math/dgl: New port: Deep Graph Library

10 files changed, 261 insertions, 0 deletions

diff --git a/math/Makefile b/math/Makefile
index 17f1dddbe5de..89cacac3a106 100644
--- a/math/Makefile
+++ b/math/Makefile
@@ -268,6 +268,7 @@
     SUBDIR += cvc5
     SUBDIR += dbcsr
     SUBDIR += deal.ii
+    SUBDIR += dgl
     SUBDIR += dieharder
     SUBDIR += dihydrogen
     SUBDIR += dionysus
diff --git a/math/dgl/Makefile b/math/dgl/Makefile
new file mode 100644
index 000000000000..bb8bc1f216b4
--- /dev/null
+++ b/math/dgl/Makefile
@@ -0,0 +1,67 @@
+PORTNAME=	dgl
+DISTVERSION=	1.1.0
+CATEGORIES=	math # machine-learning
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	Deep Graph Library
+WWW=		https://www.dgl.ai/
+
+LICENSE=	APACHE20
+LICENSE_FILE=	${WRKSRC}/LICENSE
+
+BUILD_DEPENDS=	${BACKEND_DEPENDS} \
+		bash:shells/bash \
+		gmake:devel/gmake
+
+USES=		cmake:testing localbase:ldflags python:build shebangfix
+USE_LDCONFIG=	yes
+
+USE_GITHUB=	yes
+GH_ACCOUNT=	dmlc
+GH_TUPLE=	apache:tvm:b2e418c:tvm/third_party/tvm \
+		dmlc:dlpack:e2bdd3b:dlpack/third_party/dlpack \
+		dmlc:dmlc-core:bfad207:dmlc_core/third_party/dmlc-core \
+		greg7mdp:parallel-hashmap:25293ce:phmap/third_party/phmap \
+		herumi:xbyak:757e406:xbyak/third_party/xbyak \
+		imneme:pcg-cpp:428802d:pcg/third_party/pcg \
+		jlblancoc:nanoflann:4c47ca2:nanoflann/third_party/nanoflann \
+		KarypisLab:METIS:1060348:metis/third_party/METIS \
+			KarypisLab:GKlib:62de20c:metis_GKlib/third_party/METIS/GKlib \
+		pytorch:tensorpipe:6042f1a:tensorpipe/third_party/tensorpipe \
+			libuv:libuv:1dff88e:tensorpipe_libuv/third_party/tensorpipe/third_party/libuv \
+			google:libnop:aa95422:tensorpipe_libnop/third_party/tensorpipe/third_party/libnop \
+		hfp:libxsmm:fa68755:libxsmm/third_party/libxsmm \
+		NVIDIA:thrust:6a3078c:thrust/third_party/thrust \
+		google:googletest:f71fb4f:googletest/third_party/googletest
+
+SHEBANG_GLOB=	*.sh
+
+MAKE_ENV=	PYTHON=${PYTHON_CMD}
+CMAKE_ON=	BUILD_SHARED_LIBS
+CMAKE_TESTING_ON=	BUILD_CPP_TEST # tests fail to compile, see https://github.com/dmlc/dgl/issues/5664
+
+BINARY_ALIAS=	make=${GMAKE} python3=${PYTHON_CMD}
+
+PLIST_FILES=	lib/libdgl_metis.so # workaround for https://github.com/dmlc/dgl/issues/5666
+
+OPTIONS_RADIO=			BACKEND
+OPTIONS_RADIO_BACKEND=		PYTORCH TENSORFLOW MXNET
+OPTIONS_DEFAULT=		PYTORCH
+
+PYTORCH_DESC=			Use PyTorch backend
+PYTORCH_VARS=			BACKEND_DEPENDS=${PYTHON_PKGNAMEPREFIX}pytorch>0:misc/py-pytorch@${PY_FLAVOR}
+PYTORCH_MAKE_ENV=		DGLBACKEND=pytorch
+
+TENSORFLOW_DESC=		Use TensorFlow backend
+TENSORFLOW_VARS=		BACKEND_DEPENDS=${PYTHON_PKGNAMEPREFIX}tensorflow>0:science/py-tensorflow@${PY_FLAVOR}
+TENSORFLOW_MAKE_ENV=		DGLBACKEND=tensorflow
+TENSORFLOW_CMAKE_ON=		-DBUILD_SPARSE=OFF
+
