2026-04-01T16:33:24,473 Created temporary directory: /tmp/pip-ephem-wheel-cache-cts5hys4 2026-04-01T16:33:24,475 Created temporary directory: /tmp/pip-build-tracker-mhbch0b6 2026-04-01T16:33:24,476 Initialized build tracking at /tmp/pip-build-tracker-mhbch0b6 2026-04-01T16:33:24,476 Created build tracker: /tmp/pip-build-tracker-mhbch0b6 2026-04-01T16:33:24,477 Entered build tracker: /tmp/pip-build-tracker-mhbch0b6 2026-04-01T16:33:24,477 Created temporary directory: /tmp/pip-wheel-rwrb4o3t 2026-04-01T16:33:24,480 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-04-01T16:33:24,483 Created temporary directory: /tmp/pip-ephem-wheel-cache-qbt9s27g 2026-04-01T16:33:24,505 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-01T16:33:24,508 2 location(s) to search for versions of mdapy: 2026-04-01T16:33:24,508 * https://pypi.org/simple/mdapy/ 2026-04-01T16:33:24,508 * https://www.piwheels.org/simple/mdapy/ 2026-04-01T16:33:24,509 Fetching project page and analyzing links: https://pypi.org/simple/mdapy/ 2026-04-01T16:33:24,510 Getting page https://pypi.org/simple/mdapy/ 2026-04-01T16:33:24,511 Found index url https://pypi.org/simple 2026-04-01T16:33:24,806 Fetched page https://pypi.org/simple/mdapy/ as application/vnd.pypi.simple.v1+json 2026-04-01T16:33:24,924 Skipping link: No binaries permitted for mdapy: 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https://files.pythonhosted.org/packages/bc/57/d5c628b6c2cc1f15c569923708d3e6a79bc767c3324359fa183b6b4b78f5/mdapy-1.0.3-cp39-cp39-macosx_14_0_arm64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,322 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/d0/cc/910a90447c4d6afe6a1c85d560cc211b275de3385da1888791205f97bf89/mdapy-1.0.3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,323 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/87/c2/5a0c3b5a52b84b2023e2624e93a948f4614b431073c3f09ecb8218785c05/mdapy-1.0.3-cp39-cp39-win32.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,323 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/0c/5a/631ad203c6c36b3cd7aeff87b7d38527777f1648dcffd118dff52f1816cb/mdapy-1.0.3-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,324 Found link https://files.pythonhosted.org/packages/98/72/6b426194d7cc8a7eb2dfc88995fee81a9dc53ddc4fed85dc27503f343108/mdapy-1.0.3.tar.gz (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9), version: 1.0.3 2026-04-01T16:33:25,325 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/e9/af/a1091cc9d727a620596dadc3c7c923b3bd7d1376d8ff28c3f13f223bdf5e/mdapy-1.0.4a1-cp310-cp310-macosx_14_0_arm64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,326 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/4b/8a/9e4e41a0e1e2a5be46d9ae44f7136a127ffcd0ecc252e1488d4b61bb87f5/mdapy-1.0.4a1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from 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https://files.pythonhosted.org/packages/45/d9/75892d594e9c9152bca0c60d86f5b1b61ba128de9d343ec444df09d874b8/mdapy-1.0.4a1-cp312-cp312-win_amd64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,333 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/0a/92/b320ec8161ee2d9cbf46576e46873315db4950214c1df6b6fc3da69feca3/mdapy-1.0.4a1-cp313-cp313-macosx_14_0_arm64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,333 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/80/bc/e6b427ca45b9981ecb84468f96729cc45d7d405324aaf823741d5c0b42f2/mdapy-1.0.4a1-cp313-cp313-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,334 Skipping link: No binaries permitted for mdapy: 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https://files.pythonhosted.org/packages/5e/88/c80d584b46c5246f5ad1faa723a61646e3ad0cdffe81ad1fab7f29531bbd/mdapy-1.0.4a1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,336 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/34/e9/fb95958be739f81fea51d6a68cea7b67553955a561c9e1b2cad4caf2f736/mdapy-1.0.4a1-cp39-cp39-manylinux_2_27_x86_64.manylinux_2_28_x86_64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,337 Skipping link: No binaries permitted for mdapy: https://files.pythonhosted.org/packages/c8/56/2c00c7c68f358d0f402779937992fa6d9b89eb6513116332f8c509b90bc0/mdapy-1.0.4a1-cp39-cp39-win_amd64.whl (from https://pypi.org/simple/mdapy/) (requires-python:>=3.9) 2026-04-01T16:33:25,337 Found link https://files.pythonhosted.org/packages/c0/46/bd6620e6baea23b907e1bd14d18353a87f1a34c9ef878653d9a9e0c8b1c9/mdapy-1.0.4a1.tar.gz (from 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https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.3-cp311-cp311-linux_armv7l.whl#sha256=8cb78787290c397b9dfece2e2dea33932dbd7f8bfc25102ffb19d3cfc3e8a21b (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,603 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.3-cp39-cp39-linux_armv6l.whl#sha256=60b547ad8a094bed5c30220348077063f31aa610cd786220c201b113ce3bcce7 (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,604 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.3-cp39-cp39-linux_armv7l.whl#sha256=60b547ad8a094bed5c30220348077063f31aa610cd786220c201b113ce3bcce7 (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,604 Skipping link: No binaries permitted for mdapy: 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https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.2-cp39-cp39-linux_armv7l.whl#sha256=bdfb377dcc2463dc346ce1b63cfcf791a2ebfb039812edd97171e427316fab54 (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,606 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.1-cp311-cp311-linux_armv6l.whl#sha256=4a614bb384e0b45f19f4a1b65ea1bab28abda3e4b1fa3cba4c7160385983f16e (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,607 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.1-cp311-cp311-linux_armv7l.whl#sha256=4a614bb384e0b45f19f4a1b65ea1bab28abda3e4b1fa3cba4c7160385983f16e (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,608 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.1-cp39-cp39-linux_armv6l.whl#sha256=1f00cd684879a3b96744cdb2afedbc5fbca471c4329dd972df12eda72573861d (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,608 Skipping link: No binaries permitted for mdapy: https://archive1.piwheels.org/simple/mdapy/mdapy-0.9.1-cp39-cp39-linux_armv7l.whl#sha256=1f00cd684879a3b96744cdb2afedbc5fbca471c4329dd972df12eda72573861d (from https://www.piwheels.org/simple/mdapy/) (requires-python:>=3.8,<3.12) 2026-04-01T16:33:25,609 Skipping link: not a file: https://www.piwheels.org/simple/mdapy/ 2026-04-01T16:33:25,609 Skipping link: not a file: https://pypi.org/simple/mdapy/ 2026-04-01T16:33:25,632 Given no hashes to check 1 links for project 'mdapy': discarding no candidates 2026-04-01T16:33:25,649 Collecting mdapy==1.0.4a1 2026-04-01T16:33:25,652 Created temporary directory: /tmp/pip-unpack-a1x_kab2 2026-04-01T16:33:26,017 Downloading mdapy-1.0.4a1.tar.gz (1.2 MB) 2026-04-01T16:33:26,865 Added mdapy==1.0.4a1 from https://files.pythonhosted.org/packages/c0/46/bd6620e6baea23b907e1bd14d18353a87f1a34c9ef878653d9a9e0c8b1c9/mdapy-1.0.4a1.tar.gz to build tracker '/tmp/pip-build-tracker-mhbch0b6' 2026-04-01T16:33:26,871 Created temporary directory: /tmp/pip-build-env-4dh2gbb2 2026-04-01T16:33:26,876 Installing build dependencies: started 2026-04-01T16:33:26,877 Running command pip subprocess to install build dependencies 2026-04-01T16:33:28,031 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-04-01T16:33:28,449 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-04-01T16:33:28,473 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-01T16:33:29,022 Collecting scikit-build-core>=0.4.3 2026-04-01T16:33:29,048 Using cached https://www.piwheels.org/simple/scikit-build-core/scikit_build_core-0.12.2-py3-none-any.whl (192 kB) 2026-04-01T16:33:29,169 Collecting nanobind>=1.3.2 2026-04-01T16:33:29,202 Using cached https://www.piwheels.org/simple/nanobind/nanobind-2.12.0-py3-none-any.whl (249 kB) 2026-04-01T16:33:29,417 Collecting packaging>=23.2 2026-04-01T16:33:29,439 Using cached https://www.piwheels.org/simple/packaging/packaging-26.0-py3-none-any.whl (74 kB) 2026-04-01T16:33:29,556 Collecting pathspec>=0.12.0 2026-04-01T16:33:29,573 Using cached https://www.piwheels.org/simple/pathspec/pathspec-1.0.4-py3-none-any.whl (55 kB) 2026-04-01T16:33:32,294 Installing collected packages: nanobind, pathspec, packaging, scikit-build-core 2026-04-01T16:33:33,640 Successfully installed nanobind-2.12.0 packaging-26.0 pathspec-1.0.4 scikit-build-core-0.12.2 2026-04-01T16:33:33,878 Installing build dependencies: finished with status 'done' 2026-04-01T16:33:33,885 Getting requirements to build wheel: started 2026-04-01T16:33:33,886 Running command Getting requirements to build wheel 2026-04-01T16:33:34,515 Getting requirements to build wheel: finished with status 'done' 2026-04-01T16:33:34,518 Created temporary directory: /tmp/pip-modern-metadata-w55kzqdi 2026-04-01T16:33:34,520 Preparing metadata (pyproject.toml): started 2026-04-01T16:33:34,522 Running command Preparing metadata (pyproject.toml) 2026-04-01T16:33:35,257 *** scikit-build-core 0.12.2 using CMake 3.25.1 (metadata_wheel) 2026-04-01T16:33:35,358 Preparing metadata (pyproject.toml): finished with status 'done' 2026-04-01T16:33:35,363 Source in /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f has version 1.0.4a1, which satisfies requirement mdapy==1.0.4a1 from https://files.pythonhosted.org/packages/c0/46/bd6620e6baea23b907e1bd14d18353a87f1a34c9ef878653d9a9e0c8b1c9/mdapy-1.0.4a1.tar.gz 2026-04-01T16:33:35,364 Removed mdapy==1.0.4a1 from https://files.pythonhosted.org/packages/c0/46/bd6620e6baea23b907e1bd14d18353a87f1a34c9ef878653d9a9e0c8b1c9/mdapy-1.0.4a1.tar.gz from build tracker '/tmp/pip-build-tracker-mhbch0b6' 2026-04-01T16:33:35,369 Created temporary directory: /tmp/pip-unpack-znp3xyrp 2026-04-01T16:33:35,370 Building wheels for collected packages: mdapy 2026-04-01T16:33:35,374 Created temporary directory: /tmp/pip-wheel-x4a_wpn5 2026-04-01T16:33:35,374 Destination directory: /tmp/pip-wheel-x4a_wpn5 2026-04-01T16:33:35,377 Building wheel for mdapy (pyproject.toml): started 2026-04-01T16:33:35,378 Running command Building wheel for mdapy (pyproject.toml) 2026-04-01T16:33:36,096 *** scikit-build-core 0.12.2 using CMake 3.25.1 (wheel) 2026-04-01T16:33:36,120 *** Configuring CMake... 