Merge pull request #2685 from RosettaCommons/fordas/add_chainbreak_update
Add support for chain_ending insertion in AddChainBreak and make mover reentrant.
Merge pull request #2545 from RosettaCommons/roccomoretti/utf_decode_replace
Be more robust with UTF parsing.
Add errors=replace to the UTF decode statements in Python scripts. Instead of crashing when input contains non-parsable data, replace it with the codepoint-missing character.
Doesn't completely solve the issue, as Python2 will still crash when redirecting Unicode-containing characters. -- That's not really something we can fix from within the script, though. You need to set the `PYTHONIOENCODING` environment variable in the launching shell to `utf_8` or equivalent.
Merge pull request #2478 from RosettaCommons/sjbertolani/jupyter-output-in-cell
Get Rosetta TR output in Jupyter cells - This sets up the rosetta tracer output to be dumped into the current executing cell in a jupyter notebokk. You can turn this off by adding set_logging_handler=False to the init() function.
Merge pull request #2428 from RosettaCommons/vmullig/ui/bundle_gui
Adding support for presets to bundle_gui in anticipation of PreRosettaCon demo
This pull request adds:
- antiparallel beta-barrel preset
- three-helix bundle preset
- support for non-canonical helices (e.g. beta-amino acid 14-helices)