+MXNET_DESC=			Use MXNET backend
+MXNET_VARS=			BACKEND_DEPENDS=${PYTHON_PKGNAMEPREFIX}mxnet>0:misc/py-mxnet@${PY_FLAVOR}
+MXNET_MAKE_ENV=			DGLBACKEND=mxnet
+
+post-install: # workaround for https://github.com/dmlc/dgl/issues/5666
+	${INSTALL_LIB} ${BUILD_WRKSRC}/third_party/METIS/libmetis/libdgl_metis.so ${STAGEDIR}${PREFIX}/lib
+
+.include <bsd.port.mk>
diff --git a/math/dgl/distinfo b/math/dgl/distinfo
new file mode 100644
index 000000000000..8ab0e5fdb4df
--- /dev/null
+++ b/math/dgl/distinfo
@@ -0,0 +1,33 @@
+TIMESTAMP = 1683606177
+SHA256 (dmlc-dgl-1.1.0_GH0.tar.gz) = 71c8ba7777ffdca37638bc796524d42c51006fad385967fa140235b60aac0252
+SIZE (dmlc-dgl-1.1.0_GH0.tar.gz) = 5536874
+SHA256 (apache-tvm-b2e418c_GH0.tar.gz) = f351aee38d7ad4bb1025407e26d5ed21704d1daf6cb2c2b7972ec1bef11189b7
+SIZE (apache-tvm-b2e418c_GH0.tar.gz) = 4105160
+SHA256 (dmlc-dlpack-e2bdd3b_GH0.tar.gz) = e88e702277cf4cfa4814afdbb27b07b75041d80b3df60da387cdd7e0ebeb6817
+SIZE (dmlc-dlpack-e2bdd3b_GH0.tar.gz) = 76235
+SHA256 (dmlc-dmlc-core-bfad207_GH0.tar.gz) = cb9d69eef2b73349367da53f01e54f16b0b26e0f3f063360a33c6313da494fd8
+SIZE (dmlc-dmlc-core-bfad207_GH0.tar.gz) = 256022
+SHA256 (greg7mdp-parallel-hashmap-25293ce_GH0.tar.gz) = 79bf3c49d9a685615b6876cb668c678975762e72efc95ff27afeb04d08f3e4bc
+SIZE (greg7mdp-parallel-hashmap-25293ce_GH0.tar.gz) = 1991684
+SHA256 (herumi-xbyak-757e406_GH0.tar.gz) = ce13e1474237d16e4e1f66601e52db18e66f2ba98037ca800c1d9e6068d67cf6
+SIZE (herumi-xbyak-757e406_GH0.tar.gz) = 237424
+SHA256 (imneme-pcg-cpp-428802d_GH0.tar.gz) = 94cfcaace3031f42a246ef3f01b9da04bbd51baf0a749369f085e9e25e46fdbb
+SIZE (imneme-pcg-cpp-428802d_GH0.tar.gz) = 78185
+SHA256 (jlblancoc-nanoflann-4c47ca2_GH0.tar.gz) = 84523ebbca828309da8ef35544d14c810419d6a7ecc7a6e103049bc4f2900a9e
+SIZE (jlblancoc-nanoflann-4c47ca2_GH0.tar.gz) = 685221
+SHA256 (KarypisLab-METIS-1060348_GH0.tar.gz) = 3d0b2741c650c8a01019e294a12e0bc85653d251fd6956486b7fcbc90314ab1d
+SIZE (KarypisLab-METIS-1060348_GH0.tar.gz) = 4839628
+SHA256 (KarypisLab-GKlib-62de20c_GH0.tar.gz) = b10827ec6c2481aded336dd99de1d241f5c59a65e186fdc1e6d4ee57527941aa
+SIZE (KarypisLab-GKlib-62de20c_GH0.tar.gz) = 178104
+SHA256 (pytorch-tensorpipe-6042f1a_GH0.tar.gz) = b1f269a2694d85345c90acd6d22481702e3da8c3c28c0446c5c134026edf02e8
+SIZE (pytorch-tensorpipe-6042f1a_GH0.tar.gz) = 258701
+SHA256 (libuv-libuv-1dff88e_GH0.tar.gz) = 5a1e54bf17161c2e8886f584e88078318ad9c902d9b7b1d9b0f3e682f43bee48
+SIZE (libuv-libuv-1dff88e_GH0.tar.gz) = 1281275
+SHA256 (google-libnop-aa95422_GH0.tar.gz) = a1bc9d94289868a5d40e36964d57c8e06b52cb4cfff6cc21ff259337f707d0e1
+SIZE (google-libnop-aa95422_GH0.tar.gz) = 124119
+SHA256 (hfp-libxsmm-fa68755_GH0.tar.gz) = da3ebc9e628099a3bcfa2a0c6976f0cd7e8d0eba4a85b65428167e812c367986