2026-04-01T16:33:36,216 loading initial cache file build/cp311-cp311-linux_armv7l/CMakeInit.txt 2026-04-01T16:33:36,543 -- The CXX compiler identification is GNU 12.2.0 2026-04-01T16:33:36,780 -- The C compiler identification is GNU 12.2.0 2026-04-01T16:33:36,829 -- Detecting CXX compiler ABI info 2026-04-01T16:33:37,149 -- Detecting CXX compiler ABI info - done 2026-04-01T16:33:37,204 -- Check for working CXX compiler: /usr/bin/arm-linux-gnueabihf-g++ - skipped 2026-04-01T16:33:37,206 -- Detecting CXX compile features 2026-04-01T16:33:37,210 -- Detecting CXX compile features - done 2026-04-01T16:33:37,239 -- Detecting C compiler ABI info 2026-04-01T16:33:37,508 -- Detecting C compiler ABI info - done 2026-04-01T16:33:37,546 -- Check for working C compiler: /usr/bin/arm-linux-gnueabihf-gcc - skipped 2026-04-01T16:33:37,547 -- Detecting C compile features 2026-04-01T16:33:37,549 -- Detecting C compile features - done 2026-04-01T16:33:38,261 -- Found Python: /usr/bin/python3 (found suitable version "3.11.2", minimum required is "3.8") found components: Interpreter Development.Module 2026-04-01T16:33:39,368 -- Found OpenMP_CXX: -fopenmp (found version "4.5") 2026-04-01T16:33:39,369 -- Found OpenMP: TRUE (found version "4.5") found components: CXX 2026-04-01T16:33:39,548 -- [mdapy] CUDA toolkit not found — GPU backend disabled. 2026-04-01T16:33:39,550 -- Configuring done 2026-04-01T16:33:39,824 -- Generating done 2026-04-01T16:33:39,966 -- Build files have been written to: /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/build/cp311-cp311-linux_armv7l 2026-04-01T16:33:40,040 *** Building project with Ninja... 2026-04-01T16:33:49,662 [1/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_internals.cpp.o 2026-04-01T16:33:51,687 [2/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_enum.cpp.o 2026-04-01T16:33:52,212 [3/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_ndarray.cpp.o 2026-04-01T16:33:54,070 [4/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_func.cpp.o 2026-04-01T16:33:57,478 [5/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_type.cpp.o 2026-04-01T16:33:57,601 [6/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/nb_static_property.cpp.o 2026-04-01T16:34:00,492 [7/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/error.cpp.o 2026-04-01T16:34:02,774 [8/123] Building CXX object CMakeFiles/_neighbor.dir/src/neighbor.cpp.o 2026-04-01T16:34:03,114 [9/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/trampoline.cpp.o 2026-04-01T16:34:03,834 [10/123] Building CXX object CMakeFiles/_structure_entropy.dir/src/structure_entropy.cpp.o 2026-04-01T16:34:04,041 [11/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/common.cpp.o 2026-04-01T16:34:05,798 [12/123] Building CXX object CMakeFiles/nanobind-static.dir/tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/src/implicit.cpp.o 2026-04-01T16:34:06,532 [13/123] Linking CXX static library libnanobind-static.a 2026-04-01T16:34:07,281 [14/123] Building CXX object CMakeFiles/_nepcal.dir/extern/NEPCPU/ewald_nep.cpp.o 2026-04-01T16:34:07,282 : warning: "_OPENMP" redefined 2026-04-01T16:34:07,283 : note: this is the location of the previous definition 2026-04-01T16:34:07,295 [15/123] Linking CXX shared module _neighbor.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:07,982 [16/123] Linking CXX shared module _structure_entropy.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:08,119 [17/123] Building CXX object CMakeFiles/_nepcal.dir/extern/NEPCPU/neighbor_nep.cpp.o 2026-04-01T16:34:08,120 : warning: "_OPENMP" redefined 2026-04-01T16:34:08,120 : note: this is the location of the previous definition 2026-04-01T16:34:13,238 [18/123] Building CXX object CMakeFiles/_repeat_cell.dir/src/repeat_cell.cpp.o 2026-04-01T16:34:13,985 [19/123] Linking CXX shared module _repeat_cell.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:23,636 [20/123] Building CXX object CMakeFiles/_nepcal.dir/src/neppy.cpp.o 2026-04-01T16:34:23,638 : warning: "_OPENMP" redefined 2026-04-01T16:34:23,640 : note: this is the location of the previous definition 2026-04-01T16:34:23,707 [21/123] Building CXX object CMakeFiles/_cluster.dir/src/cluster.cpp.o 2026-04-01T16:34:24,175 [22/123] Building CXX object CMakeFiles/_aabbtree.dir/src/aabb_tree.cpp.o 2026-04-01T16:34:24,177 In file included from /usr/include/c++/12/algorithm:61, 2026-04-01T16:34:24,179 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.h:7, 2026-04-01T16:34:24,180 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:2: 2026-04-01T16:34:24,182 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,183 /usr/include/c++/12/bits/stl_algo.h:1782:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,184 1782 | __unguarded_linear_insert(_RandomAccessIterator __last, 2026-04-01T16:34:24,186 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,187 In file included from /usr/include/c++/12/bits/stl_algo.h:60: 2026-04-01T16:34:24,189 /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__push_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = array; _Compare = __gnu_cxx::__ops::_Iter_comp_val&, const array&)> >]’: 2026-04-01T16:34:24,191 /usr/include/c++/12/bits/stl_heap.h:135:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,192 135 | __push_heap(_RandomAccessIterator __first, 2026-04-01T16:34:24,194 | ^~~~~~~~~~~ 2026-04-01T16:34:24,195 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Val_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,197 /usr/include/c++/12/bits/stl_algo.h:1782:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,199 1782 | __unguarded_linear_insert(_RandomAccessIterator __last, 2026-04-01T16:34:24,201 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,203 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,206 /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,207 1802 | __insertion_sort(_RandomAccessIterator __first, 2026-04-01T16:34:24,209 | ^~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,211 /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,213 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,214 /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,216 /usr/include/c++/12/bits/stl_algo.h:1802:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,217 /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = array; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,219 /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,221 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, 2026-04-01T16:34:24,222 | ^~~~~~~~~~~~~ 2026-04-01T16:34:24,223 /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = array; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,225 /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,225 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,226 /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,227 1908 | __introsort_loop(_RandomAccessIterator __first, 2026-04-01T16:34:24,228 | ^~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,229 /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,230 /usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,231 1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); 2026-04-01T16:34:24,232 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,233 /usr/include/c++/12/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’: 2026-04-01T16:34:24,234 /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,235 1908 | __introsort_loop(_RandomAccessIterator __first, 2026-04-01T16:34:24,236 | ^~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,238 /usr/include/c++/12/bits/stl_algo.h:1908:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,239 /usr/include/c++/12/bits/stl_algo.h:1922:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,240 1922 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); 2026-04-01T16:34:24,241 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,242 In file included from /usr/include/c++/12/vector:70, 2026-04-01T16:34:24,243 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.h:5: 2026-04-01T16:34:24,244 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {}; _Tp = Node; _Alloc = std::allocator]’: 2026-04-01T16:34:24,245 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2026-04-01T16:34:24,246 439 | vector<_Tp, _Alloc>:: 2026-04-01T16:34:24,247 | ^~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,248 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const std::array&}; _Tp = std::array; _Alloc = std::allocator >]’: 2026-04-01T16:34:24,249 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 2026-04-01T16:34:24,250 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {}; _Tp = Node; _Alloc = std::allocator]’, 2026-04-01T16:34:24,251 inlined from ‘int AABBTree::build_recursive(int, int, const double*, const double*, const double*)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:55:23: 2026-04-01T16:34:24,252 