diff --git a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized index 60d33aa351..4998ea7d9d 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized +++ b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized @@ -44,6 +44,7 @@ thermo 50 fix myrxns all bond/react stabilization yes statted_grp .03 & react rxn1 all 1 0.0 2.9 mol1 mol2 rxn1_stp1_map & react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map + react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map rescale_charges yes fix 1 statted_grp_REACT nvt temp 300 300 100 diff --git a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized_variable_probability b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized_variable_probability index 770f4fc3b1..4b268cf0d9 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized_variable_probability +++ b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.stabilized_variable_probability @@ -47,7 +47,7 @@ thermo 50 fix myrxns all bond/react stabilization yes statted_grp .03 & react rxn1 all 1 0.0 5.0 mol1 mol2 rxn1_stp1_map prob v_prob1 1234 & - react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map prob v_prob2 1234 + react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map prob v_prob2 1234 rescale_charges yes fix 1 statted_grp_REACT nvt temp 300 300 100 diff --git a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.unstabilized b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.unstabilized index 4ade3f8b99..3ecf552174 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.unstabilized +++ b/examples/PACKAGES/reaction/tiny_nylon/in.tiny_nylon.unstabilized @@ -44,7 +44,7 @@ thermo 50 fix myrxns all bond/react stabilization no & react rxn1 all 1 0.0 2.9 mol1 mol2 rxn1_stp1_map & - react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map + react rxn2 all 1 0.0 5.0 mol3 mol4 rxn1_stp2_map rescale_charges yes fix 1 all nve/limit .03 diff --git a/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp1_reacted.molecule_template b/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp1_reacted.molecule_template index 40f3aa8276..594775b39c 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp1_reacted.molecule_template +++ b/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp1_reacted.molecule_template @@ -48,27 +48,6 @@ Types 17 hc 18 hc -Charges - - 1 -0.300000 - 2 0.000000 - 3 0.000000 - 4 0.000000 - 5 0.000000 - 6 0.000000 - 7 0.000000 - 8 0.000000 - 9 0.000000 - 10 0.300000 - 11 0.000000 - 12 0.000000 - 13 0.000000 - 14 0.000000 - 15 0.000000 - 16 0.000000 - 17 0.000000 - 18 0.000000 - Molecules 1 1 diff --git a/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp2_reacted.molecule_template b/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp2_reacted.molecule_template index 2e91261468..7e1a350d16 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp2_reacted.molecule_template +++ b/examples/PACKAGES/reaction/tiny_nylon/rxn1_stp2_reacted.molecule_template @@ -44,21 +44,21 @@ Types Charges - 1 -0.300000 - 2 0.000000 - 3 0.000000 - 4 0.410000 - 5 0.000000 - 6 0.000000 - 7 0.000000 - 8 0.000000 - 9 0.000000 - 10 0.300000 - 11 0.000000 - 12 -0.820000 - 13 0.000000 - 14 0.000000 - 15 0.410000 + 1 -0.60533 + 2 -0.01149 + 3 -0.76306 + 4 0.38 + 5 0.29346 + 6 0.18360 + 7 0.15396 + 8 -0.72636 + 9 -0.27437 + 10 0.40603 + 11 -0.65530 + 12 -0.76 + 13 0.21423 + 14 0.18949 + 15 0.38 Molecules diff --git a/examples/PACKAGES/reaction/tiny_nylon/tiny_nylon.data b/examples/PACKAGES/reaction/tiny_nylon/tiny_nylon.data index ee8e397956..73c776c430 100644 --- a/examples/PACKAGES/reaction/tiny_nylon/tiny_nylon.data +++ b/examples/PACKAGES/reaction/tiny_nylon/tiny_nylon.data @@ -1,15 +1,15 @@ -this is LAMMPS data file containing two nylon monomers +LAMMPS data file via write_data, version 27 Jun 2024, timestep = 0, units = real 44 atoms 11 atom types 42 bonds -15 bond types +13 bond types 74 angles -29 angle types +26 angle types 100 dihedrals -36 dihedral types -44 impropers -13 improper types +33 dihedral types +16 impropers +5 improper types -25 25 xlo xhi -25 25 ylo yhi @@ -17,15 +17,15 @@ this is LAMMPS data file containing two nylon monomers Atom Type Labels -1 c2 -2 c_1 -3 o -4 hc -5 ho -6 o_1 -7 na -8 hn -9 n +1 c2 +2 c_1 +3 o +4 hc +5 ho +6 o_1 +7 na +8 hn +9 n 10 hw 11 o* @@ -37,102 +37,86 @@ Bond Type Labels 4 c2-c_1 5 c_1-o_1 6 o-ho -7 c2-c2-repeat -8 c2-hc-repeat -9 na-c2 -10 na-hn -11 n-c2 -12 n-hn -13 n-c_1 -14 c2-na -15 hw-o* +7 na-c2 +8 na-hn +9 n-c2 +10 n-hn +11 n-c_1 +12 c2-na +13 hw-o* Angle Type Labels -1 hc-c2-hc -2 c2-c2-hc -3 c2-c2-c2 -4 c2-c_1-o_1 -5 o-c_1-o_1 -6 c2-c_1-o -7 c_1-o-ho -8 c2-c2-c_1 -9 c_1-c2-hc -10 c2-c2-hc-repeat -11 c2-c2-c2-repeat -12 hc-c2-hc-repeat -13 c2-c2-na -14 na-c2-hc -15 c2-na-hn -16 hn-na-hn -17 c2-n-hn -18 c2-n-c_1 -19 hn-n-hn -20 hn-n-c_1 -21 n-c2-c2 -22 n-c2-hc -23 hc-c2-c_1 -24 n-c_1-c2 -25 o_1-c_1-o -26 n-c_1-o_1 -27 n-c_1-o -28 na-c2-c2 -29 hw-o*-hw +1 hc-c2-hc +2 c2-c2-hc +3 c2-c2-c2 +4 c2-c_1-o_1 +5 o-c_1-o_1 +6 c2-c_1-o +7 c_1-o-ho +8 c2-c2-c_1 +9 c_1-c2-hc +10 c2-c2-na +11 na-c2-hc +12 c2-na-hn +13 hn-na-hn +14 c2-n-hn +15 c2-n-c_1 +16 hn-n-hn +17 hn-n-c_1 +18 n-c2-c2 +19 n-c2-hc +20 hc-c2-c_1 +21 n-c_1-c2 +22 o_1-c_1-o +23 n-c_1-o_1 +24 n-c_1-o +25 na-c2-c2 +26 hw-o*-hw Dihedral Type Labels -1 c_1-c2-c2-hc -2 hc-c2-c2-hc -3 c2-c2-c2-c_1 -4 c2-c2-c2-hc -5 c2-c2-c2-c2 -6 c2-c_1-o-ho -7 o_1-c_1-o-ho -8 c2-c2-c_1-o -9 hc-c2-c_1-o +1 c_1-c2-c2-hc +2 hc-c2-c2-hc +3 c2-c2-c2-c_1 +4 c2-c2-c2-hc +5 c2-c2-c2-c2 +6 c2-c_1-o-ho +7 o_1-c_1-o-ho +8 c2-c2-c_1-o +9 hc-c2-c_1-o 10 c2-c2-c_1-o_1 11 hc-c2-c_1-o_1 12 na-c2-c2-hc -13 hc-c2-c2-hc-repeat -14 c2-c2-c2-na -15 c2-c2-c2-hc-repeat -16 c2-c2-c2-c2-repeat -17 c2-c2-na-hn -18 hn-na-c2-hc -19 hn-n-c2-c2 -20 hn-n-c2-hc -21 c_1-n-c2-c2 -22 c_1-n-c2-hc -23 c2-n-c_1-c2 -24 c2-n-c_1-o_1 -25 c2-n-c_1-o -26 hn-n-c_1-c2 -27 hn-n-c_1-o_1 -28 hn-n-c_1-o -29 n-c2-c2-c2 -30 n-c2-c2-hc -31 c2-c2-c_1-n -32 hc-c2-c_1-n -33 n-c_1-o-ho -34 hn-na-c2-c2 -35 hc-c2-na-hn -36 na-c2-c2-c2 +13 c2-c2-c2-na +14 c2-c2-na-hn +15 hn-na-c2-hc +16 hn-n-c2-c2 +17 hn-n-c2-hc +18 c_1-n-c2-c2 +19 c_1-n-c2-hc +20 c2-n-c_1-c2 +21 c2-n-c_1-o_1 +22 c2-n-c_1-o +23 hn-n-c_1-c2 +24 hn-n-c_1-o_1 +25 hn-n-c_1-o +26 n-c2-c2-c2 +27 n-c2-c2-hc +28 c2-c2-c_1-n +29 hc-c2-c_1-n +30 n-c_1-o-ho +31 hn-na-c2-c2 +32 hc-c2-na-hn +33 na-c2-c2-c2 Improper Type Labels -1 c2-c_1-o-o_1 -2 c2-na-hn-hn -3 c2-c_1-o_1-o -4 c2-n-hn-c_1 -5 zero5 -6 zero6 -7 zero7 -8 zero8 -9 zero9 -10 zero10 -11 zero11 -12 zero12 -13 n-c_1-c2-o_1 +1 c2-c_1-o-o_1 +2 c2-na-hn-hn +3 c2-c_1-o_1-o +4 c2-n-hn-c_1 +5 n-c_1-c2-o_1 Masses @@ -148,7 +132,7 @@ Masses 10 1.00797 11 15.9994 -Pair Coeffs # lj/class2/coul/cut +Pair Coeffs # lj/class2/coul/long 1 0.054 4.01 2 0.12 3.81 @@ -170,15 +154,13 @@ Bond Coeffs # class2 4 1.5202 253.707 -423.037 396.9 5 1.202 851.14 -1918.49 2160.77 6 0.965 532.506 -1282.9 2004.77 -7 1.53 299.67 -501.77 679.81 -8 1.101 345 -691.89 844.6 -9 1.457 365.805 -699.637 998.484 -10 1.006 466.74 -1073.6 1251.11 -11 1.452 327.166 -547.899 526.5 -12 1.01 462.75 -1053.63 1545.76 -13 1.416 359.159 -558.473 1146.38 -14 1.457 365.805 -699.637 998.484 -15 0.97 563.28 -1428.22 1902.12 +7 1.457 365.805 -699.637 998.484 +8 1.006 466.74 -1073.6 1251.11 +9 1.452 327.166 -547.899 526.5 +10 1.01 462.75 -1053.63 1545.76 +11 1.416 359.159 -558.473 1146.38 +12 1.457 365.805 -699.637 998.484 +13 0.97 563.28 -1428.22 1902.12 Angle Coeffs # class2 @@ -191,26 +173,23 @@ Angle Coeffs # class2 7 111.254 53.5303 -11.8454 -11.5405 8 108.53 51.9747 -9.4851 -10.9985 9 107.734 40.6099 -28.8121 0 -10 110.77 41.453 -10.604 5.129 -11 112.67 39.516 -7.443 -9.5583 -12 107.66 39.641 -12.921 -2.4318 -13 111.91 60.7147 -13.3366 -13.0785 -14 110.62 51.3137 -6.7198 -2.6003 -15 110.954 50.8652 -4.4522 -10.0298 -16 107.067 45.252 -7.5558 -9.512 -17 113.868 45.9271 -20.0824 0 -18 111.037 31.8958 -6.6942 -6.837 -19 116.94 37.5749 -8.6676 0 -20 117.961 37.4964 -8.1837 0 -21 114.302 42.6589 -10.5464 -9.3243 -22 108.937 57.401 2.9374 0 -23 107.734 40.6099 -28.8121 0 -24 116.926 39.4193 -10.9945 -8.7733 -25 118.986 98.6813 -22.2485 10.3673 -26 125.542 92.572 -34.48 -11.1871 -27 125.542 92.572 -34.48 -11.1871 -28 111.91 60.7147 -13.3366 -13.0785 -29 103.7 49.84 -11.6 -8 +10 111.91 60.7147 -13.3366 -13.0785 +11 110.62 51.3137 -6.7198 -2.6003 +12 110.954 50.8652 -4.4522 -10.0298 +13 107.067 45.252 -7.5558 -9.512 +14 113.868 45.9271 -20.0824 0 +15 111.037 31.8958 -6.6942 -6.837 +16 116.94 37.5749 -8.6676 0 +17 117.961 37.4964 -8.1837 0 +18 114.302 42.6589 -10.5464 -9.3243 +19 108.937 57.401 2.9374 0 +20 107.734 