diff --git a/cadnano_segments.py b/cadnano_segments.py index e2619209f0e7d41a3cc78ae8758081cf3ebe4c8a..585b3681a04191024dd7f666027e67dbb9bfdfae 100644 --- a/cadnano_segments.py +++ b/cadnano_segments.py @@ -625,7 +625,7 @@ def run_simulation_protocol( output_name, job_id, json_data, simargs['timestep'] = 50e-6 model._update_segment_positions(coordinates) model._clear_beads() - model._generate_bead_model( 1, 1, local_twist=True, escapable_twist=True ) + model._generate_bead_model( 1.03, 1.03, local_twist=True, escapable_twist=True ) model.simulate( outputPrefix = output_prefix, numSteps=fine_steps, **simargs ) coordinates = readAvgArbdCoords('%s.psf' % output_prefix,'%s.pdb' % output_prefix, '%s.0.dcd' % full_output_prefix, rmsdThreshold=1)