From 6222c4c81e8841489c14458512bf843b541a79f5 Mon Sep 17 00:00:00 2001 From: Andrew Jewett Date: Tue, 23 Jun 2020 17:47:04 -0700 Subject: [PATCH] updated the two DNA "twist_motor" examples --- .../twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh | 2 +- .../twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/examples/coarse_grained/DNA_models/dsDNA_only/2strands/3bp_2particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh b/examples/coarse_grained/DNA_models/dsDNA_only/2strands/3bp_2particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh index dad0752d..1664907a 100755 --- a/examples/coarse_grained/DNA_models/dsDNA_only/2strands/3bp_2particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh +++ b/examples/coarse_grained/DNA_models/dsDNA_only/2strands/3bp_2particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh @@ -26,7 +26,7 @@ cd moltemplate_files -inherits 'DNAForceField' \ -monomer-name 'DNAMonomer' \ -header 'import "dna_monomer.lt"' \ - -padding 20,20,20 \ + -padding 20,20,60 \ < init_crds_polymer_backbone.raw > dna_polymer.lt diff --git a/examples/coarse_grained/DNA_models/dsDNA_only/twistable_Kratky-Porod/42bp_3particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh b/examples/coarse_grained/DNA_models/dsDNA_only/twistable_Kratky-Porod/42bp_3particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh index 0b272fa1..343660b8 100755 --- a/examples/coarse_grained/DNA_models/dsDNA_only/twistable_Kratky-Porod/42bp_3particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh +++ b/examples/coarse_grained/DNA_models/dsDNA_only/twistable_Kratky-Porod/42bp_3particles/twist_motor_supercoiling/STEP_2_generate_LAMMPS_files.sh @@ -39,7 +39,7 @@ cd moltemplate_files -inherits 'DNAForceField' \ -monomer-name 'DNAMonomer' \ -header 'import "dna_monomer.lt"' \ - -padding 30,30,30 \ + -padding 30,30,110 \ < init_crds_polymer_backbone.raw > dna_polymer.lt # (Note: The "-helix" parameter represents the twist-per-monomer (Δφ) at the