* Improve write time * Print warning if mpi4py is not found in openpmd-pipe * ADIOS1: Remove task from IO queue if it fails with exception * `setup.py`: Extra CMake Arg Control * EMSCRIPTEN: Skip Py Extension * g++/clang++: Add `-Wsign-compare` * python/RecordComponent: fix `-Wsign-compare` * Patch MSVC pybind11 bug Improve patch comment * Python: Do Not Strip Symbols In Debug Avoid stripping symbols for Python debug builds, so we can see lines in coredumps and debugger runs. * CI: NVHPC New Apt Repo Update the NVHPC install instructions to the latest and greatest. Fix failing CI (dependency install). Also upgrade to 21.11 as on Perlmutter. * clang-format & pre-commit & python include * run pre-commit * ps_make_timer_name_: add memory leak suppression * Fix: Missing HDF5 Include This tries to fix a compile error on Maxwell (DESY). ``` /home/diederse/software/hipace_4GPU/hipace/build/_deps/fetchedopenpmd-src/src/IO/HDF5/HDF5IOHandler.cpp: In member function 'virtual void openPMD::HDF5IOHandlerImpl::readAttribute(openPMD::Writable*, openPMD::Parameter<openPMD::Operation::READ_ATT>&)': /home/diederse/software/hipace_4GPU/hipace/build/_deps/fetchedopenpmd-src/src/IO/HDF5/HDF5IOHandler.cpp:1586:17: error: 'H5free_memory' was not declared in this scope 1586 | H5free_memory(m1); | ^~~~~~~~~~~~~ /home/diederse/software/hipace_4GPU/hipace/build/_deps/fetchedopenpmd-src/src/IO/HDF5/HDF5IOHandler.cpp:1609:17: error: 'H5free_memory' was not declared in this scope 1609 | H5free_memory(m1); | ^~~~~~~~~~~~~ /home/diederse/software/hipace_4GPU/hipace/build/_deps/fetchedopenpmd-src/src/IO/HDF5/HDF5IOHandler.cpp:1628:17: error: 'H5free_memory' was not declared in this scope 1628 | H5free_memory(m2); | ^~~~~~~~~~~~~ ``` * Increase reference count also in other load_chunk overload Don't know if it is necessary, but looks like we forgot it earlier Add comment * Spack: Remove Old Files * Spack: v0.17.1 * Update Env Files * Python Iteration: Fix __repr__ (time) Small numbers, as common for iterations, were flushed to zero in `std::to_string(double)` of the representation of `Iteration` variables: ``` step __repr__ 100 <openPMD.Iteration at t = '0.000000 s'> was: 8.687655225973454e-14 * 1.0 ``` * CI: Update CUDA repo key Nvidia has made changes in the signing keys. https://forums.developer.nvidia.com/t/notice-cuda-linux-repository-key-rotation/212771 * CI: Switch to Mamba * Doc: Update HDF5 Coll. Metadata Versions Update the documentation about HDFFV-11260 and the newly released fixes in release lines. * HDF5 Coll. MD Reads: Simplify Wording * Tiny wording improvement and a + * Remove deprecated debug parameter in ADIOS2 * HDF5IOHandler: Clang-Format/Clang-Tidy ``` /home/runner/work/openPMD-api/openPMD-api/src/IO/HDF5/HDF5IOHandler.cpp:1835:21: warning: repeated branch in conditional chain [bugprone-branch-clone] isLegacyLibSplashAttr = ^ ``` * `conda.yaml`: add `pre-commit` * Fix: Python Variant Issue on Conda * Test: Demonstrate Pattern Issue As in #1173 * JSON: Improve File Open Error Message Include path to file * Upon parsing, store each iteration's filename If the padding is inconsistent, a later Iteration::open() needs the original filename. Trying to compute the filename from the expansion pattern will lead to wrong filenames. * Backport: fix-open-iteration (#5) * Pass-through flushing parameters * CI fixes * Test * Don't flush when opening an iteration * CI fixes * FlushLevel: Use default base class in NVC++ * clang-tidy: Define member defaults of Writable in-class * Update include/openPMD/IO/AbstractIOHandler.hpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Release 0.14.5 conflicting backports (#6) * Don't safeguard empty strings while reading * Update TODO Comment * Add missing update for VEC_CLONG_DOUBLE * Ignore deprecated AccessType in SerialIOTest * SerialIOTest: Fix GCC Pragma Check (#1260) There was a typo in `__GNUC_MINOR__`, causing the test not to work on all GCC versions. Follow-up to #1213 * Clearly fail when users select a wrong backend * ICC: Unreachable end of function * Fix use after free in ADIOS1IOHandler * Remove unavailable_backend_test Hard to trigger without explicit backend selection, and test coverage is present on dev anyway Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Version: 0.14.5 including Changelog Co-authored-by: Jean Luca Bez <jlbez@lbl.gov> Co-authored-by: Franz Pöschel <franz.poeschel@gmail.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

Add LGPLv3+ Headers #5

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