+SIZE (hfp-libxsmm-fa68755_GH0.tar.gz) = 5259772
+SHA256 (NVIDIA-thrust-6a3078c_GH0.tar.gz) = c4d32d275c29689c2a7bf3b33dff87d533bb0a2f606256de44cc4e3780cc9130
+SIZE (NVIDIA-thrust-6a3078c_GH0.tar.gz) = 999915
+SHA256 (google-googletest-f71fb4f_GH0.tar.gz) = 196e6d0f943c2f741665e64ed500916fe6273d4f398007c95909ffe187704391
+SIZE (google-googletest-f71fb4f_GH0.tar.gz) = 957143
diff --git a/math/dgl/files/patch-CMakeLists.txt b/math/dgl/files/patch-CMakeLists.txt
new file mode 100644
index 000000000000..d973f21dd773
--- /dev/null
+++ b/math/dgl/files/patch-CMakeLists.txt
@@ -0,0 +1,11 @@
+--- CMakeLists.txt.orig	2023-05-09 05:00:36 UTC
++++ CMakeLists.txt
+@@ -197,7 +197,7 @@ if(NOT MSVC)
+   include_directories(${GKLIB_PATH})
+   include_directories("third_party/METIS/include/")
+   add_subdirectory("third_party/METIS/libmetis/")
+-  list(APPEND DGL_LINKER_LIBS metis)
++  list(APPEND DGL_LINKER_LIBS dgl_metis)
+ endif(NOT MSVC)
+ 
+ # Compile LIBXSMM
diff --git a/math/dgl/files/patch-python_dgl_backend_____init____.py b/math/dgl/files/patch-python_dgl_backend_____init____.py
new file mode 100644
index 000000000000..1547284444fe
--- /dev/null
+++ b/math/dgl/files/patch-python_dgl_backend_____init____.py
@@ -0,0 +1,13 @@
+--- python/dgl/backend/__init__.py.orig	2023-05-08 05:34:30 UTC
++++ python/dgl/backend/__init__.py
+@@ -115,8 +115,8 @@ def get_preferred_backend():
+             "Assuming PyTorch for now.",
+             file=sys.stderr,
+         )
+-        set_default_backend(default_dir, "pytorch")
+-        return "pytorch"
++        set_default_backend(default_dir, "tensorflow")
++        return "tensorflow"
+ 
+ 
+ load_backend(get_preferred_backend())
diff --git a/math/dgl/files/patch-src_runtime_shared__mem.cc b/math/dgl/files/patch-src_runtime_shared__mem.cc
new file mode 100644
index 000000000000..9bd03e0fe9f6
--- /dev/null
+++ b/math/dgl/files/patch-src_runtime_shared__mem.cc
@@ -0,0 +1,10 @@
+--- src/runtime/shared_mem.cc.orig	2023-04-30 05:51:10 UTC
++++ src/runtime/shared_mem.cc
+@@ -6,6 +6,7 @@
+ #ifndef _WIN32
+ #include <fcntl.h>
+ #include <sys/mman.h>
++#include <sys/stat.h>
+ #include <unistd.h>
+ #endif
+ #include <dgl/runtime/shared_mem.h>
diff --git a/math/dgl/files/patch-third__party_METIS_libmetis_CMakeLists.txt b/math/dgl/files/patch-third__party_METIS_libmetis_CMakeLists.txt
new file mode 100644
index 000000000000..4e15c3b7ef39
--- /dev/null
+++ b/math/dgl/files/patch-third__party_METIS_libmetis_CMakeLists.txt
@@ -0,0 +1,19 @@
+--- third_party/METIS/libmetis/CMakeLists.txt.orig	2023-05-09 05:04:07 UTC
++++ third_party/METIS/libmetis/CMakeLists.txt
+@@ -3,13 +3,13 @@ include_directories(.)
+ # Find sources.
+ file(GLOB metis_sources *.c)
+ # Build libmetis.
