LICENSE
MANIFEST.in
README.md
setup.cfg
setup.py
versioneer.py
./openmmtools/multistate/mixing/_mix_replicas.c
openmmtools/__init__.py
openmmtools/_version.py
openmmtools/alchemy.py
openmmtools/cache.py
openmmtools/constants.py
openmmtools/forcefactories.py
openmmtools/forces.py
openmmtools/integrators.py
openmmtools/mcmc.py
openmmtools/mit_license.txt
openmmtools/respa.py
openmmtools/sobol.py
openmmtools/states.py
openmmtools/testsystems.py
openmmtools/utils.py
openmmtools.egg-info/PKG-INFO
openmmtools.egg-info/SOURCES.txt
openmmtools.egg-info/dependency_links.txt
openmmtools.egg-info/entry_points.txt
openmmtools.egg-info/not-zip-safe
openmmtools.egg-info/top_level.txt
openmmtools/data/T4-lysozyme-L99A-implicit/complex-min.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/complex-minimized.crd
openmmtools/data/T4-lysozyme-L99A-implicit/complex-testenergy.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/complex.crd
openmmtools/data/T4-lysozyme-L99A-implicit/complex.pdb
openmmtools/data/T4-lysozyme-L99A-implicit/complex.prmtop
openmmtools/data/T4-lysozyme-L99A-implicit/leap.log
openmmtools/data/T4-lysozyme-L99A-implicit/ligand-min.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/ligand-minimized.crd
openmmtools/data/T4-lysozyme-L99A-implicit/ligand-testenergy.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.crd
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.frcmod
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.mol2
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.pdb
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.prmtop
openmmtools/data/T4-lysozyme-L99A-implicit/ligand.tripos.mol2
openmmtools/data/T4-lysozyme-L99A-implicit/mdinfo
openmmtools/data/T4-lysozyme-L99A-implicit/min.sander.in
openmmtools/data/T4-lysozyme-L99A-implicit/receptor-min.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/receptor-minimized.crd
openmmtools/data/T4-lysozyme-L99A-implicit/receptor-testenergy.sander.out
openmmtools/data/T4-lysozyme-L99A-implicit/receptor.crd
openmmtools/data/T4-lysozyme-L99A-implicit/receptor.pdb
openmmtools/data/T4-lysozyme-L99A-implicit/receptor.prmtop
openmmtools/data/T4-lysozyme-L99A-implicit/setup.leap.in
openmmtools/data/T4-lysozyme-L99A-implicit/setup.leap.out
openmmtools/data/T4-lysozyme-L99A-implicit/testenergy.sander.in
openmmtools/data/alanine-dipeptide-explicit/alanine-dipeptide.crd
openmmtools/data/alanine-dipeptide-explicit/alanine-dipeptide.pdb
openmmtools/data/alanine-dipeptide-explicit/alanine-dipeptide.prmtop
openmmtools/data/alanine-dipeptide-explicit/generate-pdb.py
openmmtools/data/alanine-dipeptide-explicit/leap.log
openmmtools/data/alanine-dipeptide-explicit/run.sh
openmmtools/data/alanine-dipeptide-explicit/setup.leap.in
openmmtools/data/alanine-dipeptide-gbsa/README
openmmtools/data/alanine-dipeptide-gbsa/alanine-dipeptide.crd
openmmtools/data/alanine-dipeptide-gbsa/alanine-dipeptide.pdb
openmmtools/data/alanine-dipeptide-gbsa/alanine-dipeptide.prmtop
openmmtools/data/alanine-dipeptide-gbsa/leap.log
openmmtools/data/alanine-dipeptide-gbsa/run.sh
openmmtools/data/alanine-dipeptide-gbsa/setup.leap.in
