dss-opt-1.0.5

Mainly improvements to make building the Julia and Python interfaces easier

• move force constants to na.h
• rename random_seq to random_useq, xstr_to_seq to xstr_to_useq
• new variants of functions that don't exit on error: vienna_to_pairs, pairs_to_vienna, parse_seq_constraints_hard
• new functions: xuseq_to_str, useq_to_str
• add some unittests: make unittest and make unittest-valgrind
• run all checks with valgrind: make check-valgrind

dss-opt-1.0.4

• add --quiet option for opt-md, opt-sd, opt-sd-gsl programs

• move run_md, run_sd functions to shared library

dss-opt-1.0.3

• fix off-by one error in random-vienna helper program
• add basic tests of executables with make check

dss-opt-1.0.2

• improvement in build system for rna-ensemble-distance, ViennaRNA-1.8.5 built automatically (with necessary build patch for new compilers)

• improved README docs now in markdown

dss-opt-1.0.1

• can now build a shared library with make lib
• small bugfix in x_ensure_positive

dss-opt-1.0

This version contains the code for the following publication from 2012

Matthies, Bienert, Torda. Dynamics in Sequence Space for RNA Secondary Structure Design. J. Chem. Theory Comput., 2012, 8, 10, 3663-3670.

which describes the dss-opt method for RNA sequence design.

Even though the code and the paper are from 2012, a tagged github release was only done 10 years later on 22 September, 2022.