Monday, March 26, 2018

Pre-release version maSuRCA 3.2.6beta

Over the past several weeks I have been working on improving stability of MaSuRCA.  I thank all users who reported problems to me and I have been addressing these problems in the code. The improved pre-release version of MaSuRCA 3.2.6beta is posted here:

This is a maintenance release.  There are no new features from 3.2.4 version, but there are many stability and performance improvements based on the feedback from the users (AGAIN BIG THANKS EVERYONE!!!) and my own use of MaSuRCA with the assemblies that I run.

List of major improvements:

1. occasional failure on overlapcorrection workaround
2. Illumina-only assembly unitig consensus failure workaround
3. running mega-reads on SGE grid improvements in performance and stability
4. cleaned up the code and improved re-starting assemblies with Illumina-only data
5. Updated version of MUMmer4 included
6. Improved compilation and install script on platforms where @ is present in the PWD
7. fixed bugs and improved performance of the assembly polishing code
8. speed and stability improvements to the Oxford Nanopore correction code
9. fixed bug that resulted in gap filling running in endless loop

The complete list of bugfixes and improvements for masurca and its submodules can be found on github

I would like this release to be a stable point before I continue adding new features.  Please let me know in the comments if you have any issues with this release.  I will remove the beta status after 2 weeks of testing and post it as an official release.