ports/commit/?id=ccfa03aa862d1dd374bab6fd3d577e4826fbd8e5
commit ccfa03aa862d1dd374bab6fd3d577e4826fbd8e5
Author: Yuri Victorovich <yuri@FreeBSD.org>
AuthorDate: 2022-01-21 09:59:30 +0000
Commit: Yuri Victorovich <yuri@FreeBSD.org>
CommitDate: 2022-01-21 10:00:30 +0000
science/py-hoomd-blue: New port: Molecular dynamics and Monte Carlo soft matter simulation
---
science/Makefile | 1 +
science/py-hoomd-blue/Makefile | 51 ++
science/py-hoomd-blue/distinfo | 27 +
.../files/patch-CMake_hoomd_HOOMDMPISetup.cmake | 11 +
.../py-hoomd-blue/files/patch-hoomd_CMakeLists.txt | 11 +
science/py-hoomd-blue/pkg-descr | 8 +
science/py-hoomd-blue/pkg-plist | 952 +++++++++++++++++++++
7 files changed, 1061 insertions(+)
diff --git a/science/Makefile b/science/Makefile
index addc9d671521..33c9edc38c12 100644
--- a/science/Makefile
+++ b/science/Makefile
@@ -275,6 +275,7 @@
SUBDIR += py-h5json
SUBDIR += py-h5py
SUBDIR += py-hiphive
+ SUBDIR += py-hoomd-blue
SUBDIR += py-inequality
SUBDIR += py-jupyter_jsmol
SUBDIR += py-kim-query
diff --git a/science/py-hoomd-blue/Makefile b/science/py-hoomd-blue/Makefile
new file mode 100644
index 000000000000..c6f16513e948
--- /dev/null
+++ b/science/py-hoomd-blue/Makefile
@@ -0,0 +1,51 @@
+PORTNAME= hoomd-blue
+DISTVERSIONPREFIX= v
+DISTVERSION= 3.0.0-beta.13
+CATEGORIES= science # physics
+PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX}
+
+MAINTAINER= yuri@FreeBSD.org
+COMMENT= Molecular dynamics and Monte Carlo soft matter simulation
+
+LICENSE= BSD3CLAUSE
+LICENSE_FILE= ${WRKSRC}/LICENSE
+
+BUILD_DEPENDS= pybind11>0:devel/pybind11
+
+USES= cmake:testing compiler:c++17-lang eigen:3 localbase:ldflags python shebangfix # see https://github.com/glotzerlab/hoomd-blue/issues/1204
+
+USE_GITHUB= yes
+GH_ACCOUNT= glotzerlab
+
+GH_TUPLE= glotzerlab:libgetar:85de0f2355ea938474452aaf6bb78904a91293ec:glotzerlab_libgetar/hoomd/extern/libgetar \
+ glotzerlab:upp11:0c1fb8dfb4bcdc1c5c4eff9165539b15e70c4360:glotzerlab_upp11/hoomd/extern/upp11 \
+ glotzerlab:nano-signal-slot:34223a4a7e97f8e114ef007e5360cf7a71265da3:glotzerlab_nano_signal_slot/hoomd/extern/nano-signal-slot \
+ glotzerlab:cub:c3cceac115c072fb63df1836ff46d8c60d9eb304:glotzerlab_cub/hoomd/extern/cub \
+ glotzerlab:quickhull:a706b5ba0d863b241668038be9eef67afbfaabac:glotzerlab_quickhull/hoomd/extern/quickhull \
+ glotzerlab:random123:7f2371b8c597a486cd33fb421a196d78efe08043:glotzerlab_random123/hoomd/extern/random123 \
+ glotzerlab:HIP:849fb35f674c12f7c534153e2656b27997641866:glotzerlab_HIP/hoomd/extern/HIP \
+ glotzerlab:hipCUB:c70e19332a8402049b3359b409e50220a759c42d:glotzerlab_hipCUB/hoomd/extern/hipCUB \
+ mphowardlab:neighbor:ba0f06869b766066a7068852fa3b8c5fa746f71f:mphowardlab_neighbor/hoomd/extern/neighbor \
+ mphowardlab:hipper:b6da049a516ada03e4e1b66ca6b4c2c7c9668595:mphowardlab_hipper1/hoomd/extern/hipper \
+ glotzerlab:hoomd-examples:5a5e4e11e96397b761e90b27983cc38e2fb1a324:glotzerlab_hoomd_examples/sphinx-doc/tutorial \
