Image-processing software for cryo-electron microscopy
This is the first maintenance release of RELION 4.0. We recommend all RELION users to upgrade to this version, because this fixes bugs, improves compatibility and introduces convenient features.
New features and bug fixes include:
pbzip2
, xz
or zstd
command in your PATH
, respectively. Please read our documentation for the details.This is the first stable version of RELION 4.0. With the release of this version, earlier RELION versions (3.1.x) are no longer supported. We recommend all RELION users to upgrade to this version.
For the list of new features, please look at the "What's new?" page in our documentation and the following papers.
This is the final maintenance (bug fix) release from RELION 3.1.3. RELION 4.0 succeeds this release. We will no longer investigate and fix bugs in RELION 3.1.x.
The most important change since RELION 3.1.3 is that symmetry relaxation for non-cyclic point groups was blocked. This feature has been broken for non-cyclic point groups but earlier versions allowed the job to run, giving wrong results (see issue #796). The --helical_nstart
option of relion_refine
was also repaired (see #799).
In addition to these, various bugs (resource leaks, buffer overflows etc) were fixed and compatibility with newer compilers/environments was improved. See Git commit logs for the details.
This is a maintenance (bug fix) release from RELION 3.1.2. Everyone using RELION 3.1.2 or earlier should upgrade to this version. We will not investigate bug reports and questions on earlier versions.
Changes since RELION 3.1.2 include:
CC
, CXX
, MPICC
, MPICXX
environmental variables.This is a minor update from RELION 3.1.1. Everyone using RELION 3.1.1 or earlier should upgrade to this version. We will not investigate bug reports and questions on earlier versions.
Changes since RELION 3.1.1 include:
libtiff
is no longer optional; it is necessary for compilation-DAMDFFTW ON
option in CMake--sigma_rot
, --sigma_tilt
, --sigma_psi
for local search in Refine3DUnfortunately, there are several remaining issues to be fixed in later updates. Frequent problems include:
See https://github.com/3dem/relion/issues for details.
This is a minor update from RELION 3.1.0. Everyone using RELION 3.1.0 or earlier should upgrade to this version.
Changes since RELION 3.1.0 include:
--keep_ctfs_micrographs
in Extract to respect the optics groups in the micrograph STAR file.--gpu
) and Intel CPUs (--cpu
) contributed by NVIDIA and Intel engineers.Unfortunately, there are several remaining issues to be fixed in later updates. Frequent problems are:
See https://github.com/3dem/relion/issues for details.
This is the first stable release of RELION 3.1.0. Everyone using RELION 3.0.x or 3.1 beta should upgrade to this version.
Major changes since RELION 3.0.x include:
The new tutorial is available at ftp://ftp.mrc-lmb.cam.ac.uk/pub/scheres/relion31_tutorial.pdf.
Support for the EER movie format is not yet included in this release.
Please use a special version in the devel-eer
branch at https://github.com/3dem/relion/tree/devel-eer.
This feature will be merged in near future as a minor update (version 3.1.x).
This release contains several bug fixes. As we start public beta testing of RELION 3.1, we will not fix non-critical bugs for version 3.0.x in future.
--and
, --or
, --and_not
, --or_not
. (GitHub issue #495)--reconstruct_subtracted_bodies
in continuation as well (as reported by Dr. Yanagisawa)This release fixes an MPI-related bug where refinement and classification stall at the beginning or at a certain iteration. (GitHub issue #473 and problems reported in CCPEM by Wim Hagen, Dieter Blaas and others)
This release has several improvements:
RelionCor supports dose weighting of datasets at 100 kV.
The inter-particle distance cutoff in the Laplacian-of-Gaussian (LoG) picker was improved.
When LoG picker is enabled, minimum inter-particle distance
in the "autopicking" tab is not used. This is by design. Instead, neighbouring particles within
(detected diameter at the point + --LoG_diam_min
) * --LoG_neighbour
/ 100
are avoided. The default for --LoG_neighbour
is 100 %. You can make this smaller or larger to pick more or less, respectively.
Implemented --LoG_upper_threshold
option.
LoG picker tended to pick high contrast contamination like ice and ethane droplets. They have higher scores than real particles, so adjust default threshold
is useless. Now we have --LoG_upper_threshold
option to set an upper limit in scores. Useful values are typically 1.5 to 4. The default is 99999 (i.e. no limit in practice)
This release also contains the following bug fixes.
postprocess_masked.mrc
is overwritten by half2_masked.mrc
when --half_maps
is provided (reported by @keitaroyam).relion_star_handler --split
: removed an assumption on the number of digits.