- riboaligner now does a better job of aligning sequences that have extra sequence at the 5' and 3' ends
- Updates version of infernal to v1.1.5, so ribovore should build on MacOS/X silicon machines
- Updates version of blast to 2.14.1+
- Updates NCBI taxonomy tree (taxonomy/ncbi-taxonomy-tree.ribodbmaker.txt)
- install.sh now allows minimal installation if only ribotyper is needed
- install.sh now removes unnecessary files in dependencies to minimize disk space (keep all files with 'keep' option)
- Updates version and date in README.md which were incorrect in v1.0.3 (unchanged from v1.0.2).
- Updates NCBI taxonomy tree (taxonomy/ncbi-taxonomy-tree.ribodbmaker.txt)
- Fixes several typos and makes several clarifications related to environment variables in install script (install.sh)
- Fixes bug in ribosensor script that required esl-sfetch to be in user's path
- Fixes install.sh again to download correct version tarballs
- Adds public domain notice as LICENSE
- No code changes between 1.0, 1.0.1, and 1.0.2 only changes are to install script and addition of LICENSE in 1.0.2
- Fixes install.sh to properly name ribovore zip file after downloading.
- The version used in the Ribovore manuscript: Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation; in preparation (to be uploaded to bioRxiv in Feb 2021);
- adds ribotyper.pl --skipval option for skipping validation stage
- adds ribotyper.pl --onlyval option for only doing validation stage and then exiting
- adds 11 new riboaligner.0p40 SSU rRNA models, that already had analogous ribotyper models.
- fixes bug related to ribodbmaker.pl --riboopts1 option processing
- updates test suite
For more information, see the git log for the develop branch.