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RELEASE_NOTES
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RELEASE_NOTES
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This file contains a description of the major changes to the easybuild-easyblocks EasyBuild package.
For more detailed information, please see the git log.
These release notes can also be consulted at http://easybuild.readthedocs.org/en/latest/Release_notes.html.
The latest version of easybuild-easyblocks provides 259 software-specific easyblocks and 43 generic easyblocks.
v4.9.4 (22 September 2024)
--------------------------
update/bugfix release
- various enhancements, including:
- allow Python bundles and packages to specify a maximum Python version for the system toolchain (#3431)
- copy EasyConfig instance in constructor of Bundle and Cargo easyblocks before making changes to it (#3448)
- fix crash in GCC easyblock when cuda-compute-capabilities EasyBuild configuration option is not set (#3449)
- various bug fixes, including:
- ignore Python from virtualenvs in GROMACS configure via -DPython3_FIND_VIRTUALENV=STANDARD (#3283)
- enhance custom easyblock for NCCL: add licence to NCCL installation (#3451)
v4.9.3 (14 September 2024)
--------------------------
update/bugfix release
- minor updates, including:
- update custom easyblock for Tensorflow for versions 2.14 + 2.15 (#3303)
- add support for versions >= 2024a to MCR easyblock (#3369)
- update custom easyblock for Bazel for versions >= 7.0 (#3370)
- don't consider lib/release for impi >= 2021.11 (#3375)
- update ORCA easyblock for version 6 (#3395)
- update custom easyblock for psmpi to support the renaming of a couple of options in 5.10.0-1 (#3420)
- update sanity check in OpenFOAM easyblock, since there's no `modifyMesh` in OpenFOAM 12 (#3434)
- fix sanity check for Geant4 >= v11.2 (#3439)
- minor enhancements, including:
- enhance psmpi easyblock to activate CUDA support when it is a dependency + make check for static libs in MPICH easyblock optional (#2787)
- make a project environment and manage LOAD_PATH for JuliaPackage (#3239)
- set build type for PyTorch explicitely (#3332)
- add `sanity_check_test_inputs` custom easyconfig parameter, mapping for zen4, and support building of non-stable versions to LAMMPS easyblock (#3336)
- add RISCV64 support and update config options of new versions of Extrae (#3339)
- set `$ESMFMKFILE` environment variable in environment module for ESMF (#3368)
- use build dir for big files/folders while building TensorFlow (#3371)
- update `PythonPackage` easyblock to allow installation of Python packages with `$PIP_REQUIRE_VIRTUALENV` set + move temporary pip folder into build dir (#3374)
- add RISC-V support to Boost easyblock (#3376)
- add support for generating `.gem` files from `.gemspec` files and support for `preinstallopts` in the `RubyGem` easyblock (#3381)
- simplify install step in custom easyblock for `Tkinter` (#3382)
- add MSA and specially PMIx support for ParaStationMPI (#3383)
- update custom easyblock for PETSc to consider `include/suitesparse` subdirectory for SuiteSparse headers (#3391)
- enhance custom easyblock for GCC to use `with-arch` option for nvptx with 13.1+ (#3396)
- support revisions in crates extraction of cargo packages (#3405)
- set `$R_LIBS_USER` in `RPackage` easyblock to avoid picking up on R packages installed in home directory (#3407)
- update custom easyblock for QuantumESPRESSO to be aware of MPI tests being disabled in EasyBuild configuration (#3412)
- disable the version check of pip in Python packages by defining `$PIP_DISABLE_PIP_VERSION_CHECK` (#3427)
- make sure user packages are not used in sanity check of PythonBundle (#3435)
- enhance OpenFOAM easyblock to also build the plugins for OpenFOAM >= v2406 (#3436)
- enhance binutils easyblock to explicitely pass msgpack configure option (#3438)
- various bug fixes, including:
- patch `ctypes` for Python installations when filtering `LD_LIBRARY_PATH` + fix path to `ldconfig` when using alternate sysroot (#3352)
- also consider 'normalised' package name with underscore rather than dash in EasyBuild easyblock (#3358)
- use PRRTE MCA environment variable for oversubscription in OpenMPI easyblock (#3360)
- fix import of `parse` in `openssl_wrapper.py` for Python 2.7 (#3364)
- make sure that OpenFOAM's wmake can find MPFR and GMP if CGAL >= 5.0 (header-only) is used (#3366)
- remove dummy license server info from ANSYS (#3377)
- explicitly call `csh` in custom easyblock for WPS (#3384)
- use relative paths to object files when compiling shared libraries in the OpenFOAM easyblock (#3388)
- change extra `$PATH` entry for OCaml to use `opam/default` rather than `opam/system` (#3390)
- force `--without-unwind` for ARM and add `--with-libz` option for all architectures in custom easyblock for Extrae (#3393)
- fix `--sanity-check-only` for impi (#3403)
- fix crash in Cargo easyblock when no crates are specified (#3404)
- fix double initialization of `Cargo` by `CargoPythonPackage` by removing incorrect custom `__init__` implementation + fix use of `super()` in PALM easyblock (since that doesn't work with Python 2.7) (#3406)
- fix typo in log message in `PythonPackage` easyblock (#3408)
- make sure to raise an error if `pick_python_cmd` returns `False` for Python bundles/packages (#3430)
- don't wipe build environment before building opam in install step of OCaml easyblock (#3443)
- other changes:
- merge of the `ConfigureMake` and `CMakeMake` versions of the easyblock for QuantumESPRESSO (#3338)
- remove redundant backslashes in GEANT easyblock (#3394)
v4.9.2 (12 June 2024)
---------------------
update/bugfix release
- 4 new software-specific easyblocks: QuantumESPRESSO with CMake (#3257), AEDT (#3281), optiSLang (#3300), MetalWalls (#3311, #3331)
- minor enhancements and updates, including:
- refactor GAMESS-US easyblock to directly write install.info (#3047)
- add ABAQUS license server to generated module (#3277)
- allow 'nosource: True' in PythonPackage extensions (#3305)
- auto-disable FFTW quad precision on RISC-V (#3314)
- use regular 'configure' instead of wrapper script in easyblock for UCX plugins (#3315)
- add libjpeg-turbo to include dir for torchvision easyblock (#3322, #3353)
- add RISC-V support to custom easyblocks for Clang (#3325), Java (#3323), Mesa (#3324)
- add a sanity check for OpenFOAM's 'wmake' to make sure it finds the compiler commands (#3328)
- always override the compiler version check for CUDA installations (#3329)
- allow version mismatchs between OpenSSL components in host system as long as they fulfill version requirements (#3340)
- allow external PRRTE in OpenMPI easyblock (#3347)
- various bug fixes, including:
- don't manipulate setup.py for Python 3.12+ when using alternate sysroot (#3313)
- do not run unit tests on Python 3.5 (#3326)
- avoid sanity check on the software itself for CargoPythonBundle easyblock (#3341)
- fix malformed '$CPATH' for intel-compilers on Debian/Ubuntu (#3346)
- other changes:
- Binary easyblock already adds top level directory to PATH, so no need to do it in the Stata easyblock (#3307)
v4.9.1 (5 April 2024)
---------------------
update/bugfix release
- 1 new software-specific easyblock: DualSPHysics (#3050)
- minor enhancements and updates, including:
- use proxy in sanity check of custom easyblock to install OpenSSL wrapper (#2922)
- update Clang-AOMP easyblock for ROCm 5.6 (#2958)
- consider both `$EBROOTGCC` and `$EBROOTGCCCORE` in Clang-AOMP easyblock to specify `-DGCC_INSTALL_PREFIX` (#2958)
- update WIEN2k easyblock for v23.2 (#3035)
- enhance LAMMPS easyblock dynamically add `ARMV81` and `A64FX` to Kokkos CPU mapping based on LAMMPS version (#3036)
- add `pip_verbose` option to PythonPackage and set it to True in PyTorch easyblock, to show build output when using pip (#3065)
- also support OpenSSL 3 in OpenSSL wrapper easyblock (#3081)
- improve error checking in PyTorch easyblock (#3085)
- update MCR easyblock for compatibility with versions >= R2022b (#3119)
- add `species` easyconfig parameter to VEP easyblock (#3121)