openmmtools/data/amoeba/1AP4_14_wat.pdb
openmmtools/data/amoeba/ion-in-water.pdb
openmmtools/data/benzene-toluene-implicit/benzene.frcmod
openmmtools/data/benzene-toluene-implicit/benzene.gaff.mol2
openmmtools/data/benzene-toluene-implicit/complex.inpcrd
openmmtools/data/benzene-toluene-implicit/complex.pdb
openmmtools/data/benzene-toluene-implicit/complex.prmtop
openmmtools/data/benzene-toluene-implicit/generate-molecules.py
openmmtools/data/benzene-toluene-implicit/receptor.inpcrd
openmmtools/data/benzene-toluene-implicit/receptor.pdb
openmmtools/data/benzene-toluene-implicit/receptor.prmtop
openmmtools/data/benzene-toluene-implicit/setup.leap.in
openmmtools/data/benzene-toluene-implicit/setup.sh
openmmtools/data/benzene-toluene-implicit/solvent.inpcrd
openmmtools/data/benzene-toluene-implicit/solvent.pdb
openmmtools/data/benzene-toluene-implicit/solvent.prmtop
openmmtools/data/cb7-b2/README.md
openmmtools/data/cb7-b2/b2_am1-bcc.frcmod
openmmtools/data/cb7-b2/b2_am1-bcc.mol2
openmmtools/data/cb7-b2/b2_tripos.mol2
openmmtools/data/cb7-b2/cb7_am1-bcc.frcmod
openmmtools/data/cb7-b2/cb7_am1-bcc.mol2
openmmtools/data/cb7-b2/cb7_b2.pdb
openmmtools/data/cb7-b2/cb7_tripos.mol2
openmmtools/data/cb7-b2/complex-explicit.inpcrd
openmmtools/data/cb7-b2/complex-explicit.pdb
openmmtools/data/cb7-b2/complex-explicit.prmtop
openmmtools/data/cb7-b2/complex-vacuum.inpcrd
openmmtools/data/cb7-b2/complex-vacuum.pdb
openmmtools/data/cb7-b2/complex-vacuum.prmtop
openmmtools/data/cb7-b2/leap.log
openmmtools/data/cb7-b2/ligand.inpcrd
openmmtools/data/cb7-b2/ligand.pdb
openmmtools/data/cb7-b2/ligand.prmtop
openmmtools/data/cb7-b2/receptor.inpcrd
openmmtools/data/cb7-b2/receptor.pdb
openmmtools/data/cb7-b2/receptor.prmtop
openmmtools/data/cb7-b2/setup.leap.in
openmmtools/data/cb7-b2/setup.sh
openmmtools/data/cb7-b2/water.pdb
openmmtools/data/cb7-viologen/README.md
openmmtools/data/cb7-viologen/leap/CB7.frcmod
openmmtools/data/cb7-viologen/leap/CB7.gaff.mol2
openmmtools/data/cb7-viologen/leap/CB7.tripos.mol2
openmmtools/data/cb7-viologen/leap/complex-explicit.inpcrd
openmmtools/data/cb7-viologen/leap/complex-explicit.pdb
openmmtools/data/cb7-viologen/leap/complex-explicit.prmtop
openmmtools/data/cb7-viologen/leap/complex-vacuum.inpcrd
openmmtools/data/cb7-viologen/leap/complex-vacuum.pdb
openmmtools/data/cb7-viologen/leap/complex-vacuum.prmtop
openmmtools/data/cb7-viologen/leap/complex.inpcrd
openmmtools/data/cb7-viologen/leap/leap.log
openmmtools/data/cb7-viologen/leap/ligand.inpcrd
openmmtools/data/cb7-viologen/leap/ligand.pdb
openmmtools/data/cb7-viologen/leap/ligand.prmtop
openmmtools/data/cb7-viologen/leap/receptor.inpcrd
openmmtools/data/cb7-viologen/leap/receptor.pdb
openmmtools/data/cb7-viologen/leap/receptor.prmtop
openmmtools/data/cb7-viologen/leap/setup.leap.in
openmmtools/data/cb7-viologen/leap/setup.sh
openmmtools/data/cb7-viologen/leap/solvent.inpcrd
openmmtools/data/cb7-viologen/leap/vacuum.inpcrd
openmmtools/data/cb7-viologen/leap/viologen.frcmod
openmmtools/data/cb7-viologen/leap/viologen.gaff.mol2
openmmtools/data/cb7-viologen/leap/viologen.tripos.mol2