+ mphowardlab:hipper:b6da049a516ada03e4e1b66ca6b4c2c7c9668595:mphowardlab_hipper2/hoomd/extern/neighbor/extern/hipper
+
+SHEBANG_GLOB= *.sh
+
+CMAKE_OFF= BUILD_TESTING
+
+LDFLAGS+= -lexecinfo
+
+OPTIONS_DEFINE= MPI TBB
+OPTIONS_DEFAULT= MPI TBB
+OPTIONS_SUB= yes
+
+MPI_CMAKE_BOOL= ENABLE_MPI
+MPI_BUILD_DEPENDS= cereal>0:devel/cereal
+MPI_LIB_DEPENDS= libmpi.so:net/mpich
+
+TBB_DESC= Enable support for Threading Building Blocks (TBB)
+TBB_CMAKE_BOOL= ENABLE_TBB
+TBB_LIB_DEPENDS= libtbb.so:devel/onetbb
+
+.include <bsd.port.mk>
diff --git a/science/py-hoomd-blue/distinfo b/science/py-hoomd-blue/distinfo
new file mode 100644
index 000000000000..4452bb97ba91
--- /dev/null
+++ b/science/py-hoomd-blue/distinfo
@@ -0,0 +1,27 @@
+TIMESTAMP = 1642744229
+SHA256 (glotzerlab-hoomd-blue-v3.0.0-beta.13_GH0.tar.gz) = e655a9afc7a8f7fe668552e0ffd9ba4a38884e791afd8ab45d81cc0df614fb40
+SIZE (glotzerlab-hoomd-blue-v3.0.0-beta.13_GH0.tar.gz) = 2525133
+SHA256 (glotzerlab-libgetar-85de0f2355ea938474452aaf6bb78904a91293ec_GH0.tar.gz) = 12815869b556c09f537e3d5ebed830298c61d458a8c967a60f7af607201750ed
+SIZE (glotzerlab-libgetar-85de0f2355ea938474452aaf6bb78904a91293ec_GH0.tar.gz) = 2600137
+SHA256 (glotzerlab-upp11-0c1fb8dfb4bcdc1c5c4eff9165539b15e70c4360_GH0.tar.gz) = 759695139bddae1d8a7cd52c967b856d6debf28fb37ea177f78c4434e2b210a8
+SIZE (glotzerlab-upp11-0c1fb8dfb4bcdc1c5c4eff9165539b15e70c4360_GH0.tar.gz) = 21058
+SHA256 (glotzerlab-nano-signal-slot-34223a4a7e97f8e114ef007e5360cf7a71265da3_GH0.tar.gz) = d15030482c82d9e4a99c2f67d8ef23b33cc318dd48ac0f8e804c6d4750f27ff4
+SIZE (glotzerlab-nano-signal-slot-34223a4a7e97f8e114ef007e5360cf7a71265da3_GH0.tar.gz) = 4748
+SHA256 (glotzerlab-cub-c3cceac115c072fb63df1836ff46d8c60d9eb304_GH0.tar.gz) = ecb8b5b7c2e9493b1661cf023b29edcf5cdb80de7033e90f286501251e293b97
+SIZE (glotzerlab-cub-c3cceac115c072fb63df1836ff46d8c60d9eb304_GH0.tar.gz) = 385598
+SHA256 (glotzerlab-quickhull-a706b5ba0d863b241668038be9eef67afbfaabac_GH0.tar.gz) = 5596540c3c8ecc7bd4c849ae6ad0d755f6435582d181dddad510c771df8db370
+SIZE (glotzerlab-quickhull-a706b5ba0d863b241668038be9eef67afbfaabac_GH0.tar.gz) = 15850
+SHA256 (glotzerlab-random123-7f2371b8c597a486cd33fb421a196d78efe08043_GH0.tar.gz) = c96b9240953197387977244858d624c81bef15d74c5badd77a07c8d29cb30a8e
+SIZE (glotzerlab-random123-7f2371b8c597a486cd33fb421a196d78efe08043_GH0.tar.gz) = 648611
+SHA256 (glotzerlab-HIP-849fb35f674c12f7c534153e2656b27997641866_GH0.tar.gz) = 14b0f3bd698029ce34d0b7c14ed2ed3a3d0551c9f8660cdd84a25297615c8bf5
+SIZE (glotzerlab-HIP-849fb35f674c12f7c534153e2656b27997641866_GH0.tar.gz) = 898907
+SHA256 (glotzerlab-hipCUB-c70e19332a8402049b3359b409e50220a759c42d_GH0.tar.gz) = f3dbd921ea8c5fe9068d6d9e6e9112c11c7e18488169ce48423d9fdb014536c6
+SIZE (glotzerlab-hipCUB-c70e19332a8402049b3359b409e50220a759c42d_GH0.tar.gz) = 110500
+SHA256 (mphowardlab-neighbor-ba0f06869b766066a7068852fa3b8c5fa746f71f_GH0.tar.gz) = 089129a1539d8e993f725017f1aadc60f9e40116e8a65dfbe70b0df9ac2d7cf3
