Dear EasyBuilders,
We're happy to announce the release of EasyBuild v4.5.3 [1].
Much to our surprise, it turned out that EasyBuild v4.5.2 was not our
best release to date...
Due to changes related to OS (version) detection, EasyBuild v4.5.2 is
crashing hard on systems running a (derivative of) a recent SUSE Linux
Enterprise Server (SLES) version as OS.
The problem was reported on Fri 4 Feb 2022, and fixed in the develop
branch on Tue 8 Feb 2022.
Some measures were taken to prevent an issue like this from being
reintroduced, and more will be taken going forward.
Given the impact of this problem, we figured it was worthwhile to push
out another release a bit quicker than usual (EasyBuild v4.5.2 was
released only 2.5 weeks ago), also because there has been a lot of
activity recently w.r.t. merging incoming contributions.
EasyBuild v4.5.3 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-v4.5.3)
## Prominent bug fixes & changes
[bug fixes or changes that (may) warrant re-installing easyconfigs are
marked with (***)]
- avoid crash in get_os_version on modern SLES-based OSs;
- fix get_os_name and get_os_version to avoid reporting UNKNOWN in
output of eb --show-system-info;
- switch to using pip3 for installing EasyBuild in container recipes
generated by EasyBuild;
- (***) add missing UCX-CUDA dep to GROMACS for foss-2021a-CUDA-11.3.1;
- (***) add patch to fix Kraken2 ncbi ftp/https check in
rsync_from_ncbi.pl for versions 2.0.9-2.1.1;
- (***) consistently apply patch for mapDamage 2.2.1 to use external seqtk;
- fix download URL in UDUNITS v2.2.28 easyconfigs;
- add alternative checksum for MASS, class, nnet, spatial extensions in
R 4.1.0 and R 4.1.2 easyconfigs;
## Highlighted enhancements & changes
[enhancements that (may) warrant updating existing installations are
marked with (***)]
- new software-specific easyblock for reticulate R package;
- updates and enhancements for various software-specific easyblocks:
CUDA, HDF5, NAMD;
- (***) set CUDA target architecture(s) for GROMACS based CUDA compute
capabilities listed in EasyBuild configuration;
- (***) also install Python bindings for SHTns 3.5.1;
## Supported software
Support for installing 25 new software packages has been added,
including (but not limited to):
Arcade-Learning-Environment
Bambi
CASTEP
deepmedic
histolab
MuJoCo + mujoco-py
OpenCensus-python
PyEVTK
pyradiomics
PyTorch-Lightning
Redis
SoXt
SURVIVOR
xtensor
=> This brings the total number of supported software packages to
2,647 (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):
AOCC 3.2.0
Bowtie 1.3.1
Clang 13.0.1
ConnectomeWorkbench 1.5.0
CUDA 11.5.1 + 11.6.0
dask 2022.1.0
deepTools 3.5.0
FDS 6.7.7
GATE 9.1
Geant4 11.0.0
Graphviz 2.50.0
GROMACS 2021.5
JupyterLab 3.2.8
MEGA 11.0.10
methylpy 1.2.9
minimap2 2.24
ncbi-vdb 2.11.2
OpenCV 4.5.5
pyFAI 0.20.0
Racon 1.5.0
RAxML 8.2.12
ReFrame 3.10.1
ROOT 6.24.06
scikit-image 0.19.1
SeqKit 2.1.0
Siesta 4.1.5
SqueezeMeta 1.5.0
torchvision 0.11.3
These changes result from various contributions, made by 21 different
contributors:
* 13 merged pull requests for EasyBuild framework
* 10 merged pull requests for easyblocks
* 156 merged pull requests for easyconfigs
Thanks to everyone who contributed to this release in one way or another!
To upgrade to EasyBuild v4.5.3, there are several options [5].
Two particularly easy options include:
* eb --install-latest-eb-release
* eb --from-pr 14979 # use easyconfig from PR #14979 [6]
Enjoy!
regards,
Kenneth & Miguel
[1] https://pypi.org/project/easybuild/4.5.3
[2]
https://docs.easybuild.io/en/latest/Release_notes.html#easybuild-v4-5-3-february-11th-2022
[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/14979