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:34:24,253 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2026-04-01T16:34:24,254 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,255 In file included from /usr/include/c++/12/vector:64: 2026-04-01T16:34:24,255 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::array; _Alloc = std::allocator >]’, 2026-04-01T16:34:24,256 inlined from ‘void AABBTree::build_with_coords(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:289:37: 2026-04-01T16:34:24,257 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,258 1287 | _M_realloc_insert(end(), __x); 2026-04-01T16:34:24,259 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2026-04-01T16:34:24,260 In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’, 2026-04-01T16:34:24,260 inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = AABBTree::build_with_coords(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI)::&, const array&)>]’ at /usr/include/c++/12/bits/stl_algo.h:4853:18, 2026-04-01T16:34:24,261 inlined from ‘void AABBTree::build_with_coords(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:295:14: 2026-04-01T16:34:24,262 /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,263 1937 | std::__introsort_loop(__first, __last, 2026-04-01T16:34:24,264 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,265 1938 | std::__lg(__last - __first) * 2, 2026-04-01T16:34:24,266 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,267 1939 | __comp); 2026-04-01T16:34:24,268 | ~~~~~~~ 2026-04-01T16:34:24,269 In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’, 2026-04-01T16:34:24,270 inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, 2026-04-01T16:34:24,271 inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = AABBTree::build_with_coords(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI)::&, const array&)>]’ at /usr/include/c++/12/bits/stl_algo.h:4853:18, 2026-04-01T16:34:24,272 inlined from ‘void AABBTree::build_with_coords(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:295:14: 2026-04-01T16:34:24,273 /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,274 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); 2026-04-01T16:34:24,275 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,280 /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,281 1854 | std::__insertion_sort(__first, __last, __comp); 2026-04-01T16:34:24,282 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,283 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = std::array; _Alloc = std::allocator >]’, 2026-04-01T16:34:24,284 inlined from ‘void knn(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, int, TwoArrayI, TwoArrayD)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:490:37: 2026-04-01T16:34:24,285 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,286 1287 | _M_realloc_insert(end(), __x); 2026-04-01T16:34:24,287 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2026-04-01T16:34:24,288 In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’, 2026-04-01T16:34:24,289 inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = knn(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, int, TwoArrayI, TwoArrayD)::&, const array&)>]’ at /usr/include/c++/12/bits/stl_algo.h:4853:18, 2026-04-01T16:34:24,291 inlined from ‘void knn(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, int, TwoArrayI, TwoArrayD)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:496:14: 2026-04-01T16:34:24,292 /usr/include/c++/12/bits/stl_algo.h:1937:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,294 1937 | std::__introsort_loop(__first, __last, 2026-04-01T16:34:24,295 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,297 1938 | std::__lg(__last - __first) * 2, 2026-04-01T16:34:24,298 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,300 1939 | __comp); 2026-04-01T16:34:24,303 | ~~~~~~~ 2026-04-01T16:34:24,304 In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’, 2026-04-01T16:34:24,306 inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter&, const array&)> >]’ at /usr/include/c++/12/bits/stl_algo.h:1940:31, 2026-04-01T16:34:24,307 inlined from ‘void std::sort(_RAIter, _RAIter, _Compare) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >; _Compare = knn(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, int, TwoArrayI, TwoArrayD)::&, const array&)>]’ at /usr/include/c++/12/bits/stl_algo.h:4853:18, 2026-04-01T16:34:24,309 inlined from ‘void knn(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, int, TwoArrayI, TwoArrayD)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/aabb_tree.cpp:496:14: 2026-04-01T16:34:24,310 /usr/include/c++/12/bits/stl_algo.h:1849:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,311 1849 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); 2026-04-01T16:34:24,312 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,313 /usr/include/c++/12/bits/stl_algo.h:1854:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 2026-04-01T16:34:24,314 1854 | std::__insertion_sort(__first, __last, __comp); 2026-04-01T16:34:24,315 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:24,505 [23/123] Linking CXX shared module _cluster.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:24,937 [24/123] Linking CXX shared module _aabbtree.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:28,106 [25/123] Building CXX object CMakeFiles/_voronoi.dir/src/voronoi.cpp.o 2026-04-01T16:34:28,108 In file included from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/voro++.hh:337, 2026-04-01T16:34:28,108 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/voronoi.cpp:3: 2026-04-01T16:34:28,109 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:16:49: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,110 16 | class container_base_2d::iterator : public std::iterator { 2026-04-01T16:34:28,111 | ^~~~~~~~ 2026-04-01T16:34:28,113 In file included from /usr/include/c++/12/bits/stl_algobase.h:65, 2026-04-01T16:34:28,114 from /usr/include/c++/12/bits/specfun.h:45, 2026-04-01T16:34:28,115 from /usr/include/c++/12/cmath:1935, 2026-04-01T16:34:28,115 from /usr/include/c++/12/math.h:36, 2026-04-01T16:34:28,117 from /usr/include/python3.11/pyport.h:218, 2026-04-01T16:34:28,118 from /usr/include/python3.11/Python.h:38, 2026-04-01T16:34:28,119 from /tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/include/nanobind/nb_python.h:21, 2026-04-01T16:34:28,120 from /tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/include/nanobind/nanobind.h:32, 2026-04-01T16:34:28,121 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/type.h:2, 2026-04-01T16:34:28,122 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/box.h:2, 2026-04-01T16:34:28,123 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/voronoi.cpp:1: 2026-04-01T16:34:28,124 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,125 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,126 | ^~~~~~~~ 2026-04-01T16:34:28,127 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:21:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,128 21 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,128 | ^~~~~~~~ 2026-04-01T16:34:28,129 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,130 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,131 | ^~~~~~~~ 2026-04-01T16:34:28,132 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:22:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,133 22 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,134 | ^~~~~~~~ 2026-04-01T16:34:28,135 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,136 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,137 | ^~~~~~~~ 2026-04-01T16:34:28,138 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:23:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,140 23 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,141 | ^~~~~~~~ 2026-04-01T16:34:28,142 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,143 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,144 | ^~~~~~~~ 2026-04-01T16:34:28,145 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:153:56: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,146 153 | class container_base_2d::iterator_subset : public std::iterator { 2026-04-01T16:34:28,147 | ^~~~~~~~ 2026-04-01T16:34:28,148 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,149 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,150 | ^~~~~~~~ 2026-04-01T16:34:28,150 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:155:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,151 155 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,152 | ^~~~~~~~ 2026-04-01T16:34:28,153 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,154 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,155 | ^~~~~~~~ 2026-04-01T16:34:28,156 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:156:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,157 156 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,158 | ^~~~~~~~ 2026-04-01T16:34:28,160 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,161 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,162 | ^~~~~~~~ 2026-04-01T16:34:28,162 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:157:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,163 157 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,164 | ^~~~~~~~ 2026-04-01T16:34:28,165 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,166 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,167 | ^~~~~~~~ 2026-04-01T16:34:28,168 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:246:55: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,169 