+SIZE (mphowardlab-neighbor-ba0f06869b766066a7068852fa3b8c5fa746f71f_GH0.tar.gz) = 49039
+SHA256 (mphowardlab-hipper-b6da049a516ada03e4e1b66ca6b4c2c7c9668595_GH0.tar.gz) = c64a484884eaab3eb9fd8f7b27b144a7bfadfeab101e95d82bc2a6f7e4fb7cec
+SIZE (mphowardlab-hipper-b6da049a516ada03e4e1b66ca6b4c2c7c9668595_GH0.tar.gz) = 20228
+SHA256 (glotzerlab-hoomd-examples-5a5e4e11e96397b761e90b27983cc38e2fb1a324_GH0.tar.gz) = 9fe5ed481937103e1d9ffa60f1c6ec46f2e93647f4a88681e132223d5133a951
+SIZE (glotzerlab-hoomd-examples-5a5e4e11e96397b761e90b27983cc38e2fb1a324_GH0.tar.gz) = 5054053
+SHA256 (mphowardlab-hipper-b6da049a516ada03e4e1b66ca6b4c2c7c9668595_GH0.tar.gz) = c64a484884eaab3eb9fd8f7b27b144a7bfadfeab101e95d82bc2a6f7e4fb7cec
+SIZE (mphowardlab-hipper-b6da049a516ada03e4e1b66ca6b4c2c7c9668595_GH0.tar.gz) = 20228
diff --git a/science/py-hoomd-blue/files/patch-CMake_hoomd_HOOMDMPISetup.cmake b/science/py-hoomd-blue/files/patch-CMake_hoomd_HOOMDMPISetup.cmake
new file mode 100644
index 000000000000..51c295f79964
--- /dev/null
+++ b/science/py-hoomd-blue/files/patch-CMake_hoomd_HOOMDMPISetup.cmake
@@ -0,0 +1,11 @@
+--- CMake/hoomd/HOOMDMPISetup.cmake.orig 2022-01-21 08:21:04 UTC
++++ CMake/hoomd/HOOMDMPISetup.cmake
+@@ -13,7 +13,7 @@ if (ENABLE_MPI)
+
+ find_path(cereal_INCLUDE_DIR NAMES cereal/cereal.hpp
+ PATHS ${CMAKE_INSTALL_PREFIX}/include)
+- add_library(cereal INTERFACE IMPORTED)
++ #add_library(cereal INTERFACE IMPORTED)
+ set_target_properties(cereal PROPERTIES INTERFACE_INCLUDE_DIRECTORIES "${cereal_INCLUDE_DIR}")
+ find_package_message(cereal "Could not find cereal, assuming it is on a default path" "[${cereal_INCLUDE_DIR}]")
+ endif()
diff --git a/science/py-hoomd-blue/files/patch-hoomd_CMakeLists.txt b/science/py-hoomd-blue/files/patch-hoomd_CMakeLists.txt
new file mode 100644
index 000000000000..0e99b6d6de1b
--- /dev/null
+++ b/science/py-hoomd-blue/files/patch-hoomd_CMakeLists.txt
@@ -0,0 +1,11 @@
+--- hoomd/CMakeLists.txt.orig 2022-01-21 08:28:13 UTC
++++ hoomd/CMakeLists.txt
+@@ -338,7 +338,7 @@ endif()
+ # Libraries and compile definitions for MPI enabled builds
+ if (ENABLE_MPI)
+ target_compile_definitions(_hoomd PUBLIC ENABLE_MPI)
+- target_link_libraries(_hoomd PUBLIC MPI::MPI_CXX cereal)
++ target_link_libraries(_hoomd PUBLIC MPI::MPI_CXX)
+
+ if (ENABLE_MPI_CUDA)
+ target_compile_definitions(_hoomd PUBLIC ENABLE_MPI_CUDA)
diff --git a/science/py-hoomd-blue/pkg-descr b/science/py-hoomd-blue/pkg-descr
new file mode 100644
index 000000000000..7191197adb1c
--- /dev/null
+++ b/science/py-hoomd-blue/pkg-descr
@@ -0,0 +1,8 @@
+HOOMD-blue is a general-purpose particle simulation toolkit,
+implementing molecular dynamics and hard particle Monte Carlo
+optimized for fast execution on both GPUs and CPUs. As a Python
+package, HOOMD-blue gives you the flexibility to create custom
+initialization routines, control simulation parameters, perform in
+situ analysis, use interactive notebooks, and more.