- only install Gurobi Python bindings via `setup.py` for Gurobi v10.x and older (#3225)
- consistently honor `pretestopts` & `testopts` in `PerlModule` (#3231)
- fix OCaml easyblock for recent versions (#3235)
- improve QuantumESPRESSO easyblock by cleaning up and extending configure step + running test suite (#3241, #3258)
- allow overriding `testinstall` in PyTorch easyconfigs (#3250)
- enhance GCC easyblock to set `$LIBRARY_PATH` and disable building of NVPTX offload support on RISC-V systems (#3256)
- add support for conda provided by Miniforge (#3260)
- set `$GOPATH` in configure step of `GoPackage` easyblock to avoid polluting `$HOME/go` (#3262)
- various bug fixes, including:
- set `$BGW_TEST_MPI_NPROCS` in BerkeleyGW test step (#2950)
- fix installation of Python bindings for LAMMPS >= 2Aug2023 + fix sanity check by doing MPI_Finalize (#3036)
- fix ELPA preprocessor flag for QuantumESPRESSO >= 7 (#3063)
- fix link order in PETSc easyblock for SCOTCH >= 7.x (#3069)
- update PyTorch easyblock to avoid configure warnings by disabling some options (#3070)
- pick Tcl/Tk lib directory correctly in R easyblock, may be either `lib` or `lib64` (#3072)
- use `(=|:=)` in regex because OpenFOAM rule files use `:=` instead of `=` since v2212 (#3073)
- add Clang `opt` binary to RPATH wrapper dir (#3076)
- improve `generate_crate_list` + parsing of crates in `Cargo` easyblock (#3084)
- remove trailing slash in `PETSC_DIR` set by custom easyblock for PETSc (#3086)
- use correct TCL configure options for Python 3.11+ (#3087)
- tweak `CMakeMake` easyblock to apply CMake policy to select `python` based on `$PATH` order, instead of highest version (#3088)
- update `Cargo` easyblock to extract crates into a vendor subdir and overwrite git repo URLs with local paths (#3118)
- only add `--with-ucc` for OpenMPI 4.1.4+ (#3223)
- remove trailing slash in `SLEPC_DIR` in configure step of custom easyblock for SLEPc (#3229)
- fix OpenFOAM easyblock to fix `motorBike` example in sanity check for versions >=11 (#3232)
- only run CUDA sanity check command for torchvision if GPU is present (#3236)
- ensure localrc is created in the correct subdir for NVHPC v22.9+ (#3240)
- remove wrong configure option for LibInt 2.6.x (#3249)
- do not rename GCC's include-fixed directory by default + add script to regenerate it (#3254)
- other changes:
- update copyright lines to 2024 (#3268)
v4.9.0 (30 December 2023)
-------------------------
feature release
- add generic `CargoPythonBundle` easyblock (#2964)
- 3 new software-specific easyblocks: flook (#3034), HPCC (#3009), PALM (#3020)
- minor enhancements and updates, including:
- add custom easyconfig parameter `cmake_options` to SuiteSparse easyblock (#3031)
- update custom intel-compilers easyblock for versions >= 2024 (#3037)
- update custom easyblock for Intel MPI easyblock for v2021.11 (#3039)
- update numpy easyblock for v1.26+ (#3041)
- update custom easyblock for Intel MKL for v2024.x (#3042)
- update Ferret easyblock to be compatible with v7.6.0 (#3052)
- various bug fixes, including:
- add support for allowing version mismatch + consider versionsuffix when creating `.modulerc` in `ModuleRC` easyblock (#3028)
- update error detection for PyTorch tests (#3033)
- disable LLVM build downloads from CI in Rust (#3038)
- add requirement for EULA acceptance to CUDA easyblock (#3045)
- make various fixes and enhancements to NWChem easyblock (#3049)
- add binutils symlinks when building TensorFlow with `--rpath` (#3054, #3058)
- fix specifying path to SuiteSparse header files and libraries in numpy, Trilinos, PETSc easyblocks (#3056)
- fix `det_pylibdir` provided by `PythonPackage` easyblock for Python 3.12+ (#3057)
- fix nvptx sanity check for Clang >= 14.x (#3059)
- other changes:
- update SuiteSparse easyblock to only install SuiteSparse libraries with `make install` (#3004)
- also consider `$EB_COMSOL_LICENSE_FILE` environment variable in custom easyblock for COMSOL (#3044)
- import `LooseVersion` from `easybuild.tools` instead of `distutils.version` in easyblocks (#3048)
v4.8.2 (29 October 2023)
------------------------
update/bugfix release
- minor enhancements and updates, including:
- allow use of `test_cmd` without `runtest` for `ConfigureMake` (#2837)
- enhance `CMakeMake` easyblock to run `ctest` command if `runtest` is `True` (#2838)
- enhance `Conda` easyblock: add support for using custom `conda` command (like `mamba`), and clean up after installation (#2996)
- update WRF easyblock to correctly determine `WRF*` subdirectory for WRF versions >= 4.5.1 (#2997)
- update numpy easyblock to be able to use FlexiBLAS with MKL as dependency (#2999)
- add error regexp for PyTorch tests run in subprocess and enhance error message (#3003, #3005)
- don't blindly overwrite `-Dccflags` + honour `preconfigopts` in Perl easyblock (#3010)
- use more test programs in sanity check step of OpenMPI easyblock (#3016)
- fix `CMAKE_PREFIX_PATH` in imkl easyblock (#3021)
- update sanity check in wxPython easyblock for version 4.2.0 (#3023)
- various bug fixes, including:
- fix creation of symlink for libraries in TBB easyblock (#2927)
- fix `--sanity-check-only` and `--module-only` for UCX plugins (#3007)
- replace umlaut in docstring of PerlBundle easyblock (to fix Non-ASCII character error when using Python 2.7) (#3008)
- enhance TensorFlow easyblock to avoid use of `-mcpu=native` for XNNPACK component when building on aarch64 (#3011)
- only use `-DCMAKE_SKIP_RPATH=ON` for CMake < 3.5.0 (#3012)
- fix the blas/lapack name passed to meson when building recent scipy versions (>= 1.9.0) on top of Intel MKL (#3024)
v4.8.1 (11 September 2023)
--------------------------
update/bugfix release
- new custom easyblock for sympy (#2949) and tensorflow-compression (#2990)
- minor enhancements and updates, including:
- drop unnecessary CUDA stub libraries from $LIBRARY_PATH (#2793)
- update Score-P easyblock to use `--with-nocross-compiler-suite=nvhpc` for recent software versions (#2928)
- unset `$CPPFLAGS`, `$LDFLAGS`, `$LIB` which may interfere with Score-P configure magic (#2928)
- update Clang easyblock for versions >= 16 + run tests only for final stage of bootstrap build (#2929)
- handle new directory structure for Intel Advisor (#2942)
- use `DCPU_BASELINE=DETECT` for OpenCV when default optarch compiler option is used (#2954)
- update MXNet easyblock + don't try to install R extension by default for MXNet >= 1.0 (#2955)
- use checkMCR.sh to determine if we have the correct MCR for FreeSurfer (#2962)
- add options to `MesonNinja` easyblock to customize `build_cmd`, `install_cmd`, `builddir` (#2963, #2993)
- add support for building CP2K with libvori support (#2967)
- enable system `pybind11` for PyTorch 1.10+ to make sure `pybind11` provided as dependency is used (#2968)
- update LLVM easyblock for LLVM v16: symlink `third-party` to `third-party-<version>.src` (#2970, #2994)
- update scipy easyblock for scipy >= 1.11.0 (#2971, #2980)
- update sanity check for Mesa >= 22.3 (#2973)
- update sanity check for OpenFOAM 11 (#2978)
- add support to `PerlModule` easyblock to customize prefix option used in installation command (#2979)
- update TensorFlow easyblock for v2.13 since LMDB is no longer a dependency (#2982)
- enhance PyTorch easyblock to print individual failed tests (#2983)
- enhance PETSc easyblock to support using custom `$PETSC_ARCH` (#2987)
- various bug fixes, including:
- correctly determine path to active binutils in TensorFlow easyblock (#2218)
- patch Java binaries/libraries when using alternate sysroot to ensure correct glibc & co are picked up + add custom sanity check (#2557, #2995)
- update OpenMPI easyblock to fix sanity check for Clang-based compilers (#2774)
- improve depot management in `JuliaPackage` easyblock (#2935)
- disable disk space check in STAR-CCM+ installer (#2956)
- fix type check for `optarch` value in `Cargo` easyblock (#2969)
- conditionally add `-Wno-unused-command-line-argument` to `$CFLAGS` to fix error when installing `imkl-FFTW` with RPATH (#2975)