+-add_library(metis ${METIS_LIBRARY_TYPE} ${GKlib_sources} ${metis_sources})
++add_library(dgl_metis ${METIS_LIBRARY_TYPE} ${GKlib_sources} ${metis_sources})
+ if(UNIX)
+-  target_link_libraries(metis m)
++  target_link_libraries(dgl_metis m)
+ endif()
+ 
+ if(METIS_INSTALL)
+-  install(TARGETS metis
++  install(TARGETS dgl_metis
+     LIBRARY DESTINATION lib
+     RUNTIME DESTINATION lib
+     ARCHIVE DESTINATION lib)
diff --git a/math/dgl/files/patch-third__party_tensorpipe_tensorpipe_common_system.cc b/math/dgl/files/patch-third__party_tensorpipe_tensorpipe_common_system.cc
new file mode 100644
index 000000000000..3cd8d0aab6b1
--- /dev/null
+++ b/math/dgl/files/patch-third__party_tensorpipe_tensorpipe_common_system.cc
@@ -0,0 +1,41 @@
+--- third_party/tensorpipe/tensorpipe/common/system.cc.orig	2021-08-31 10:11:56 UTC
++++ third_party/tensorpipe/tensorpipe/common/system.cc
+@@ -16,6 +16,13 @@
+ #include <unistd.h>
+ #endif
+ 
++#ifdef __FreeBSD__
++#include <pthread.h>
++#include <sys/stat.h>
++#include <sys/types.h>
++#include <unistd.h>
++#endif
++
+ #ifdef __APPLE__
+ #include <IOKit/IOKitLib.h>
+ #endif
+@@ -141,8 +148,9 @@ std::string removeBlankSpaces(std::string s) {
+ }
+ 
+ optional<std::string> getBootID() {
+-  static optional<std::string> bootID = getBootIDInternal();
+-  return bootID;
++  //static optional<std::string> bootID = getBootIDInternal();
++  //return bootID;
++  throw std::runtime_error("tensorpipe lacks FreeBSD support (getBootIDInternal), see https://github.com/pytorch/tensorpipe/issues/461");
+ }
+ 
+ #ifdef __APPLE__
+@@ -277,6 +285,12 @@ optional<std::string> getPermittedCapabilitiesID() {
+   std::ostringstream oss;
+   oss << std::hex << bitmask;
+   return oss.str();
++}
++
++#elif defined(__FreeBSD__)
++
++optional<std::string> getLinuxNamespaceId(LinuxNamespace ns) {
++  return std::string();
+ }
+ 
+ #endif
diff --git a/math/dgl/pkg-descr b/math/dgl/pkg-descr
new file mode 100644
index 000000000000..459fb5664e85
--- /dev/null
+++ b/math/dgl/pkg-descr
@@ -0,0 +1,2 @@
+DGL is a Python package built to ease deep learning on graphs
+on top of existing DL frameworks.
diff --git a/math/dgl/pkg-plist b/math/dgl/pkg-plist
new file mode 100644
index 000000000000..13b1820cb7d4
--- /dev/null
+++ b/math/dgl/pkg-plist
@@ -0,0 +1,64 @@
+include/dmlc/any.h
+include/dmlc/array_view.h
+include/dmlc/base.h
+include/dmlc/blockingconcurrentqueue.h
+include/dmlc/build_config.h
+include/dmlc/build_config_default.h
+include/dmlc/common.h
+include/dmlc/concurrency.h
+include/dmlc/concurrentqueue.h
+include/dmlc/config.h
+include/dmlc/data.h
+include/dmlc/endian.h
+include/dmlc/filesystem.h
+include/dmlc/input_split_shuffle.h
+include/dmlc/io.h
+include/dmlc/json.h
+include/dmlc/logging.h
+include/dmlc/lua.h
+include/dmlc/memory.h
+include/dmlc/memory_io.h
+include/dmlc/omp.h
+include/dmlc/optional.h
+include/dmlc/parameter.h
+include/dmlc/recordio.h
+include/dmlc/registry.h
+include/dmlc/serializer.h
+include/dmlc/strtonum.h
+include/dmlc/thread_group.h
+include/dmlc/thread_local.h
+include/dmlc/threadediter.h
+include/dmlc/timer.h
+include/dmlc/type_traits.h
+include/tensorpipe/channel/basic/factory.h
+include/tensorpipe/channel/context.h
+include/tensorpipe/channel/error.h
+include/tensorpipe/channel/mpt/factory.h
+include/tensorpipe/channel/xth/factory.h
+include/tensorpipe/common/buffer.h
+include/tensorpipe/common/cpu_buffer.h
+include/tensorpipe/common/device.h
+include/tensorpipe/common/error.h
+include/tensorpipe/common/optional.h
+include/tensorpipe/config.h
+include/tensorpipe/core/context.h
+include/tensorpipe/core/error.h
+include/tensorpipe/core/listener.h
+include/tensorpipe/core/message.h
+include/tensorpipe/core/pipe.h
+include/tensorpipe/tensorpipe.h
+include/tensorpipe/transport/context.h
+include/tensorpipe/transport/error.h
+include/tensorpipe/transport/uv/error.h
+include/tensorpipe/transport/uv/factory.h
+include/tensorpipe/transport/uv/utility.h
+lib/cmake/dmlc/DMLCTargets-%%CMAKE_BUILD_TYPE%%.cmake
+lib/cmake/dmlc/DMLCTargets.cmake
+lib/cmake/dmlc/dmlc-config-version.cmake
+lib/cmake/dmlc/dmlc-config.cmake
+lib/libdgl.so
+lib/libdmlc.so
+lib/libtensorpipe.so
+lib/libtensorpipe_uv.a
+share/cmake/Tensorpipe/TensorpipeTargets-%%CMAKE_BUILD_TYPE%%.cmake
+share/cmake/Tensorpipe/TensorpipeTargets.cmake