+
+WWW: https://glotzerlab.engin.umich.edu/hoomd-blue/
diff --git a/science/py-hoomd-blue/pkg-plist b/science/py-hoomd-blue/pkg-plist
new file mode 100644
index 000000000000..dcad54bf5394
--- /dev/null
+++ b/science/py-hoomd-blue/pkg-plist
@@ -0,0 +1,952 @@
+lib/cmake/hoomd/FindCUDALibs.cmake
+lib/cmake/hoomd/FindHIP.cmake
+lib/cmake/hoomd/FindHIP/run_hipcc.cmake
+lib/cmake/hoomd/FindHIP/run_make2cmake.cmake
+lib/cmake/hoomd/FindTBB.cmake
+lib/cmake/hoomd/HOOMDHIPSetup.cmake
+lib/cmake/hoomd/hipcc.cmake
+lib/cmake/hoomd/hoomd-config-version.cmake
+lib/cmake/hoomd/hoomd-config.cmake
+lib/cmake/hoomd/hoomd-macros.cmake
+lib/cmake/hoomd/hoomd-targets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/hoomd/hoomd-targets.cmake
+%%PYTHON_SITELIBDIR%%/hoomd/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/_compile.py
+%%PYTHON_SITELIBDIR%%/hoomd/_hoomd%%PYTHON_EXT_SUFFIX%%.so
+%%PYTHON_SITELIBDIR%%/hoomd/box.py
+%%PYTHON_SITELIBDIR%%/hoomd/communicator.py
+%%PYTHON_SITELIBDIR%%/hoomd/conftest.py
+%%PYTHON_SITELIBDIR%%/hoomd/custom/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/custom/custom_action.py
+%%PYTHON_SITELIBDIR%%/hoomd/custom/custom_operation.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/array.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/array_view.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/collections.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/local_access.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/local_access_cpu.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/local_access_gpu.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/parameterdicts.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/smart_default.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/syncedlist.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/typeconverter.py
+%%PYTHON_SITELIBDIR%%/hoomd/data/typeparam.py
+%%PYTHON_SITELIBDIR%%/hoomd/dem/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/dem/_dem%%PYTHON_EXT_SUFFIX%%.so
+%%PYTHON_SITELIBDIR%%/hoomd/dem/pair.py
+%%PYTHON_SITELIBDIR%%/hoomd/dem/params.py
+%%PYTHON_SITELIBDIR%%/hoomd/dem/utils.py
+%%PYTHON_SITELIBDIR%%/hoomd/device.py
+%%PYTHON_SITELIBDIR%%/hoomd/error.py
+%%PYTHON_SITELIBDIR%%/hoomd/example_plugin/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/example_plugin/_example_plugin%%PYTHON_EXT_SUFFIX%%.so
+%%PYTHON_SITELIBDIR%%/hoomd/example_plugin/update.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/all_.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/custom.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/filter_.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/null.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/rigid.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/set_.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/tags.py
+%%PYTHON_SITELIBDIR%%/hoomd/filter/type_.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/_hpmc%%PYTHON_EXT_SUFFIX%%.so
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/compute.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/external/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/external/user.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/field.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/integrate.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pair/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pair/user.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/conftest.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/depletants_sphere.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_boxmc.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_clusters.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_compute_free_volume.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_compute_sdf.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_external_user.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_move_size_tuner.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_muvt.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_pair_union_user.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_pair_user.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_quick_compress.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_scale.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_shape.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_small_box_2d.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/pytest/test_small_box_3d.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/tune/__init__.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/tune/move_size.py
+%%PYTHON_SITELIBDIR%%/hoomd/hpmc/update.py
+%%PYTHON_SITELIBDIR%%/hoomd/include/HOOMDVersion.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/AABB.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/AABBTree.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Analyzer.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/ArrayView.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Autotuner.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/BondedGroupData.cuh
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/BondedGroupData.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/BoxDim.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/BoxResizeUpdater.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CachedAllocator.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CellList.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CellListGPU.cuh
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CellListGPU.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CellListStencil.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/ClockSource.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Communicator.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CommunicatorGPU.cuh
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/CommunicatorGPU.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Compute.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/DCDDumpWriter.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/DomainDecomposition.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/ExecutionConfiguration.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Filesystem.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/ForceCompute.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/ForceConstraint.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUArray.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUFlags.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUPartition.cuh
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUPolymorph.cuh
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUPolymorph.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GPUVector.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GSD.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GSDDumpWriter.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GSDReader.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GSDShapeSpecWriter.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GetarDumpIterators.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GetarDumpWriter.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GetarInitializer.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/GlobalArray.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/HOOMDMPI.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/HOOMDMath.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/HalfStepHook.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Index1D.h
+%%PYTHON_SITELIBDIR%%/hoomd/include/hoomd/Initializers.h
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