Dear EasyBuilders,
We're happy to announce the release of EasyBuild v4.5.1 [1].
As usual the world around us tried to distract you from this glorious
event, for example by mutating viruses, or by suddenly uncovering that a
feature of a popular logging library can be abused in creative ways...
What will they think of next!
Forget about EasyBuild v4.5.0 being the best release ever, that's old
news now, since EasyBuild v4.5.1 is way better!
We bet you didn't see that coming...
EasyBuild v4.5.1 is primarily a bugfix and update release, but it also
includes various minor enhancements.
Highlights for this release are listed below. More details are available
in the release notes [2] which includes links to the respective pull
requests for more detailed information.
(this information is also available at
https://github.com/easybuilders/easybuild/releases/tag/easybuild-v4.5.1)
## Prominent bug fixes & changes
[bug fixes or changes that (may) warrant re-installing easyconfigs are
marked with (***)]
- don't try to ensure absolute path for path part of --repositorypath
EasyBuild configuration option;
- only remove lock if it was created in the same EasyBuild session (not
if it existed already);
- (***) minor fixes for various software-specific easyblocks: CP2K,
MUMmer, netcdf4-python, ORCA, OpenFOAM, OpenMPI, PETSc, SLEPc;
- (***) add patch for libfabric v1.12.1 to fix unknown link width 0x10
warning;
- add patch for GCCcore 9.1-9.3 and 10.1-11.1 to fix compatibility with
recent kernel headers;
- (***) add patch to fix CVE-2021-43527 in NSS;
- pass tests on A* GPUs by setting NVIDIA_TF32_OVERRIDE=0 in jax 0.2.19;
- (***) add patch to fix broken (hanging) Mash binaries;
- seed in PCRE2 sources to fix broken MariaDB 10.5.8 + 10.6.4 easyconfigs;
- rename R bindings for Arrow to arrow-R, so it can be used in a
lowercase module naming scheme;
- comment out imkl build dependency for FlexiBLAS 3.0.4 with GCC/11.2.0;
- consistently use 'Grace' software name + sync homepage/source_urls;
## Highlighted enhancements
[enhancements that (may) warrant updating existing installations are
marked with (***)]
- enhancements for experimental feature --parallel-extensions-install:
* also determine which extensions can be skipped in parallel;
* fall back to sequential installation for extensions with unknown
dependencies;
* see also
https://docs.easybuild.io/en/latest/Installing_extensions_in_parallel.html;
- allow oversubscription in sanity check for OpenMPI-based toolchains;
- new software-specific easyblock for Clang-AOMP;
- enhanced Rpm generic easyblock;
- updates and enhancements for various software-specific easyblocks:
Eigen, GROMACS, Inspector, jaxlib, SAMtools, tbb;
- (***) additional extensions for R-bundle-Bioconductor 3.13 [3];
- (***) additional extensions for R v4.1.x [3];
## Supported software
Support for installing 71 new software packages has been added,
including (but not limited to):
BabelStream
bamtofastq
bcbio-gff
Clang-AOMP
CMSeq
dRep
DUBStepR
elprep
epiScanpy
FMM3D
HIP
InChI
LERC
libtree
Megalodon
nnU-Net
PPanGGOLiN
ProFit
PySide2
ROCm
Shasta
SimNIBS
SMV (Smokeview)
ThemisPy
TOBIAS
zlib-ng
Zopfli
=> This brings the total number of supported software packages to
2,575 (excluding extensions)!
An up-to-date list of supported software is available at [4].
Various software updates have been added, including (but not limited to):
AlphaFold 2.1.1
Arrow 6.0.0
Boost 1.77.0
Eigen 3.4.0
ESMF 8.2.0
Flye 2.9
Horovod 0.23.0
ITK 5.2.1
jax 0.2.24
NCO 5.0.3
OpenMPI 4.1.2
pangolin 3.1.16
PyTorch 1.10.0
R 4.1.2
R-bundle-Bioconductor 3.14
scikit-learn 1.0.1
torchvision 0.11.1
Trycycler 0.5.2
Unicycler 0.4.9
UShER 0.5.0
WPS 4.3.1
Yambo 5.0.4
These changes result from various contributions, made by 24 different
contributors:
* 15 merged pull requests for EasyBuild framework
* 19 merged pull requests for easyblocks
* 244 merged pull requests for easyconfigs
Thanks to everyone who contributed to this release in one way or another!
To upgrade to EasyBuild v4.5.1, there are several options [5].
Two particularly easy options include:
* eb --install-latest-eb-release
* eb --from-pr 14545 # use easyconfig from PR #14545 [6]
Enjoy!
regards,
Kenneth & Miguel
[1] https://pypi.org/project/easybuild/4.5.1
[2]
https://docs.easybuild.io/en/latest/Release_notes.html#easybuild-v4-5-1-december-13th-2021
[3]
https://docs.easybuild.io/en/latest/Partial_installations.html#installing-additional-extensions-using-k-skip
[4]
https://docs.easybuild.io/en/latest/version-specific/Supported_software.html
[5]
https://docs.easybuild.io/en/latest/Installation.html#updating-an-existing-easybuild-installation
[6] https://github.com/easybuilders/easybuild-easyconfigs/pull/14545
