- Important fix to OSX BIRCH launcher
- Sequence database search improvements
- Application updates
At present, it does not appear that any of the Java programs distributed with BIRCH presents vulnerabilities due to the log4j2 exploit. We have confidence in this assertion for several reasons:
- Log4j2 applies only to Java applications
- A scan of
all Java applications, including source code and .jar
files was done to identify potentially vulnerable
applications.
- Some older
applications use versions of log4j that are not
susceptible to this exploit.
- None of these applications acts as a web or peer-to-peer server
- All BIRCH
applications run with user permissions only. None uses
admin permissions.
We will take this opportunity to remind all BIRCH users that your best defenses against potential security threats are to
- run system updates on a routine basis
- back up your files offsite (eg. to the cloud or network-attached storage)
- change your passwords frequently.
- Web
documentation reorganized for easier navigation and
local customization at each BIRCH site.
- improvements to BLAST search results
- improvements and updates for multiple alignment and phylogeny
- numerous updated software packages
- extensive improvements to pre-processing and QC of sequencing reads
https://youtu.be/8RqR1va-hYU"> - improvements and updates for multiple alignment and phylogeny
- personalized user settings for BIRCH environment, including NCBI Entrez API keys
- NCBI Entrez keyword searches now support Neighbor and LinkOut searches
- First time setup tutorial for MATE desktop
- Python3 compliance
- Updates to BLAST, FASTA database searches