246 | class container_base_2d::iterator_order : public std::iterator { 2026-04-01T16:34:28,170 | ^~~~~~~~ 2026-04-01T16:34:28,171 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,172 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,173 | ^~~~~~~~ 2026-04-01T16:34:28,174 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:248:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,175 248 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,177 | ^~~~~~~~ 2026-04-01T16:34:28,177 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,178 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,179 | ^~~~~~~~ 2026-04-01T16:34:28,180 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:249:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,181 249 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,183 | ^~~~~~~~ 2026-04-01T16:34:28,183 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,184 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,185 | ^~~~~~~~ 2026-04-01T16:34:28,186 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:250:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,187 250 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,187 | ^~~~~~~~ 2026-04-01T16:34:28,188 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,189 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,190 | ^~~~~~~~ 2026-04-01T16:34:28,190 In file included from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/voro++.hh:338: 2026-04-01T16:34:28,191 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:18:53: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,192 18 | class container_base_3d::iterator : public std::iterator 2026-04-01T16:34:28,193 | ^~~~~~~~ 2026-04-01T16:34:28,194 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,195 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,196 | ^~~~~~~~ 2026-04-01T16:34:28,197 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:24:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,198 24 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,199 | ^~~~~~~~ 2026-04-01T16:34:28,200 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,201 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,202 | ^~~~~~~~ 2026-04-01T16:34:28,203 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:25:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,204 25 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,205 | ^~~~~~~~ 2026-04-01T16:34:28,206 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,207 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,208 | ^~~~~~~~ 2026-04-01T16:34:28,209 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:26:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,210 26 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,212 | ^~~~~~~~ 2026-04-01T16:34:28,212 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,213 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,214 | ^~~~~~~~ 2026-04-01T16:34:28,215 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:180:60: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,216 180 | class container_base_3d::iterator_subset : public std::iterator 2026-04-01T16:34:28,217 | ^~~~~~~~ 2026-04-01T16:34:28,218 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,219 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,220 | ^~~~~~~~ 2026-04-01T16:34:28,221 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:183:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,221 183 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,222 | ^~~~~~~~ 2026-04-01T16:34:28,224 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,224 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,225 | ^~~~~~~~ 2026-04-01T16:34:28,226 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:184:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,227 184 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,228 | ^~~~~~~~ 2026-04-01T16:34:28,229 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,230 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,231 | ^~~~~~~~ 2026-04-01T16:34:28,232 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:185:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,233 185 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,234 | ^~~~~~~~ 2026-04-01T16:34:28,235 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,236 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,237 | ^~~~~~~~ 2026-04-01T16:34:28,238 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:290:59: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,239 290 | class container_base_3d::iterator_order : public std::iterator 2026-04-01T16:34:28,240 | ^~~~~~~~ 2026-04-01T16:34:28,241 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,242 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,243 | ^~~~~~~~ 2026-04-01T16:34:28,244 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:293:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,244 293 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,245 | ^~~~~~~~ 2026-04-01T16:34:28,246 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,247 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,248 | ^~~~~~~~ 2026-04-01T16:34:28,249 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:294:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,249 294 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,250 | ^~~~~~~~ 2026-04-01T16:34:28,251 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,252 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,253 | ^~~~~~~~ 2026-04-01T16:34:28,254 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:295:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,255 295 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,256 | ^~~~~~~~ 2026-04-01T16:34:28,257 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,258 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,259 | ^~~~~~~~ 2026-04-01T16:34:28,260 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:435:60: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,261 435 | class container_triclinic_base::iterator : public std::iterator 2026-04-01T16:34:28,261 | ^~~~~~~~ 2026-04-01T16:34:28,262 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,263 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,264 | ^~~~~~~~ 2026-04-01T16:34:28,265 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:448:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,266 448 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,267 | ^~~~~~~~ 2026-04-01T16:34:28,267 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,268 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,270 | ^~~~~~~~ 2026-04-01T16:34:28,270 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:449:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,271 449 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,272 | ^~~~~~~~ 2026-04-01T16:34:28,272 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,273 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,274 | ^~~~~~~~ 2026-04-01T16:34:28,275 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:450:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,276 450 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,277 | ^~~~~~~~ 2026-04-01T16:34:28,278 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,279 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,280 | ^~~~~~~~ 2026-04-01T16:34:28,281 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:522:66: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,281 522 | class container_triclinic_base::iterator_order : public std::iterator 2026-04-01T16:34:28,282 | ^~~~~~~~ 2026-04-01T16:34:28,284 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,285 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,285 | ^~~~~~~~ 2026-04-01T16:34:28,286 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:530:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,287 530 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:34:28,288 | ^~~~~~~~ 2026-04-01T16:34:28,289 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,290 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,290 | ^~~~~~~~ 2026-04-01T16:34:28,291 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:531:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,292 531 | typedef typename std::iterator::reference reference; 2026-04-01T16:34:28,304 | ^~~~~~~~ 2026-04-01T16:34:28,305 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,306 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,307 | ^~~~~~~~ 2026-04-01T16:34:28,308 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:532:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:34:28,309 532 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:34:28,310 | ^~~~~~~~ 2026-04-01T16:34:28,311 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:34:28,312 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:34:28,312 | ^~~~~~~~ 2026-04-01T16:34:32,349 [26/123] Building CXX object CMakeFiles/_polycrystal.dir/src/polycrystal.cpp.o 2026-04-01T16:34:32,490 [27/123] Building CXX object CMakeFiles/_spline.dir/src/spline.cpp.o 2026-04-01T16:34:33,144 [28/123] Linking CXX shared module _spline.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:33,235 [29/123] Linking CXX shared module _polycrystal.