- enhance PythonPackage easyblock to deal with `posix_local` installation scheme used by Python in recent Debian/Ubuntu versions (#2977, #2988)
- don't add MATLAB libraries to `$LD_LIBRARY_PATH` (#2981)
- enhance Mesa easyblock to append EGL vendor library directory path to `$__EGL_VENDOR_LIBRARY_DIRS` (#2985)
- fix typo in TensorFlow easyblock when finding libdir of OpenSSL (#2989)
v4.8.0 (7 July 2023)
--------------------
feature release
- add `PerlBundle` generic easyblock for installing a bundle of Perl modules (#2945)
- add custom easyblock for Rust, which makes sure that all shared libraries use RPATH rather than RUNPATH if --rpath is used (#2952)
- minor enhancements and updates, including:
- add support for NVIDIA Hopper CC 9.0 in LAMMPS (#2941)
- add support for `install_cmds` in `Binary` easyblock (#2953)
- various bug fixes, including:
- patch CMake's UnixPaths.cmake script if --sysroot is set (#2248)
- fix incorrect sanity_check_step for torchvision (#2938)
- update OpenBLAS easyblock since make shared is necessary and sufficient with OpenBLAS 0.3.23 + recent parallel build fixes (#2944)
- improve handling of `optarch` in `Cargo` easyblock (#2947)
- reset modules loaded by PythonPackage to let ExtensionEasyBlock handle `multi_deps` correctly (#2951)
- other changes:
- stop running tests with Python 2.7 since it is no longer supported in GitHub Actions (#2943)
v4.7.2 (27 May 2023)
--------------------
- new generic easyblock for installing Rust crates with cargo: Cargo and CargoPythonPackage (#2902, #2934)
- minor enhancements and updates, including:
- let MATLAB easyblock raise an error if the MATLAB installation key is not provided (#2905)
- print message to inform that GPU package (instead of Kokkos) is used for LAMMPS (#2906)
- enhance PyTorch easyblock to use FlexiBLAS for PyTorch >= 1.11.0 (#2915)
- various bug fixes, including:
- use custom RPATH sanity check for Go packages that doesn't actually check for an RPATH section in the binary (#2913)
- use string '0' to avoid problems when openssl version is not determined (#2914)
- update GCC easyblock to ensure that --sysroot is passed to linker (but only when it needs to be) (#2921)
- add output log to MATLAB installs, actually parse for common errors (#2924)
- enhance Gurobi easyblock to allow using $EB_GUROBI_LICENSE_FILE environment variable (#2926)
- force building torchvision with CUDA support if CUDA is included as dependency by setting `$FORCE_CUDA` (#2931)
- fix exec permission on files in arch bindir for COMSOL (#2932)
v4.7.1 (March 20th 2023)
------------------------
update/bugfix release
- minor enhancements and updates, including:
- fix TensorFlow easyblock for new versions of Bazel & TensorFlow (#2854)
- make NAMD easyblock aware of (pre)testopts (#2856)
- update MesonNinja easyblock for Meson >=0.64.0 (#2861)
- update scipy easyblock for scipy >= 1.9.0 to use meson/ninja (#2862, #2903)
- modify logic in QScintilla easyblock to find the PyQt5 sipdir in more places (#2868)
- add `testinstall` custom easyconfig parameter to PythonPackage easyblock (#2872)
- use -x option for "go install" in GoPackage generic easyblock, to print commands as they are executed (#2878)
- allow disabling pybind11 tests with `runtest = False` (#2892)
- call parent post_install_step in EasyBuildMeta easyblock (so postinstallcmds are taken into account) (#2893)
- update and enhance Maple easyblock for recent versions (#2895)
- relax glob pattern to find Mathematica install script (#2896)
- implement CUDA support in the ELPA EasyBlock & fix CPP configure issue on newer ELPA versions (#2898)
- update Trilinos easyblock to allow disabling of building tests and forward deps + support Trilinos v13.x (#2900)
- enhance Python easyblock to create non-versioned symlink for python-config + check for bin/python and bin/python-config in sanity check (#2904)
- various bug fixes, including:
- do not use -g77 option when installing NVHPC 22.9+ (#2819)
- check that sanity_check_module_loaded attribute exists before querying it in PythonPackage easyblock (#2865)
- fix $JULIA_DEPOT_PATH in installation of multiple JuliaPackage extensions (#2869)
- fix checking of CUDA/ROCR-Runtime dependencies for Clang to determine default build targets (#2873)
- show template values of exts_default_options in PythonBundle (#2874)
- fix missing initialization of CMakeMake in CMakePythonPackage (#2876)
- fix error when failing pip version check during PythonPackage sanity check (#2877)
- handle templating correctly in CMakeMake when playing with configopts (#2882)
- avoid crash in test step of PyTorch easyblock if runtest is not a command (#2883)
- fix check configure option in FlexiBLAS easyblock (#2886)
- use older `ncgen -H` for older netCDF (#2889)
- fix linking numexpr with Intel MKL's VML library for imkl >= 2021.x (#2897)
- other changes:
- only give read permissions in GitHub Actions workflows (#2863)
- use start dir of extension to install R packages (#2867)
- fix website/docs links in README (#2870)
- add deprecation notice to RPackage extensions with relative paths in start_dir (#2879)
v4.7.0 (January 9th 2023)
-------------------------
feature release
- add generic easyblocks for installing (bundle of) Julia packages: JuliaPackage (#2816) and JuliaBundle (#2830)
- minor enhancements and updates, including:
- enhance TensorFlow easyblock to take into account provided OpenSSL dependency (#2575)
- add fix_shebang to install_step of PythonPackage easyblock so that we can fix shebangs when installing extensions (#2680)
- update PETSc easyblock for newer versions (>= 3.17) (#2796)
- update Clang easyblock to add support for new directory structure in Clang versions >= 14 + support Flang (#2800)
- update Xmipp easyblock since versions >= 3.20.07 use `noAsk` option to configure (#2809)
- add include/opencv4 to $CPATH for OpenCV versions >= 4.0 (#2818)
- add extra option for disabling LAPACK in ESMF (#2821)
- enable building of static libraries for libxml2 >= 2.10 (#2825)
- update Xmipp easyblock to handle effects of CUDA at SYSTEM level and newer CUDA version requirements for stdc++ (#2831)
- update LLVM easyblock to put 'cmake' symlink in place so separate CMake modules required for LLVM 15+ can be found (#2832)
- set $TEMPDIRPATH for testsuite in the BerkeleyGW easyblock, to avoid polluting /tmp (#2836)
- add `configure_no_prefix` option to skip addition of prefix to configure command in ConfigureMake easyblock (#2842)
- update qscintilla.py to be compatible with EB install of PyQt5 >= 5.15 (#2845)
- add UCC to known_dependencies in OpenMPI EasyBlock (#2847)
- update Clang-AOMP easyblock to handle version 5.2 and newer (#2851)
- various bug fixes, including:
- fix installing of Clang with RPATH linking (#2799)
- fix --module-only for Clang + fix sanity check for Clang 11.x (#2800)
- create $XDG_CACHE_HOME for PyTorch tests (#2806)
- make PythonPackage easyblock compatible with --sanity-check-only by loading module early during sanity check step (#2828)
- fix docstring of PythonBundle generic easyblock (#2833)
- fix counting of failures in PyTorch tests (#2834, #2840)
- make sure that ANSYS INSTALL script has execute permissions (#2852, #2853)
- other changes:
- remove useless -openmp build option for MRtrix v3.x (#2822)
- update HDF5 easyblock to use --enable-threadsafe configure option to make C API thread safe (#2824)
- use new EasyBuild logo in README (#2827)
- automatically cancel Github Action workflow runs for outdated commits (#2835)
- use fixed names for bazel/wrapper subdirectories used when building TensorFlow, to make debugging easier (#2841)
- also run unit tests with Python 3.11 (#2844)
- tweak docstring in some generic easyblocks so it renders nicely in auto-generated documentation (#2849)
- update copyright lines for 2023 (#2850)
v4.6.2 (October 21st 2022)
--------------------------
update/bugfix release
- 2 new software-specific easyblock:
- CUDA compatibility libraries (#2764) and mamba (#2808)
- minor enhancements and updates, including:
- update OpenFOAM easyblock to support OpenFOAM 10 + clean up variant/version checks (#2766)
