v1.2.0 to v1.2.2: major release and extended version improvements

fungs released this 16 Apr 15:24

· 264 commits to master since this release

We did extensive runtime optimizations, reorganized command line tools and improved build scripts. The extended version pipelines were improved considerably.

v1.2.0

Changed

core: program taxknife substitutes name-filter and rank-filter
core: adjust data types to support longer segments
core: better approximation of identity scores + support values in binner
core: optimizations in RPA procedure
core: heuristic to avoid excessive runtime with bad alignments
core: workaround for CMake bug with boost threads linking

v1.2.1

Changed

extended: fix bug in binning-workflow-fasta-last.sh, reference FASTA index wasn't used
extended: replaced quickstart.pdf by a text-based README file

v1.2.2

Changed

extended: make reference data and aligner index location independent of installation root (easier to run it in multiuser environments)
extended: remove integrity check for data (should become part of the refpack)
extended: rename and clean all scripts
extended: change standard BLAST algorithm to "discontiguous megablast" for better sensitivity (increases the runtime by ~20x)

Assets 5