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:35,356 [30/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_canonical_coloured.cpp.o 2026-04-01T16:34:37,150 [31/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_alloy_types.cpp.o 2026-04-01T16:34:38,694 [32/123] Building CXX object CMakeFiles/_cna.dir/src/cna.cpp.o 2026-04-01T16:34:38,792 [33/123] Building CXX object CMakeFiles/_ptm.dir/src/polyhedral_template_matching.cpp.o 2026-04-01T16:34:39,159 [34/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_convex_hull_incremental.cpp.o 2026-04-01T16:34:39,351 [35/123] Linking CXX shared module _cna.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:39,726 [36/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_correspondences.cpp.o 2026-04-01T16:34:40,899 [37/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_graph_data.cpp.o 2026-04-01T16:34:41,202 [38/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_deformation_gradient.cpp.o 2026-04-01T16:34:41,299 [39/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_graph_tools.cpp.o 2026-04-01T16:34:42,144 [40/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_index.cpp.o 2026-04-01T16:34:42,803 [41/123] Building CXX object CMakeFiles/_nepcal.dir/extern/NEPCPU/nep.cpp.o 2026-04-01T16:34:42,804 : warning: "_OPENMP" redefined 2026-04-01T16:34:42,805 : note: this is the location of the previous definition 2026-04-01T16:34:43,310 [42/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_map_templates.cpp.o 2026-04-01T16:34:43,408 [43/123] Linking CXX shared module _nepcal.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:43,506 [44/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_initialize_data.cpp.o 2026-04-01T16:34:45,475 [45/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_normalize_vertices.cpp.o 2026-04-01T16:34:45,748 [46/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_polar.cpp.o 2026-04-01T16:34:47,016 [47/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_quat.cpp.o 2026-04-01T16:34:47,037 [48/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_neighbour_ordering.cpp.o 2026-04-01T16:34:47,518 [49/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_solid_angles.cpp.o 2026-04-01T16:34:47,652 [50/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_multishell.cpp.o 2026-04-01T16:34:49,211 [51/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_structure_matcher.cpp.o 2026-04-01T16:34:56,225 [52/123] Building CXX object CMakeFiles/_rdf.dir/src/radial_distribution_function.cpp.o 2026-04-01T16:34:56,914 [53/123] Linking CXX shared module _rdf.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:34:59,081 [54/123] Building CXX object CMakeFiles/_ptm.dir/extern/ptm/ptm_voronoi_cell.cpp.o 2026-04-01T16:34:59,083 In file included from /usr/include/c++/12/vector:70, 2026-04-01T16:34:59,084 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/ptm/ptm_voronoi_cell.h:58, 2026-04-01T16:34:59,086 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/ptm/ptm_voronoi_cell.cpp:58: 2026-04-01T16:34:59,087 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’: 2026-04-01T16:34:59,088 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2026-04-01T16:34:59,089 439 | vector<_Tp, _Alloc>:: 2026-04-01T16:34:59,090 | ^~~~~~~~~~~~~~~~~~~ 2026-04-01T16:34:59,091 In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator]’, 2026-04-01T16:34:59,092 inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = double; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1294:21, 2026-04-01T16:34:59,094 inlined from ‘void ptm_voro::voronoicell_base::face_areas(std::vector&)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/ptm/ptm_voronoi_cell.cpp:1248:36: 2026-04-01T16:34:59,095 /usr/include/c++/12/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:34:59,096 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2026-04-01T16:34:59,097 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:00,059 [55/123] Linking CXX shared module _ptm.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:04,731 [56/123] Building CXX object CMakeFiles/_sbo.dir/src/steinhardt_bond_orientation.cpp.o 2026-04-01T16:35:04,732 In file included from /usr/include/c++/12/vector:70, 2026-04-01T16:35:04,734 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/steinhardt_bond_orientation.cpp:5: 2026-04-01T16:35:04,735 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: 2026-04-01T16:35:04,736 /usr/include/c++/12/bits/vector.tcc:523:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2026-04-01T16:35:04,737 523 | vector<_Tp, _Alloc>:: 2026-04-01T16:35:04,738 | ^~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:04,739 In file included from /usr/include/c++/12/vector:64: 2026-04-01T16:35:04,740 In member function ‘void std::vector<_Tp, _Alloc>::resize(size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2026-04-01T16:35:04,741 inlined from ‘void get_sq(ROneArrayD, ROneArrayD, ROneArrayD, RTwoArrayD, ROneArrayD, ROneArrayI, RTwoArrayI, RTwoArrayD, ROneArrayI, RTwoArrayD, ROneArrayI, int, int, bool, bool, bool, bool, double, bool, ThreeArrayD, ThreeArrayD, TwoArrayD)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/steinhardt_bond_orientation.cpp:747:22: 2026-04-01T16:35:04,742 /usr/include/c++/12/bits/stl_vector.h:1032:25: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:04,743 1032 | _M_fill_insert(end(), __new_size - size(), __x); 2026-04-01T16:35:04,744 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:05,322 [57/123] Building CXX object CMakeFiles/_csp.dir/src/centro_symmetry_parameter.cpp.o 2026-04-01T16:35:05,323 In file included from /usr/include/c++/12/bits/stl_algo.h:60, 2026-04-01T16:35:05,324 from /usr/include/c++/12/algorithm:61, 2026-04-01T16:35:05,325 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/centro_symmetry_parameter.cpp:8: 2026-04-01T16:35:05,327 /usr/include/c++/12/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: 2026-04-01T16:35:05,327 /usr/include/c++/12/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:05,328 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, 2026-04-01T16:35:05,330 | ^~~~~~~~~~~~~ 2026-04-01T16:35:05,355 [58/123] Linking CXX shared module _sbo.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:05,903 [59/123] Linking CXX shared module _csp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:06,456 [60/123] Building CXX object CMakeFiles/_eam.dir/src/eam.cpp.o 2026-04-01T16:35:06,457 In file included from /usr/include/c++/12/vector:63, 2026-04-01T16:35:06,458 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/spline.h:3, 2026-04-01T16:35:06,458 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/eam.h:4, 2026-04-01T16:35:06,459 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/eam.cpp:1: 2026-04-01T16:35:06,460 /usr/include/c++/12/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’: 2026-04-01T16:35:06,461 /usr/include/c++/12/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,462 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, 2026-04-01T16:35:06,463 | ^~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,464 /usr/include/c++/12/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,465 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,466 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,467 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,468 inlined from ‘std::vector<_Tp, _Alloc>::pointer std::vector<_Tp, _Alloc>::_M_allocate_and_copy(size_type, _ForwardIterator, _ForwardIterator) [with _ForwardIterator = __gnu_cxx::__normal_iterator >; _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:1617:35, 2026-04-01T16:35:06,468 inlined from ‘std::vector<_Tp, _Alloc>& std::vector<_Tp, _Alloc>::operator=(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/vector.tcc:232:44: 2026-04-01T16:35:06,469 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,470 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,471 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,472 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,473 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,474 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,474 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,475 inlined from ‘void std::_Construct(_Tp*, _Args&& ...) [with _Tp = vector; _Args = {const vector >&}]’ at /usr/include/c++/12/bits/stl_construct.h:119:7, 2026-04-01T16:35:06,476 inlined from ‘_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = vector*; _Size = unsigned int; _Tp = vector]’ at /usr/include/c++/12/bits/stl_uninitialized.h:267:21: 2026-04-01T16:35:06,477 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,478 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,479 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,480 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,481 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,482 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,483 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,483 inlined from ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = std::vector; _Args = {const std::vector >&}; _Tp = std::vector]’ at /usr/include/c++/12/bits/new_allocator.h:175:4, 2026-04-01T16:35:06,485 inlined from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = std::vector; _Args = {const std::vector >&}; _Tp = std::vector]’ at /usr/include/c++/12/bits/alloc_traits.h:516:17, 2026-04-01T16:35:06,487 inlined from ‘std::vector<_Tp, _Alloc>::_Temporary_value::_Temporary_value(std::vector<_Tp, _Alloc>*, _Args&& ...) [with _Args = {const std::vector >&}; _Tp = std::vector; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:1830:30, 2026-04-01T16:35:06,489 inlined from ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(iterator, size_type, const value_type&) [with _Tp = std::vector; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/vector.tcc:534:25: 2026-04-01T16:35:06,490 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,490 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,495 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,496 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,497 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,498 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,499 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,500 inlined from ‘EAM::EAM(const EAM&)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/eam.h:8:7, 2026-04-01T16:35:06,500 inlined from ‘void nanobind::detail::wrap_copy(void*, const void*) [with T = EAM]’ at /tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/include/nanobind/nb_class.h:242:5: 2026-04-01T16:35:06,501 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,502 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,503 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,504 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,506 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,508 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,508 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,510 inlined from ‘EAM::EAM(const EAM&)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/eam.h:8:7, 2026-04-01T16:35:06,511 inlined from ‘void nanobind::detail::wrap_copy(void*, const void*) [with T = EAM]’ at /tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/include/nanobind/nb_class.h:242:5: 2026-04-01T16:35:06,512 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,513 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,515 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,516 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; bool _TrivialValueTypes = false]’, 2026-04-01T16:35:06,517 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,519 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = CubicSpline*; _Tp = CubicSpline]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,520 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = CubicSpline; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,521 inlined from ‘void std::_Construct(_Tp*, _Args&& ...) [with _Tp = vector; _Args = {const vector >&}]’ at /usr/include/c++/12/bits/stl_construct.h:119:7, 2026-04-01T16:35:06,523 inlined from ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = vector*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:120:21, 2026-04-01T16:35:06,524 inlined from ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, std::vector > >; _ForwardIterator = std::vector*; bool _TrivialValueTypes = false]’ at /usr/include/c++/12/bits/stl_uninitialized.h:137:32, 2026-04-01T16:35:06,525 inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = vector*]’ at /usr/include/c++/12/bits/stl_uninitialized.h:185:15, 2026-04-01T16:35:06,527 inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator*, vector > >; _ForwardIterator = vector*; _Tp = vector]’ at /usr/include/c++/12/bits/stl_uninitialized.h:372:37, 2026-04-01T16:35:06,528 inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = std::vector; _Alloc = std::allocator >]’ at /usr/include/c++/12/bits/stl_vector.h:601:31, 2026-04-01T16:35:06,534 inlined from ‘EAM::EAM(const EAM&)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/eam.h:8:7, 2026-04-01T16:35:06,535 inlined from ‘void nanobind::detail::wrap_copy(void*, const void*) [with T = EAM]’ at /tmp/pip-build-env-4dh2gbb2/overlay/local/lib/python3.11/dist-packages/nanobind/include/nanobind/nb_class.h:242:5: 2026-04-01T16:35:06,536 /usr/include/c++/12/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,537 137 | { return std::__do_uninit_copy(__first, __last, __result); } 2026-04-01T16:35:06,538 | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,547 [61/123] Building CXX object CMakeFiles/_sfc.dir/src/structure_factor.cpp.o 2026-04-01T16:35:06,548 In file included from /usr/include/c++/12/vector:70, 2026-04-01T16:35:06,549 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/structure_factor.cpp:4: 2026-04-01T16:35:06,551 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const Vec3&}; _Tp = Vec3; _Alloc = std::allocator]’: 2026-04-01T16:35:06,551 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2026-04-01T16:35:06,552 439 | vector<_Tp, _Alloc>:: 2026-04-01T16:35:06,553 | ^~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:06,554 In file included from /usr/include/c++/12/vector:64: 2026-04-01T16:35:06,555 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Vec3; _Alloc = std::allocator]’, 2026-04-01T16:35:06,556 inlined from ‘_ZNK21StructureFactorDirect15generateKPointsERK3Boxdd._omp_fn.0’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/src/structure_factor.cpp:192:65: 2026-04-01T16:35:06,559 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:06,560 1287 | _M_realloc_insert(end(), __x); 2026-04-01T16:35:06,561 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2026-04-01T16:35:07,173 [62/123] Linking CXX shared module _eam.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:07,209 [63/123] Linking CXX shared module _sfc.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:07,307 [64/123] Building CXX object CMakeFiles/_wcp.dir/src/warren_cowley_parameter.cpp.o 2026-04-01T16:35:08,082 [65/123] Linking CXX shared module _wcp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:13,919 [66/123] Building CXX object CMakeFiles/_strain.dir/src/atomic_strain.cpp.o 2026-04-01T16:35:14,259 [67/123] Building CXX object CMakeFiles/_fccpft.dir/src/identify_fcc_planar_faults.cpp.o 2026-04-01T16:35:14,681 [68/123] Linking CXX shared module _strain.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:14,960 [69/123] Building CXX object CMakeFiles/_cnp.dir/src/common_neighbor_parameter.cpp.o 2026-04-01T16:35:14,973 [70/123] Linking CXX shared module _fccpft.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:14,980 [71/123] Building CXX object CMakeFiles/_aja.dir/src/ackland_jones_analysis.cpp.o 2026-04-01T16:35:15,650 [72/123] Linking CXX shared module _cnp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:15,861 [73/123] Linking CXX shared module _aja.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:20,139 [74/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/api.c.o 2026-04-01T16:35:20,353 [75/123] Building CXX object CMakeFiles/_split.dir/src/split_file.cpp.o 2026-04-01T16:35:21,007 [76/123] Building CXX object CMakeFiles/_atomtemp.dir/src/atomic_temperature.cpp.o 2026-04-01T16:35:21,013 [77/123] Linking CXX shared module _split.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:21,161 [78/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/apigeom.c.o 2026-04-01T16:35:21,591 [79/123] Linking CXX shared module _atomtemp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:21,638 [80/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/box.c.o 2026-04-01T16:35:21,897 [81/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/apitrigeom.c.o 2026-04-01T16:35:22,214 [82/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/coordsys.c.o 2026-04-01T16:35:22,667 [83/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/cylinder.c.o 2026-04-01T16:35:22,919 [84/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/camera.c.o 2026-04-01T16:35:23,011 [85/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/global.c.o 2026-04-01T16:35:23,157 [86/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/extvol.c.o 2026-04-01T16:35:23,255 [87/123] Building CXX object CMakeFiles/_lindemann.dir/src/lindemann.cpp.o 2026-04-01T16:35:23,796 [88/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/hash.c.o 2026-04-01T16:35:24,103 [89/123] Linking CXX shared module _lindemann.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:24,368 [90/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/imageio.c.o 2026-04-01T16:35:24,604 [91/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/grid.c.o 2026-04-01T16:35:24,612 [92/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/jpeg.c.o 2026-04-01T16:35:24,664 [93/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/intersect.c.o 2026-04-01T16:35:25,047 [94/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/parallel.c.o 2026-04-01T16:35:25,060 [95/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/plane.c.o 2026-04-01T16:35:25,090 [96/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/imap.c.o 2026-04-01T16:35:25,345 [97/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/pngfile.c.o 2026-04-01T16:35:25,457 [98/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/light.c.o 2026-04-01T16:35:25,494 [99/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/ppm.c.o 2026-04-01T16:35:25,709 [100/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/psd.c.o 2026-04-01T16:35:25,807 [101/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/quadric.c.o 2026-04-01T16:35:25,982 [102/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/ring.c.o 2026-04-01T16:35:26,202 [103/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/sgirgb.c.o 2026-04-01T16:35:26,394 [104/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/render.c.o 2026-04-01T16:35:26,440 [105/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/sphere.c.o 2026-04-01T16:35:27,214 [106/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/tgafile.c.o 2026-04-01T16:35:27,289 [107/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/texture.c.o 2026-04-01T16:35:27,774 [108/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/shade.c.o 2026-04-01T16:35:28,145 [109/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/threads.c.o 2026-04-01T16:35:28,147 [110/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/ui.c.o 2026-04-01T16:35:28,369 [111/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/trace.c.o 2026-04-01T16:35:28,391 [112/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/triangle.c.o 2026-04-01T16:35:28,452 [113/123] Building CXX object CMakeFiles/_bond_analysis.dir/src/bond_analysis.cpp.o 2026-04-01T16:35:28,690 [114/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/vector.c.o 2026-04-01T16:35:28,858 [115/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/util.c.o 2026-04-01T16:35:28,911 [116/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/winbmp.c.o 2026-04-01T16:35:29,004 [117/123] Linking CXX shared module _bond_analysis.