- added support for ESMPy in ESMF (#2789)
- enhance OpenBLAS easyblock to support running LAPACK test suite + checking how many tests fail (#2801)
- make numexpr easyblock aware of toolchain with GCC + imkl (#2810)
- add sanity check commands for netCDF (#2811)
- various bug fixes, including:
- handle problems copying symlink that points to CUDA folder that is not created for non CUDA builds of SuiteSparse (#2790)
- don't install docs (to avoid trouble with Java) + add Rocky support for ABAQUS (#2792)
- correctly count the number of failing tests (not failing test suites) in PyTorch builds (#2794, #2803)
- fix docstring for PyTorch easyblock (#2795)
- handle iterative builds with MakeCp easyblock (#2798)
- accept both None and empty value for optarch to let OpenCV detect host CPU (#2804)
- enhance EasyBuildMeta easyblock: auto-enable installing with pip + fix setup.py of easyconfigs package so installation with setuptools >= 61.0 works (#2805)
- use `python -m pip` instead of `pip` in PythonPackage easyblock (#2807)
- other changes:
- make the test output from PythonPackage less verbose by disabling default search for error patterns done by run_cmd (2797)
v4.6.1 (September 12th 2022)
----------------------------
update/bugfix release
- minor enhancements and updates, including:
- update LAMMPS easyblock for LAMMPS/23Jun22 (#2213)
- reduce the number of command line options for 'cmake' command in CMakeMake generic easyblock (#2514)
- update libQGLViewer easyblock to take into account changes in the shared library names depending on Qt versions they are compiled with (#2730)
- improve PLUMED detection in GROMACS easyblock (#2749)
- make `$LD_LIBRARY_PATH` detection more robust for LAMMPS (#2765)
- enhance NVHPC easyblock to avoid superfluous warning (#2767)
- enhance PyTorch easyblock to also capture tests failing with signal (#2768)
- enhance PythonPackage easyblock to make sure all test command output makes it to the EasyBuild log, also when return_output_ec=True (#2770)
- set $NVHPC_CUDA_HOME for NVHPC 22.7+ (#2776)
- various bug fixes, including:
- make Amber easyblock aware of FlexiBLAS (#2720)
- update PyTorch easyblock to configure without breakpad support on POWER (#2763)
- use lib* in post_install step of FFTW.MPI easyblock to fix paths not being found on Linux distros favouring lib64 (like Suse/SLES) (#2771)
- use det_cmake_version function to determine CMake version in CMakeMake generic easyblock (#2772)
- don't enable building of ld.gold when installing binutils on a RISC-V system + don't configure GCC to use gold as default linker on a RISC-V system (#2780)
- tweak Amber(Tools) easyblock to run tests from top-level directory (#2781)
- fix version check for NVPTX library in sanity check of Clang easyblock (#2783)
- other changes:
- update CI workflows to use Ubuntu 20.04 (since Ubuntu 18.04 is deprecated) (#2779)
v4.6.0 (July 8th 2022)
----------------------
feature release
- new software-specific easyblock for STAR-CCM+ (#1613)
- minor enhancements and updates, including:
- update Siesta EasyBlock to support GCC 10+ by adding -fallow-argument-mismatch Fortran compiler option (#2690)
- enable building of shared library for Libint 2.7+ (#2738)
- allow some PyTorch tests to fail + print warning if one or more tests fail (#2742)
- also support OpenSSL 3.0 in OpenSSL wrapper easyblock (#2746)
- add more logging to install_pc_files method of OpenSSL wrapper easyblock (#2752)
- make WPS easyblock aware of (pre)buildopts (#2754)
- add Abseil system dependency for TensorFlow 2.9+ (#2757)
- disable altivec when building FFTW versions < 3.4 with single-precision with GCC on POWER (#2758)
- various bug fixes, including:
- make VEP easyblock compatible with --sanity-check-only (#2743)
- update Rosetta easyblock to take into account that $LD_LIBRARY_PATH, $CPATH, $PATH may not be defined (#2744)
- only load temporary module file during sanity check for pybind11 for stand-alone installations, so it can be installed as extension (#2747)
- make sure that CMakeMakeCp uses correct build dir (#2748)
- enhance Bazel easyblock to avoid writing to $HOME in sanity check (#2756)
v4.5.5 (June 8th 2022)
----------------------
update/bugfix release
- new software-specific easyblock for FFTW.MPI (#2724)
- minor enhancements and updates, including:
- update NEURON easyblock to use CMakeMake for recent versions (#2304)
- enhance Clang easyblock to add support for building with AMDGPU offload (#2684, #2729)
- update sanity check in OpenMPI easyblock to support OpenMPI v5.0.0 (#2709)
- don't use gold linker by default for GCC >= 11.3 (#2711)
- update sanity check in R easyblock for versions >= 4.2.0, since S.h is not included anymore (#2713)
- update ABAQUS easyblock for ABAQUS 2022 (#2716)
- update LLVM easyblock for LLVM v14.0.x (#2718)
- update Mesa easyblock to remove swr driver configopts for versions 22+ (#2719)
- enhance Clang easyblock to support also installing Python bindings (#2721, #2725)
- enhance SuperLU easyblock to support building on top of FlexiBLAS and be compatible with SuperLU v5.3 (#2722)
- update TensorFlow easyblock for version 2.8.0 (#2723)
- modify FFTW's sanity check step to allow checking only for MPI parts of FFTW installation (#2724)
- add support to ConfigureMake for tweaking (first part of) test command via 'test_cmd' (#2726, #2737)
- enhance MrBayes easyblock with custom sanity check command (#2727)
- update cudnnarch string templates used to compose source tarball names from cuDNN 8.3.3 onwards (#2728)
- add sanity check command to OpenSSL wrapper easyblock to verify that system certificates are available to OpenSSL (#2735)
- ignore exit code of pkg-config command in OpenSSL wrapper easyblock, since with pkgconf they exit with a non-zero exit code if the OS package is not installed (#2736)
- various bug fixes, including:
- remove system-compiled binutils dirs from $LDFLAGS in binutils easyblock (#2712)
- fix for FreeSurfer easyblock: define $FREESURFER needed by recon_all (#2717)
- also symlink cert.pem in from-source OpenSSL installation (if it exists) (#2735)
v4.5.4 (March 31st 2022)
------------------------
update/bugfix release
- minor enhancements and updates, including:
- update Clang-AOMP easyblock to add support for ROCm v5.0 (#2681)
- enable system SSL certificates in OpenSSL installations (#2683)
- enhance MRtrix easyblock: build in parallel + enable OpenMP support for MRtrix >= 3.0 (#2685)
- avoid dependency on 'which' command in sanity check for Python, use 'command -v' instead (#2687)
- enhance Tarball easyblock to support using it for installing extensions (#2688)
- update wxPython easyblock to support wxPython v4.1 (#2689)
- enhance Gurobi easyblock to also update $MATLABPATH (#2691)
- build single-file shared libraries for imkl so it can be used as FlexiBLAS backend via $FLEXIBLAS_LIBRARY_PATH (#2694)
- various bug fixes, including:
- added regex to replace /lib/cpp with cpp in OpenFOAM's wmake rules file (#2331)
- set $NINJAFLAGS to make sure Ninja doesn't use all visible cores when building Qt5 (#2338)
- update Siesta EasyBlock to use serial FFTW (#2662)
- fix support for imkl for numexpr 2.8.0+ in numexpr easyblock (#2678)
- make sure TensorFlow doesn't see the nvptx-none dir when searching for gcc include dir (#2682)
- force use of bash for Anaconda install script (#2692)
- add guess for path to add to $MANPATH for intel-compilers (#2696)
- change permissions of the Java build directory to avoid permission denied error (#2698)
- also consider $MKLROOT/lib/pkgconfig for $PKG_CONFIG_PATH for imkl (#2701)
- close log after installing Bundle component (#2702)
- replace hardcoded /tmp to make sure that Bazel build respects $TMPDIR (#2703)
- other changes:
- minor code cleanup in numexpr easyblock (#2679)
- update copyright lines for 2022 (#2705)
v4.5.3 (February 11th 2022)
---------------------------
update/bugfix release
- new software-specific easyblock for reticulate R package (#2668)
- minor enhancements and updates, including:
- set CUDA target architecture(s) for GROMACS based on cuda_cc_semicolon_sep template value (#2655)