openmmtools/data/cb7-viologen/molecules/CB7.tripos.mol2
openmmtools/data/cb7-viologen/molecules/README.md
openmmtools/data/cb7-viologen/molecules/create-viologen.py
openmmtools/data/cb7-viologen/molecules/viologen.tripos.mol2
openmmtools/data/cb7-viologen/references/kaifer-viologen-association.pdf
openmmtools/data/dhfr/README.md
openmmtools/data/dhfr/inpcrd
openmmtools/data/dhfr/prmtop
openmmtools/data/dhfr/system.pdb
openmmtools/data/dna_dodecamer_explicit/4c64_no_mg.pdb
openmmtools/data/dna_dodecamer_explicit/README.md
openmmtools/data/dna_dodecamer_explicit/inpcrd
openmmtools/data/dna_dodecamer_explicit/leap.in
openmmtools/data/dna_dodecamer_explicit/minimize.py
openmmtools/data/dna_dodecamer_explicit/minimized_dna_dodecamer.pdb
openmmtools/data/dna_dodecamer_explicit/prmtop
openmmtools/data/methanol-box/README
openmmtools/data/methanol-box/methanol-box.crd
openmmtools/data/methanol-box/methanol-box.pdb
openmmtools/data/methanol-box/methanol-box.prmtop
openmmtools/data/src-explicit/1yi6-minimized.pdb
openmmtools/data/src-explicit/1yi6-pdbfixer.pdb
openmmtools/data/src-explicit/README.md
openmmtools/data/src-explicit/integrator.xml
openmmtools/data/src-explicit/prepare_pdb.py
openmmtools/data/src-explicit/state.xml
openmmtools/data/src-explicit/system.xml
openmmtools/data/src-implicit/1yi6-minimized.pdb
openmmtools/data/src-implicit/1yi6-pdbfixer.pdb
openmmtools/data/src-implicit/README.md
openmmtools/data/src-implicit/integrator.xml
openmmtools/data/src-implicit/prepare_pdb.py
openmmtools/data/src-implicit/state.xml
openmmtools/data/src-implicit/system.xml
openmmtools/data/trpzip2-explicit/README
openmmtools/data/trpzip2-explicit/trpzip2.crd
openmmtools/data/trpzip2-explicit/trpzip2.prmtop
openmmtools/data/waterbox/tip3p900.pdb
openmmtools/data/waterbox/watbox216.crd
openmmtools/data/waterbox/watbox216.pdb
openmmtools/data/waterbox/watbox216.prmtop
openmmtools/multistate/__init__.py
openmmtools/multistate/multistateanalyzer.py
openmmtools/multistate/multistatereporter.py
openmmtools/multistate/multistatesampler.py
openmmtools/multistate/paralleltempering.py
openmmtools/multistate/replicaexchange.py
openmmtools/multistate/sams.py
openmmtools/multistate/utils.py
openmmtools/multistate/mixing/__init__.py
openmmtools/multistate/mixing/_mix_replicas.c
openmmtools/multistate/mixing/_mix_replicas.pyx
openmmtools/multistate/mixing/_mix_replicas_old.py
openmmtools/scripts/__init__.py
openmmtools/scripts/test_openmm_platforms.py
openmmtools/storage/__init__.py
openmmtools/storage/iodrivers.py
openmmtools/storage/storageinterface.py
openmmtools/tests/test_alchemy.py
openmmtools/tests/test_cache.py
openmmtools/tests/test_forcefactories.py
openmmtools/tests/test_forces.py
openmmtools/tests/test_integrators.py
openmmtools/tests/test_integrators_and_testsystems.py
openmmtools/tests/test_mcmc.py
openmmtools/tests/test_mixing.py
openmmtools/tests/test_platforms.py
openmmtools/tests/test_sampling.py
openmmtools/tests/test_states.py
openmmtools/tests/test_storage_interface.py
openmmtools/tests/test_storage_iodrivers.py
openmmtools/tests/test_testsystems.py
openmmtools/tests/test_utils.py