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:29,223 [118/123] Building C object CMakeFiles/TachyonLib.dir/extern/tachyon/src/vol.c.o 2026-04-01T16:35:29,637 [119/123] Linking C static library libTachyonLib.a 2026-04-01T16:35:43,799 [120/123] Building CXX object CMakeFiles/_voronoi.dir/extern/voro++/src/voro++.cc.o 2026-04-01T16:35:43,799 In file included from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/container_2d.cc:10, 2026-04-01T16:35:43,800 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/voro++.cc:10: 2026-04-01T16:35:43,800 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:16:49: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,801 16 | class container_base_2d::iterator : public std::iterator { 2026-04-01T16:35:43,801 | ^~~~~~~~ 2026-04-01T16:35:43,802 In file included from /usr/include/c++/12/bits/stl_algobase.h:65, 2026-04-01T16:35:43,803 from /usr/include/c++/12/vector:60, 2026-04-01T16:35:43,803 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/cell_2d.hh:11, 2026-04-01T16:35:43,804 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/cell_2d.cc:7, 2026-04-01T16:35:43,804 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/voro++.cc:7: 2026-04-01T16:35:43,805 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,807 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,807 | ^~~~~~~~ 2026-04-01T16:35:43,808 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:21:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,809 21 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,810 | ^~~~~~~~ 2026-04-01T16:35:43,811 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,811 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,812 | ^~~~~~~~ 2026-04-01T16:35:43,813 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:22:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,813 22 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,814 | ^~~~~~~~ 2026-04-01T16:35:43,815 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,815 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,816 | ^~~~~~~~ 2026-04-01T16:35:43,817 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:23:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,817 23 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,818 | ^~~~~~~~ 2026-04-01T16:35:43,818 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,819 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,819 | ^~~~~~~~ 2026-04-01T16:35:43,820 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:153:56: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,820 153 | class container_base_2d::iterator_subset : public std::iterator { 2026-04-01T16:35:43,821 | ^~~~~~~~ 2026-04-01T16:35:43,822 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,822 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,823 | ^~~~~~~~ 2026-04-01T16:35:43,824 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:155:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,824 155 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,825 | ^~~~~~~~ 2026-04-01T16:35:43,825 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,826 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,827 | ^~~~~~~~ 2026-04-01T16:35:43,827 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:156:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,828 156 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,829 | ^~~~~~~~ 2026-04-01T16:35:43,829 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,830 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,831 | ^~~~~~~~ 2026-04-01T16:35:43,831 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:157:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,832 157 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,833 | ^~~~~~~~ 2026-04-01T16:35:43,834 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,834 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,835 | ^~~~~~~~ 2026-04-01T16:35:43,836 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:246:55: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,836 246 | class container_base_2d::iterator_order : public std::iterator { 2026-04-01T16:35:43,837 | ^~~~~~~~ 2026-04-01T16:35:43,838 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,838 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,839 | ^~~~~~~~ 2026-04-01T16:35:43,840 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:248:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,840 248 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,841 | ^~~~~~~~ 2026-04-01T16:35:43,841 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,842 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,843 | ^~~~~~~~ 2026-04-01T16:35:43,844 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:249:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,845 249 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,845 | ^~~~~~~~ 2026-04-01T16:35:43,846 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,847 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,848 | ^~~~~~~~ 2026-04-01T16:35:43,849 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_2d.hh:250:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,849 250 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,850 | ^~~~~~~~ 2026-04-01T16:35:43,851 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,851 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,852 | ^~~~~~~~ 2026-04-01T16:35:43,853 In file included from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/container_3d.cc:10, 2026-04-01T16:35:43,853 from /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/voro++.cc:11: 2026-04-01T16:35:43,854 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:18:53: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,855 18 | class container_base_3d::iterator : public std::iterator 2026-04-01T16:35:43,856 | ^~~~~~~~ 2026-04-01T16:35:43,857 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,857 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,858 | ^~~~~~~~ 2026-04-01T16:35:43,858 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:24:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,859 24 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,859 | ^~~~~~~~ 2026-04-01T16:35:43,860 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,860 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,861 | ^~~~~~~~ 2026-04-01T16:35:43,861 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:25:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,862 25 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,862 | ^~~~~~~~ 2026-04-01T16:35:43,863 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,864 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,864 | ^~~~~~~~ 2026-04-01T16:35:43,865 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:26:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,866 26 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,867 | ^~~~~~~~ 2026-04-01T16:35:43,868 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,869 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,869 | ^~~~~~~~ 2026-04-01T16:35:43,870 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:180:60: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,870 180 | class container_base_3d::iterator_subset : public std::iterator 2026-04-01T16:35:43,871 | ^~~~~~~~ 2026-04-01T16:35:43,872 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,873 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,873 | ^~~~~~~~ 2026-04-01T16:35:43,874 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:183:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,875 183 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,876 | ^~~~~~~~ 2026-04-01T16:35:43,876 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,877 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,878 | ^~~~~~~~ 2026-04-01T16:35:43,878 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:184:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,879 184 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,879 | ^~~~~~~~ 2026-04-01T16:35:43,880 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,880 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,881 | ^~~~~~~~ 2026-04-01T16:35:43,881 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:185:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,882 185 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,882 | ^~~~~~~~ 2026-04-01T16:35:43,883 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,884 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,884 | ^~~~~~~~ 2026-04-01T16:35:43,885 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:290:59: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,886 290 | class container_base_3d::iterator_order : public std::iterator 2026-04-01T16:35:43,886 | ^~~~~~~~ 2026-04-01T16:35:43,887 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,888 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,888 | ^~~~~~~~ 2026-04-01T16:35:43,889 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:293:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,890 293 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,891 | ^~~~~~~~ 2026-04-01T16:35:43,891 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,892 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,893 | ^~~~~~~~ 2026-04-01T16:35:43,893 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:294:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,894 294 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,895 | ^~~~~~~~ 2026-04-01T16:35:43,895 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,896 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,897 | ^~~~~~~~ 2026-04-01T16:35:43,897 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:295:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,898 295 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,899 | ^~~~~~~~ 2026-04-01T16:35:43,900 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,900 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,901 | ^~~~~~~~ 2026-04-01T16:35:43,901 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:435:60: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,902 435 | class container_triclinic_base::iterator : public std::iterator 2026-04-01T16:35:43,902 | ^~~~~~~~ 2026-04-01T16:35:43,903 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,903 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,904 | ^~~~~~~~ 2026-04-01T16:35:43,904 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:448:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,905 448 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,906 | ^~~~~~~~ 2026-04-01T16:35:43,907 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,907 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,908 | ^~~~~~~~ 2026-04-01T16:35:43,909 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:449:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,909 449 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,910 | ^~~~~~~~ 2026-04-01T16:35:43,911 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,912 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,913 | ^~~~~~~~ 2026-04-01T16:35:43,914 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:450:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,914 450 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,915 | ^~~~~~~~ 2026-04-01T16:35:43,916 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,916 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,917 | ^~~~~~~~ 2026-04-01T16:35:43,918 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:522:66: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,919 522 | class container_triclinic_base::iterator_order : public std::iterator 2026-04-01T16:35:43,920 | ^~~~~~~~ 2026-04-01T16:35:43,920 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,921 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,922 | ^~~~~~~~ 2026-04-01T16:35:43,922 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:530:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,923 530 | typedef typename std::iterator::pointer pointer; 2026-04-01T16:35:43,923 | ^~~~~~~~ 2026-04-01T16:35:43,924 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,925 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,925 | ^~~~~~~~ 2026-04-01T16:35:43,926 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:531:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,926 531 | typedef typename std::iterator::reference reference; 2026-04-01T16:35:43,927 | ^~~~~~~~ 2026-04-01T16:35:43,928 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,928 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,929 | ^~~~~~~~ 2026-04-01T16:35:43,930 /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/iter_3d.hh:532:31: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 2026-04-01T16:35:43,930 532 | typedef typename std::iterator::difference_type difference_type; 2026-04-01T16:35:43,931 | ^~~~~~~~ 2026-04-01T16:35:43,932 /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 2026-04-01T16:35:43,933 127 | struct _GLIBCXX17_DEPRECATED iterator 2026-04-01T16:35:43,934 | ^~~~~~~~ 2026-04-01T16:35:43,935 In file included from /usr/include/c++/12/vector:70: 2026-04-01T16:35:43,935 /usr/include/c++/12/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2026-04-01T16:35:43,936 /usr/include/c++/12/bits/vector.tcc:439:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2026-04-01T16:35:43,937 439 | vector<_Tp, _Alloc>:: 2026-04-01T16:35:43,938 | ^~~~~~~~~~~~~~~~~~~ 2026-04-01T16:35:43,939 In file included from /usr/include/c++/12/vector:64: 2026-04-01T16:35:43,939 In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator]’, 2026-04-01T16:35:43,940 inlined from ‘void voro::unitcell::images(std::vector&, std::vector&)’ at /tmp/pip-wheel-rwrb4o3t/mdapy_cf025a2ebae84e0b8b471b9e0abc8b3f/extern/voro++/src/unitcell.cc:147:25: 2026-04-01T16:35:43,941 /usr/include/c++/12/bits/stl_vector.h:1287:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2026-04-01T16:35:43,942 1287 | _M_realloc_insert(end(), __x); 2026-04-01T16:35:43,943 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2026-04-01T16:35:44,210 [121/123] Linking CXX shared module _voronoi.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,192 [122/123] Building CXX object CMakeFiles/_tachyon.dir/src/tachyon_render.cpp.o 2026-04-01T16:35:57,514 [123/123] Linking CXX shared module _tachyon.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,519 *** Installing project into wheel... 2026-04-01T16:35:57,559 -- Install configuration: "Release" 2026-04-01T16:35:57,563 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_neighbor.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,569 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_structure_entropy.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,573 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_voronoi.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,582 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_nepcal.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,590 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_repeat_cell.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,595 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_aabbtree.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,601 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_cluster.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,606 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_spline.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,612 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_cna.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,616 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_polycrystal.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,621 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_ptm.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,627 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_eam.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,633 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_sbo.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,638 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_rdf.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,642 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_sfc.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,648 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_csp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,652 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_wcp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,657 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_strain.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,661 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_fccpft.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,666 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_aja.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,670 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_cnp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,675 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_split.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,679 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_atomtemp.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,684 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_lindemann.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,688 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_bond_analysis.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,693 -- Installing: /tmp/tmp_nhxp506/wheel/platlib/mdapy/_tachyon.cpython-311-arm-linux-gnueabihf.so 2026-04-01T16:35:57,706 *** Making wheel... 2026-04-01T16:35:58,785 *** Created mdapy-1.0.4a1-cp311-cp311-linux_armv7l.whl 2026-04-01T16:35:58,855 Building wheel for mdapy (pyproject.toml): finished with status 'done' 2026-04-01T16:35:58,915 Created wheel for mdapy: filename=mdapy-1.0.4a1-cp311-cp311-linux_armv7l.whl size=1655880 sha256=d25d666bcbead2db058f61bd63b0052a6dc8bbeabc2629684310fa4ac1ea1a4b 2026-04-01T16:35:58,917 Stored in directory: /tmp/pip-ephem-wheel-cache-qbt9s27g/wheels/3f/de/8d/18fd9ed854a0753e125bccb96056a8d582d614afeb2f5e58f6 2026-04-01T16:35:58,947 Successfully built mdapy 2026-04-01T16:35:58,987 Removed build tracker: '/tmp/pip-build-tracker-mhbch0b6'