- add support to NAMD easyblock to opt out of building with CUDA support even if CUDA is included as dependency (#2666)
- update sanity check in CUDA easyblock: CUDA 11.6 no longer includes samples (#2669)
- various bug fixes, including:
- also run easyblocks test suite with Python 3.8-3.10 + consistently use actions/setup-python@v2 in CI workflows (#2664)
- specify easybuild.io as EasyBuild homepage in setup.py (#2667)
- other changes:
- remove vulnerable binaries from sanity check of HDF5, no longer installed by default with HDF5 1.10.8 (#2670)
v4.5.2 (January 24th 2022)
--------------------------
update/bugfix release
- minor enhancements and updates, including:
- remove necessity for license for oneAPI versions (>= 2021.x) in itac easyblock (#2492)
- add CUDA support in SuiteSparse easyblock (#2627)
- use all available cores for running Perl test suite (#2637)
- add option to not copy the license file for Gurobi (#2639, #2641)
- update AOCC easyblock to support version 3.2.0 (#2643)
- don't grep for specific version in --version output of Intel compiler commands for versions 2022.x (#2644)
- add support for enabling sanity checks for specific components in the Bundle easyblock (#2649)
- update Libint easyblock for LibInt v2.7.0 which requires configuring via CMake (#2650)
- update Mathematica easyblock for version 13 (#2652)
- add sanity check command for Bazel (#2653)
- update NAMD easyblock to allow non-system csh (#2654)
- enhance CUDA easyblock to create version independent pkgconfig files (#2656)
- add util subdirectory to $PATH for WPS (#2658)
- various bug fixes, including:
- convert version numbers to stricly numerical in Siesta easyblock (#2553)
- fix shebang of scripts in Perl installation if installation prefix is too long (#2640)
- enhance IntelBase easyblock to avoid crash when $USER is not set (#2642)
- fix quotes in definition of default platform macro and enhance sanity check in GATE easyblock (#2645)
- avoid excessively long shebang line in compile script for WRF (#2648)
- fix checking of Intel Fortran compiler version in CP2K easyblock for recent toolchains (#2651)
v4.5.1 (December 13th 2021)
---------------------------
update/bugfix release
- new software-specific easyblock for Clang-AOMP (#2617)
- minor enhancements and updates, including:
- enhance Rpm generic easyblock to support installing tarball of RPMs (by unpacking it first) + take into account (pre)installopts (#2580)
- add option to control use of MKL-DNN in jaxlib easyblock (#2619)
- update SAMtools easyblock to support installation of SAMtools 1.14 (#2620)
- add option to ignore PLUMED version check for GROMACS (#2621)
- update Inspector easyblock for recent versions (>= 2021, oneAPI versions) (#2624)
- enhance tbb easyblock by adding option to build Python bindings (#2626)
- fix patching of CMakeLists.txt in for Eigen v3.4 (#2633)
- various bug fixes, including:
- update CP2K easyblock to use -D__MKL for CP2K versions newer than 2.3 (#2586)
- set OpenMPI configuration for ORCA sanity check (#2596)
- allow oversubscription in OpenMPI sanity check (#2611)
- set wm_* class variables in OpenFOAM easyblock constructor (to fix --sanity-check-only) (#2616)
- remove newline from easybuild-easyblocks package description (required to avoid installation error with setuptools>=59.0.0) (#2623)
- avoid patching binary files + other enhancements for MUMmer easyblock (#2630)
- enable build-in-installdir mode in constructor of PETSc and SLEPc easyblocks (#2631)
- skip netcdf4-python tests that require network connectivity (#2634)
v4.5.0 (October 29th 2021)
--------------------------
feature release
- new software-specific easyblock for imkl-FFTW (#2599)
- minor enhancements and updates, including:
- add support for installing R extensions in parallel (#2408)
- update MotionCor2 easyblock to consider to locations for built binary (#2541, #2598)
- let GROMACS runtime logs show EasyBuild was used by setting -DGMX_VERSION_STRING_OF_FORK configuration option (#2571)
- adjust qa list in WIEN2k easyblock to handle new questions + fix sanity check for v21.1 (#2572)
- enhance GCC easyblock to add support for AMD GPU offloading (#2578)
- add support for specifying subdirectory for target installation directory in CMakMake (#2579)
- enhance COMSOL easyblock to change permission on build directory during extract step (to allow using patches) (#2584)
- enhance FlexiBLAS easyblock to support building with Intel MKL (imkl) as backend (#2588)
- update MATLAB easyblock for 2021b (jre is no longer included) (#2589)
- update OpenCV easyblock to detect GTK3 and GTK2 dependencies (next to GTK+) (#2591)
- avoid that path to CUDA install directory is added to $PATH (#2593)
- enhance imkl easyblock to add support for installing with NVHPC (#2595)
- enhance PETSc easyblock to run tests in parallel (#2601)
- update ELSI easyblock to support two new external dependencies (#2602)
- add custom custom easyconfig parameter 'backends' in FlexiBLAS easyblock to specify backends (#2605)
- detect problem with compiling CPU detection code in configure output in GROMACS easyblock (#2609)
- use correct include directory for FlexiBLAS (#2610)
- various bug fixes, including:
- unset $EASYBUILD_* environment variables when running sanity check in EasyBuildMeta easyblock + also unset $MODULES_LMCONFLICT to avoid conflict when loading EasyBuild module (#2568)
- ensure that all ABAQUS components get installed for ABAQUS 2021.x (+ add support for enabling/disabling fe-safe) (#2569)
- fix subdir path in VTune easyblock for 2021.x versions + add sanity check command (#2576)
- make sure custom easyblock for installing EasyBuild respects requested version of Python (like $EB_PYTHON) (#2581)
- restore RPATH wrappers for OpenMPI sanity check (#2582)
- fix installation of libcp2k for recent CP2K versions (#2585)
- make version regex in OpenSSL wrapper easyblock less strict (version string does not always end with a letter) (#2597)
- redefine collect_exts_file_info instead of now deprecated fetch_extension_sources in OCaml easyblock (#2603)
- other changes:
- don't use --config=mkl for TensorFlow 2.4+ (#2583)
- this fixes some performance related issues for TensorFlow, see https://github.com/easybuilders/easybuild-easyblocks/issues/2577 and https://github.com/easybuilders/easybuild-easyconfigs/issues/14120
- fix support for recent imkl version in numexpr easyblock (#2606)
- derive custom easyblock from MotionCor2 from PackedBinary instead of EasyBlock (#2607)
v4.4.2 (September 7th 2021)
---------------------------
update/bugfix release
- 4 new software-specific easyblocks:
- CRISPR-DAV (#2487), jaxlib (#2545), ORCA (#2504), RepeatModeler (#2470)
- minor enhancements, including:
- update ABAQUS easyblock to support installation of v2020 (#2034)
- enable make check and sanity check exec for OpenMPI (#2444)
- fixed sanity check for later versions of Molpro (#2499)
- add Ampere to known GPU architectures for Kokkos in LAMMPS easyblock (#2510)
- update sanity check in ESMF easyblock to take into account new binary names from version 8.1.0 onwards (#2512)
- use report_test_failure in TensorFlow easyblock (#2519)
- add suport for imkl 2021.x in easyblocks for
- Amber (#2527), BerkeleyGW (#2528), CP2K (#2529), FreeFEM (#2530), GROMACS (#2531), numexpr (#2532)
- add install_src option and enhance buildcmd option in PythonPackage easyblock (#2534)
- make sure AOCC commands like clang/flang pick up GCCcore as GCC toolchain (#2538)
- create CMakeConfig files for tbb >= 2020 (#2539)
- find source dir for libunwind when building ldd for Clang versions >= 12.0.1 (#2540)
- fix motorBike test in sanity check for OpenFOAM 9 (#2544)
- generate and install pkg-config files for OpenSSL wrapper (#2549)
- don't run 'setup.py config' for numpy >= 1.21, since it's no longer supported (#2554)
- update WIEN2k easyblock to handle new Intel versions, WIEN2k v21, Perl dependency, and tuning of dimension parameters (#2558)
- remove PCRE from list of system libraries for TensorFlow 2.6.0 (#2559)
- add support for also installing Tosca component in ABAQUS (#2560)
