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tbgl
tools
mrdna
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39ae49a1c108ab766d6b02e990e3926b5bbf2d00
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dev
master
default
protected
nick
pinyili2
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3
add cadnano
master
master
change pandas behavior
nick
nick
Improve how mrdna generates bead models; use `model.generate_bead_model(..., version=1.0)` for legacy behavior
Merge remote-tracking branch 'refs/remotes/origin/master'
Fix specialization of bead types to ensure unique types
Add support for vector angle potentials; fix nonbonded interaction bug
add nicks
add nick data, modify patterns for pandas
add nick related data
pinyili2
pinyili2
correct the behavior for writing the particles
modify reading pandas way
Update arbdmodel/submodule to arbmodel commit a4196d3
Repair atomic_simulate() after breaking in commit afe2d1f
Copy arbmodel commit 7ceb134 to arbdmodel/submodule
Make existing code compatible with new arbdmodel
Add arbdmodel module files to facilitate importing
Add arbdmodel copy with commit ID 4075481
Move local arbmodel copy to arbdmodel/submodule/arbdmodel
Avoid bonded potential duplication after multiple simulate commands
Add ability to apply grid potentials to orientation beads
add seg
Prevent PointParticle (or other Child objects) from looking up explicitly excluded methods such as __hash__ and __copy__ from ParticleType; Add ParticleType __copy__ and __deepcopy__ methods that return to ensure types do not change upon copying a group or model
Fix typo
make assign bead type competitable with arbdmodel
segment model fixes
make mrdna competitable with current arbdmodel
Merge branch 'pinyili2' of gitlab.engr.illinois.edu:tbgl/tools/mrdna into pinyili2
add arbd model to branch
add
add
a
add arbd model to branch
generalized fwd helix directions
set angle to 180
Remove some unused code
Fix matrix transpose in new quaterion_from_matrix routine
Add explicitly_unstacked argument to oxDNA reader to ensure we get terminal_crossover connections
Merge branch 'pinyili2' of gitlab.engr.illinois.edu:tbgl/tools/mrdna into pinyili2
add arbdmodel
add
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