- update ABAQUS easyblock to support installing of version 2021 with hot fixes (#2562)
- update sanity check in VTune easyblock for 2021.x versions (#2563)
- various bug fixes, including:
- handle failure of running nvidia-smi in TensorFlow tests (#2506)
- remove Python 2.6 from list of supported Python versions in setup.py (#2507)
- clean up installation of Tkinter (#2509)
- remove redundant $CPATH entry of tbb modules + fix --module-only (#2511)
- honor --ignore-test-failure in PythonPackage (#2516)
- use correct GTK+ version for OpenCV based on dependencies (#2520)
- ensure Python prep is done in sanity check + support debug builds in TensorFlow easyblock (#2522)
- correct cleanup of single-letter local variable in __init__ of easybuild.easyblocks (#2524)
- reset runtest to None in CMakePythonPackage (#2536)
- set $I_MPI_ROOT correctly for 2021.x in impi easyblock (#2537)
- let Bundle easyblock pick up custom easyblock for components based on name if no easyblock is specified explicitly (#2543, #2547)
- explicitely use only OpenBLAS for PyTorch if MKL is not used (#2448)
- keep symlinks in cuDNN installations (#2550)
- use ${BLAS,LAPACK}_SHARED_LIBS in GROMACS easyblock for FlexiBLAS-based toolchains (#2552)
- copy the list to avoid changing the original lists in DEFAULT_TARGETS_MAP for Clang and LLVM (#2556)
- fix pathsep join bug that breaks installation of CUDA versions < 10.1 if $PERL5LIB is defined (#2561)
- other changes:
- simplify Boost easyblock (#2513)
- remove deprecated options from PythonPackage (#2535)
v4.4.1 (July 6th 2021)
----------------------
update/bugfix release
- 5 new software-specific easyblocks:
- AOMP (#2435, #2462, #2464), FreeFEM (#1969), NCCL (built from source) (#2337, #2460), torchvision (#2467), UCX plugins (#2491)
- minor enhancements, including:
- enhance Amber easyblock to support installing Amber via CMake (#2445)
- enhance ConfigureMake generic easyblock to add support for building multiple build targets (#2449, #2479, #2480)
- enhance sanity check for Clang to verify if CUDA offload library was produced (#2454)
- update custom easyblock for Boost to always build single and multi threaded versions (#2456)
- enhance sitecustomize.py in Python easyblock to support overriding core Python packages, and allowing overriding in virtualenv (#2458, #2483)
- update CMakeMake to handle old and new Boost/Boost.Python builds using custom easyblock for Boost (#2461)
- add file prefix option to XALT easyblock (#2463)
- enhance Java easyblock to define %(jdkarch)s template (#2472)
- adjust Perl easyblock to only check for a 'man' subdirectory if groff is a dependency (#2474)
- support arbitrary version strings in OpenSSL wrapper and add minimum_openssl_version option (#2475)
- enhance Python easyblock to explicitly disable installing core-pip when install_pip is not True (#2476)
- enhance intel-compiler easyblock to inlude multipath include dir in $CPATH (#2477)
- enhance Hypre easyblock to enable CUDA support (#2482)
- update Xmipp easyblock for new version (v3.20.07) (#2486)
- enhance FFTW easyblock to skip tests if --mpi-tests EasyBuild configuration option is disabled (#2490)
- use PYPI_SOURCE as the default for source_urls of extensions of Python easyconfigs (#2493)
- various bug fixes, including:
- only use siterc fix for NVHPC < 21.3 (#2453)
- fix CPU-only runtime for dpcpp-generated executables in custom easyblock for intel-compilers (#2457)
- always add distinct_host_configuration=false to build command for TensorFlow (#2459)
- disable installation of bundled BioPerl and HTSLib if they are dependencies of VEP (#2468)
- don't use list value for command to detect installed Python packages in TensorFlow easyblock (#2469)
- change Bundle easyblock to also collect altroot and altversion in the module step so they are set when running --module-only (#2485)
- always strip output from "gcc -print-multiarch" in intel-compilers easyblock (#2489)
- don't overwrite all of exts_default_options in TensorFlow easyblock (#2494)
- enhance GCC easyblock to make sure that system GCC provides LTO support, and disable LTO when building MPFR if not (#2498)
- rework the dependency handling of OpenMPI to use explicit configure options to disable features if required
dependency is not provided (#2500, #2501)
v4.4.0 (June 2nd 2021)
----------------------
feature release
- 3 new software-specific easyblocks:
- FlexiBLAS (#2369, #2422, #2424, #2426)
- dm-reverb (#2413)
- custom easyblock to install OpenSSL wrapper for OpenSSL installed in OS, with fallback to build and install OpenSSL from source if not available in OS (#2429)
- minor enhancements, including:
- also add -pthread to prebuildopts of cryptography (#2270)
- don't unpack Python wheel (*.whl) files by default in generic PythonPackage easyblock (#2366, #2442)
- enable installation of samples for CUDA > 10.1 (#2374)
- add option to disable pip connecting to PyPi (enable use of --no-index) (#2390)
- update MotionCor2 easyblock to handle new version and be aware of CUDAcore (#2394)
- make it possible to force disabling kernel features in Qt easyblock (#2403)
- update imkl easyblock to support oneAPI versions (>= 2021.x) (#2407)
- add "gurobi_cl --help" as default sanity check command for Gurobi (#2411)
- enhance BWA easyblock to copy includes and libraries (#2417)
- allow 'default' versions to be defined by ModuleRC easyblock (#2418)
- enhance MesonNinja and CMakeMake easyblocks to create unused build dir when separate_build_dir is set (#2419)
- enable sanity_pip_check by default for Python easyconfigs if pip >= 9.0 will be installed (#2423)
- enhance FFTW easyblock to support SVE CPU feature and building with Fujitsu compiler (#2425)
- make ScaLAPACK easyblock aware of FlexiBLAS (#2427)
- update imkl easyblock to unpack example tarballs and set $MKL_EXAMPLES (+ some code cleanup) (#2430)
- update list of system libs for TensorFlow 2.5 (#2432)
- allow disabling MPI tests when installing Intel MPI (impi) via --disable-mpi-tests (#2440)
- exclude bottleneck tests in PyTorch (#2450)
- various bug fixes, including:
- ensure lib subdirectory is found in stage 2 of GCC installation + fall back to lib64 (#2339)
- fix permission on MATLAB installer config file so it can be written to (#2385)
- fix problem with installing older CUDA versions that uses the Perl based installer (#2387)
- enhance Python easyblock: add option to install pip with core Python, tweak defaults, create unversioned pip symlink (#2388)
- fix installopts before installing the extension in GROMACS easyblock (#2391)
- updated numpy easyblock to use read_file for patch (#2395)
- use explicit build toolset and compiler path in Boost easyblock (#2402)
- replace hardcoded '2021.1.1' with 'self.version' in impi easyblock (#2405)
- set $SANDCASTLE when running PyTorch tests to disable some tests as-if we are on Facebook's CI (#2412)
- make GROMACS easyblock work with --module-only (#2414)
- make sure OpenFOAM sanity checks don't require builddir write permissions (#2415)
- make Tkinter easyblock work with --module-only (#2416)
- also disable altivec with FFTW 3.3.9 on POWER (#2437)
- make sure that self.python_cmd is set before using it in PythonPackage.sanity_check_step (#2447)
- other changes, including:
- update setup.py to indicate compatibility with Python 3.8 and 3.9 (#2384)
- use on_error rather than deprecated log_error named argument for which function (#2406)
- remove cuda_compute_capabilities from custom easyconfig parameters for Clang, LAMMPS and TensorFlow (now supported as general easyconfig parameter) (#2433)
v4.3.4 (April 9th 2021)
-----------------------
update/bugfix release
- minor enhancements, including:
- make OpenCV easyblock aware of protobuf, libwebp and OpenEXR dependencies provided via EasyBuild (#2346)
- update CP2K easyblock w.r.t. running regtest for CP2K v8.1 (#2350)
- update GROMACS easyblock for GROMACS/2021 with CUDA (#2353)
- adjust call to python-config for Python >= 3.8 in VMD easyblock (#2355)
- enhance cuDNN and CUDA easyblocks to support aarch64 (#2356)
- pass down compiler flags provided by EasyBuild in g2clib easyblock (#2357)
- update VTune easyblock for version 2020 (#2359)
- make WRF and WPS easyblocks aware of (pre)configopts (#2361)
- add Clang version 12.0.0 for AOCC 3.0.0 to mapping in custom easyblock for AOCC (#2362)
- use PYPI_SOURCE as the default for source_urls of PythonPackage (#2364, #2370)
- enhance PythonPackage easyblock to catch faulty version (0.0.0) for installed Python packages (#2367, #2377)
- enhance BWA easyblock: pass compiler flags + use filetools functions (#2368)
- various bug fixes, including:
- set $R_LIBS_SITE rather than $R_LIBS when installing R packages (#2326)
- update PETSc easyblock to take into account that ScaLAPACK installation may not have header files + fix building in parallel (#2348)
- disable CMake user package repository in CMakeMake generic easyblock (#2351)
- update LAPACK easyblock to keep control of compiler options for versions >= 3.9.0 (#2358)
- also set $TORCH_CUDA_ARCH_LIST for PyTorch tests (#2363)
- enhance Hadoop easyblock to avoid copying same native library twice (#2371)
- fix pip extension download pattern for PythonPackage easyblock (#2372)
- make the CUDA stub libs take preference over system libs when linking (#2373)
- improve Python package version check and add unversioned_packages easyconfig parameter (#2377)
v4.3.3 (February 23rd 2021)
---------------------------
update/bugfix release
- 2 new software-specific easyblocks:
- AOCC (#2295), Intel compilers (v2021.x, oneAPI) (#2305)
- minor enhancements, including:
- run motorBike tutorial case as sanity check for recent (community) OpenFOAM versions (#2201)
- add foamMonitor to sanity checks of OpenFOAM (#2256)
- create versioned symlinks for CMake commands + create symlink for 'cmake3' in PyTorch easyblock if cmake3 command is not found (#2259)
- improve Bazel easyblock: add support for running tests, enable static linking, use build dir rather than tmpdir, verbose output (#2285)
- add support for skipping steps in Python packages installed as extension + print progress on individual steps for installing Python packages as extensions (#2290)
- update BerkeleyGW easyblock to support GCC 10 and fftlib (#2297)
- update QuantumESPRESSO easyblock to support GCC 10 (#2298)
- update Clang easyblock to add support for building extra tools + leveraging hwloc and Z3 as optional dependencies (#2310)
- add support for running TensorFlow CPU and GPU tests (#2263, #2292, #2312)
- update impi easyblock for impi 2021.x (oneAPI) (#2313)
- update QuantumESPRESSO easyblock to handle v6.7 (#2319)
- update OpenFOAM easyblock for changes in v2012 (#2321)
- add sanity check commands to GCC (including LTO support) (#2322)
- update FLUENT sanity check for v2021R1 (#2334)
- various bug fixes, including:
- filter out user packages in LAMMPS easyblock if corresponding dependency isn't included + only set -DUSER-INTEL on x86_64 systems (#2254)
- unify handling of pylibdirs and don't add duplicated $PYTHONPATH in PythonBundle (#2281)
- enhance Amber easyblock to fix running of update_amber script when 'python' command is not available in OS (#2282)
- guard 'module unload' statements in modules for Cray* toolchains (#2286)
- set $PYTHONNOUSERSITE in PythonBundle.extensions_step to avoid picking up on Python packages installed in $HOME (#2289)
- create less temporary directories for TensorFlow by (only) using --output_user_root (#2293)
- fix logic w.r.t. enabling Python support in PETSc (#2299)
- make builddeps a list of names in SLEPc easyblock (#2300)
- make builddeps a list of names in Trilinos easyblock (#2301)
- make sure the installation of libiberty.a in the binutils easyblock goes into a populated directory (#2308)
- fix for building GCC with --sysroot on ppc64le (#2315)
- fix OpenFOAM sanity check on POWER (#2320)
- use library search paths of compiler for RPATH when building binutils with system compiler + enhance sanity check by running --version for binutils commands (#2323, #2327)
- pass $CXXFLAGS to PDT's configure script via '-useropt' (#2324)
- pass down compilation flags from build environment for ESMF (#2325)
- update URLs for test data for WRF to https (#2335)
- read MATLAB configuration file in binary mode to avoid UTF-8 encoding errors when using Python 3.6 (#2340)
- fix Boost sanity check on POWER (#2291) and aarch64 (#2341)
- other changes, including:
- rework module-only tests to use unique software name (rather than 'foo') (#2287)
- prefer default value for extra options in easyblock tests (#2280, #2302)
- add check for accepted EULA in custom easyblock for NVHPC (#2311)
- update optional feature support of TensorFlow (#2314)
- make symlinking of posix_c.so to posix.so in test suite configuration conditional (#2330)
v4.3.2 (December 10th 2020)
---------------------------
update/bugfix release
- 2 new software-specific easyblocks:
- code-server (#2255), Metagenome-Atlas (#2219)
- minor enhancements, including:
- add -fallow-argument-mismatch option when building CP2K 7.1 or older with GCC 10.x (#2223)
- update TensorFlow easyblock for upcoming TensorFlow 2.4 (#2225)
- add support for building Clang with OpenMP offload support (#2229)
- enhance OpenMPI easyblock to catch any --with-ucx* configure options (#2230)
- take into account preinstallopts and installopts in custom easyblock for NCL (#2234)
- add support for withnvptx easyconfig parameter, to enable GPU offloading, in GCC easyblock (#2235)
- take into account versions like '4.x' in OpenFOAM easyblock (#2239)
- also add 'bin' subdir to $PATH when installing a Python package (#2244)
- various bug fixes, including:
- fix two bugs in GROMACS easyblock when using GCC & MKL for FFT and BLAS/LAPACK (#2212)
- fix version check in Qt5 easyblock w.r.t. disabling features on old Linux kernel versions (#2220)
- always define $FCCPP in QuantumESPRESSO easyblock (not just when using Intel compilers) (#2221)
- allow wxPython to be installed as an extension (#2227, #2275)
- only configure Python with --enable-optimizations when compiling Python with (recent) GCC compiler (#2228)
- fix sanity check for Boost MT libraries (#2231)
- fix hardcoded path in NVHPC easyblock to support multiple architectures (#2233)
- fix CPASSERT test faults on RHEL8 in CP2K easyblock (#2236)
- stop silently ignoring failing numpy tests, but include support for ignoring (failing) numpy tests (#2238, #2271)
- append to module guesses in easyblocks for Chapel, icc, imkl and impi (rather than overwriting guesses from parent easyblock) (#2242)
- weed out duplicates when determining paths to include-fixed subdirectory in GCC easyblock (#2245)
- prepend all hardcoded /usr/* paths with sysroot in Python's setup.py installation script (#2246)
- don't try to patch newer versions of Bazel where the patches won't apply (#2249)
- fix setting of $RUNPARALLEL in HDF5 easyblock (#2250)
- move --build and --host logic to run_configure_cmd in GCC easyblock (#2252)
- set $UCX_TLS in module for impi installation on top of UCX, and allow it to be overwritten in impi easyconfig file (#2253, #2258)
- enhance PyTorch easyblock to ensure it finds MKL (via $MKLROOT) (#2257)
- use integer division to determine number MPI ranks to use in WRF test step (#2266)
- also specify locincpth and glibpth configure options for Perl based on --sysroot (#2268)
- other changes, including:
- add link to GCC mailing list thread confirming that binutils should not be configured with --with-sysroot=$EASYBUILD_SYSROOT when GCC is being configured like that (#2215)
- pass paths to patch one by one to apply_regex_substitutions in GCC easyblock when --sysroot is set (#2217)
- workaround for regression in apply_regex_substitutions introduced in EasyBuild v4.3.1 (which was fixed for v4.3.2)
v4.3.1 (October 29th 2020)
--------------------------
update/bugfix release
- 2 new software-specific easyblocks:
- CFDEMcoupling (#1439), NVHPC (#2190)
- minor enhancements, including:
- support having PyQt5 installed as part of Qt5 in QScintilla easyblock (#2040)
- update TensorFlow easyblock to put Bazel build files in build directory + avoid unnecessary runtime patching (#2166)
- update CBLAS easyblock for toolchains that include imkl (#2175)
- add workaround for duplicate prefix path in Eigen CMake config (#2176)
- enable CTEST_OUTPUT_ON_FAILURE for CMakeMake test step (#2181)
- add XLA build support to TensorFlow easyblock (#2182)
- also consider libfabric dep (--with-ofi) when setting default OpenMPI configure options (#2184)
- make easyblock for installing CMake aware of --sysroot (#2187)
- make OpenBLAS respect the parallelism set by easybuild (#2191)
- handle option of building Michigan State University CCT3 & CCSD3A methods in GAMESS_US easyblock (#2194)
- add support to RubyGem easyblock for installing zipped gems (#2203)
- update ScaLAPACK easyblock to support installation with CMake for recent versions (>= v2.1.0) (#2205)
- update Score-P easyblock to add support for NVHPC toolchain (#2206)
- various bug fixes, including:
- add torch/lib subdirectory in Python lib dir to $LD_LIBRARY_PATH for PyTorch installations (#2183)
- update MUMmer easyblock to use apply_regex_substitutions and copy_file functions (#2185)
- configure OpenMPI 4.x with --without-verbs when using UCX (#2188)
- take into account that zlib may be listed in --filter-deps in custom easyblock for XML R package (#2189)
- add sanity check commands to Clang easyblock and print warning for missing ncurses (#2193)
- enhance OpenFOAM easyblock to add symlinks for libraries to ensure 'mpi' versions have preference over 'dummy' versions (#2196)
- leverage installed OpenSSL/BoringSSL when cURL is used as a dependency for TensorFlow (#2197)
- add -ffree-line-length-none to gfortran flags in Siesta easyblock (#2204)
- respect --disable-mpi-tests in Siesta easyblock (#2207)
- other changes, including:
- set $EB_INSTALLPYTHON in module generated for EasyBuild rather than setting $EB_PYTHON, to allow overriding Python command to be used for running EasyBuild with $EB_PYTHON (#2109)
- remove unused custom easyblock for DIRAC (#2192, #2198)
v4.3.0 (September 13th 2020)
----------------------------
feature release
- 2 new software-specific easyblocks:
- pybind11 (#2115), PyTorch (#2104)
- minor enhancements, including:
- update MATLAB easyblock to use new binary installer for versions >= 2020a (#2058)
- add use_pip_requirement custom easyconfig parameter to PythonPackage easyblock to allow providing a requirements file to the pip command, as a source (#2064)
- update CP2K easyblock for recent versions (>= 7.0) (#2069)
- add multi_deps support into custom easyblock for QScintilla (#2077)
- update Mothur easyblock for v1.44.0 and higher (#2084)
- update MotionCor2 easyblock to add support for v1.3.2 (#2100)
- update Tinker easyblock to handle skipping of tests depending on version and link with fftw_omp (#2102)
- launch test & sanity check commands through mpirun for netcdf4-python if MPI support is enabled (#2106)
- check for installation of pip & setuptools in Python 3.4+ (#2108)
- update QuantumESPRESSO easyblock to support version 6.6 (#2112)
- allow NAMD to be built on POWER, and also use the CUDA arch info (#2113, #2123)
- update Libint easyblock for versions >= 2.6.0 + add custom easyconfig parameter to enable Fortran support (#2116)
- update TensorFlow easyblock to use system/EasyBuild installed libraries (#2117, #2165, #2163, #2172)
- add support in NAMD easyblock to pass additional C++ compiler options for building Charm++ component with + wrap them in single quotes (#2118)
- automatically add required '-G Ninja' option when using CMakeNinja easyblock + add 'generator' custom easyconfig parameter for CMakeMake (#2120)
- make several easyblocks aware of --sysroot EasyBuild configuration option: binutils (#2147, #2159), CMakeMake (#2152), GCC (#2143), Perl (#2142), Python (#2148, #2149)
- make Mesa easyblock aware of aarch64 (#2153)
- enhance sanity check in custom Doxygen easyblock to catch broken installation (#2171)
- various bug fixes, including:
- make TensorFlow easyblock ignore the PKG_REVISION identifier if NCCL version if it exists (#2085)
- remove version check against the version.txt file in CUDA easyblock (#2097)
- add 'lib' symlink in tbb installation directory when building from source (#2103)
- handle GNUInstallDirs special cases in CMakeMake easyblock (#2105, #2124)
- patch ELPA's manual_cpp script to fix hardcoded '/usr/bin/python' (#2107)
- make TensorFlow easyblock also set $GCC_HOST_COMPILER_PREFIX to specify binutils location (#2110)
- ensure stand-alone Python package being installed is in view when running 'pip check' by loading fake module first (#2114)
- be more patient when running interactive configure script for WRF (#2119)
- make sure self.start_dir is set to a full path before constructing installation command in RPackage easyblock (#2125)
- correctly check whether 'modinc' easyconfig parameter is set to True in CP2K easyblock (#2138)
- update PSI easyblock to correctly find Python and enable PCMSolver/CheMPS2 (#2141)
- fix running GROMACS tests when using 'eb --rpath' (#2144, #2154)
- remove existing Python installation directory if both 'eb --rpath' and --enable-optimizations configuration option are used (#2146)
- ensure libQt5Core.so is compatible with older Linux kernels by disabling renameat2 and getentropy features (#2151)
- solve issue where pybind11 picks up on the system Python instead of one provided by a module (#2158)
- fix Qt5 easyblock to support installation on Arm/aarch64 (requires platform to be linux-g++) (#2160)
- fix OpenFOAM easyblock to support installation on Arm/aarch64 systems (#2162)
- explicitely enable/disable CUDA options in PyTorch easyblock + fix download check in sanity check + fix for disabling of *NNPACK on POWER systems (#2164)
- fix sanity check in Mathematica easyblock for 11.x versions older than 11.3 (#2168)
- unset $COLUMNS if it is set to '0' before running Perl's configure script (#2169)
- other changes:
- filter out Python in SLEPc configure (#2101)
- switch to status badge based on tests run in GitHub Actions CI in README (#2126)
- fix code style issues to make flake8 checks pass (#2128-#2137, #2140, #2145, #2155)
- limit test configurations in Travis CI to only Python 2.6 (#2139)
v4.2.2 (July 8th 2020)
----------------------
update/bugfix release
- 3 new software-specific easyblocks:
- LLVM (#2065), Scipion (#1847), XALT (#1942)
- minor enhancements, including:
- use 'wclean -platform' instead of 'wcleanPlatform' for OpenFOAM v2006 & newer (#2088)
- various bug fixes, including:
- only build OpenCV with IPP support on x86_64 systems (#2056)
- make sure CFLAGS and MYCFLAGS are used in Lua easyblock (#2062)
- also accept 'exist_lic' as valid value for 'license_file' in IntelBase easyblock (#2067)
- fix minor bug in shared libs handling and correctly setup SuiteSparse variables in Trilinos easyblock (#2071)
- make sure PythonBundle uses correct 'python' command in extensions filter + also add lib64/python*/site-packages to $PYTHONPATH (if it exists) (#2075, #2081)
- fix build environment for WRF by patching shebang in compile script (#2079)
- fix order of intel64/lib paths in generated module for impi (and drop intel64/lib/release_mt) (#2080)
- set $XDG_CACHE_HOME to avoid abuse of $HOME/.cache/pip when installing DOLFIN (#2082)
- make VMD easyblock Python 3 compatible (#2083)
- rename include-fixed subdirectory in GCC installation to avoid problems after OS upgrade (#2087, #2093, #2094)
- use glob pattern to determine name of Mathematica installation script (#2089)
- use mpirun for sanity check commands in LAMMPS easyblock (#2096)
v4.2.1 (May 20th 2020)
----------------------
update/bugfix release
- add generic easyblock for installing Go packages: GoPackage (#2042)
- minor enhancements, including:
- update config.guess for all R packages, required installing R + extensions on Linux/POWER systems (#1949)
- add support for preinstallopts and install in subdirectory to Tarball generic easyblock (#1989, #2049)
- rewrite GROMACS easyblock to install all four variations (single/double precision, with/without MPI) in the same directory (#1991)