40.6099 -28.8121 0 +21 116.926 39.4193 -10.9945 -8.7733 +22 118.986 98.6813 -22.2485 10.3673 +23 125.542 92.572 -34.48 -11.1871 +24 125.542 92.572 -34.48 -11.1871 +25 111.91 60.7147 -13.3366 -13.0785 +26 103.7 49.84 -11.6 -8 BondBond Coeffs @@ -223,26 +202,23 @@ BondBond Coeffs 7 0 1.3649 0.965 8 5.4199 1.53 1.5202 9 0.7115 1.5202 1.101 -10 3.3872 1.53 1.101 -11 0 1.53 1.53 -12 5.3316 1.101 1.101 -13 4.6217 1.53 1.457 -14 12.426 1.457 1.101 -15 -6.4168 1.457 1.006 -16 -1.8749 1.006 1.006 -17 -3.471 1.452 1.01 -18 12.1186 1.452 1.416 -19 -0.5655 1.01 1.01 -20 -4.3126 1.01 1.416 -21 3.5446 1.452 1.53 -22 15.2994 1.452 1.101 -23 0.7115 1.101 1.5202 -24 0 1.416 1.5202 -25 0 1.202 1.3649 -26 138.495 1.416 1.202 -27 0 1.416 1.3649 -28 4.6217 1.457 1.53 -29 -9.5 0.97 0.97 +10 4.6217 1.53 1.457 +11 12.426 1.457 1.101 +12 -6.4168 1.457 1.006 +13 -1.8749 1.006 1.006 +14 -3.471 1.452 1.01 +15 12.1186 1.452 1.416 +16 -0.5655 1.01 1.01 +17 -4.3126 1.01 1.416 +18 3.5446 1.452 1.53 +19 15.2994 1.452 1.101 +20 0.7115 1.101 1.5202 +21 0 1.416 1.5202 +22 0 1.202 1.3649 +23 138.495 1.416 1.202 +24 0 1.416 1.3649 +25 4.6217 1.457 1.53 +26 -9.5 0.97 0.97 BondAngle Coeffs @@ -255,26 +231,23 @@ BondAngle Coeffs 7 0 0 1.3649 0.965 8 18.1678 15.8758 1.53 1.5202 9 12.4632 9.1765 1.5202 1.101 -10 20.754 11.421 1.53 1.101 -11 8.016 8.016 1.53 1.53 -12 18.103 18.103 1.101 1.101 -13 6.0876 16.5702 1.53 1.457 -14 42.4332 13.4582 1.457 1.101 -15 31.8096 20.5799 1.457 1.006 -16 28.0322 28.0322 1.006 1.006 -17 11.8828 5.9339 1.452 1.01 -18 3.7812 14.8633 1.452 1.416 -19 19.8125 19.8125 1.01 1.01 -20 10.8422 29.5743 1.01 1.416 -21 4.6031 -5.479 1.452 1.53 -22 34.8907 10.6917 1.452 1.101 -23 9.1765 12.4632 1.101 1.5202 -24 0 0 1.416 1.5202 -25 0 0 1.202 1.3649 -26 62.7124 52.4045 1.416 1.202 -27 0 0 1.416 1.3649 -28 16.5702 6.0876 1.457 1.53 -29 22.35 22.35 0.97 0.97 +10 6.0876 16.5702 1.53 1.457 +11 42.4332 13.4582 1.457 1.101 +12 31.8096 20.5799 1.457 1.006 +13 28.0322 28.0322 1.006 1.006 +14 11.8828 5.9339 1.452 1.01 +15 3.7812 14.8633 1.452 1.416 +16 19.8125 19.8125 1.01 1.01 +17 10.8422 29.5743 1.01 1.416 +18 4.6031 -5.479 1.452 1.53 +19 34.8907 10.6917 1.452 1.101 +20 9.1765 12.4632 1.101 1.5202 +21 0 0 1.416 1.5202 +22 0 0 1.202 1.3649 +23 62.7124 52.4045 1.416 1.202 +24 0 0 1.416 1.3649 +25 16.5702 6.0876 1.457 1.53 +26 22.35 22.35 0.97 0.97 Dihedral Coeffs # class2 @@ -290,30 +263,27 @@ Dihedral Coeffs # class2 10 0.0442 0 0.0292 0 0.0562 0 11 -0.1804 0 0.0012 0 0.0371 0 12 -0.2428 0 0.4065 0 -0.3079 0 -13 -0.1432 0 0.0617 0 -0.1083 0 -14 0.1764 0 0.1766 0 -0.5206 0 -15 0 0 0.0316 0 -0.1681 0 -16 0 0 0.0514 0 -0.143 0 -17 -1.1506 0 -0.6344 0 -0.1845 0 -18 -0.5187 0 -0.4837 0 -0.1692 0 -19 -0.0483 0 -0.0077 0 -0.0014 0 -20 -0.0148 0 -0.0791 0 -0.0148 0 -21 0.0143 0 -0.0132 0 0.0091 0 -22 0.0219 0 -0.026 0 0.0714 0 -23 -0.7532 0 2.7392 0 0.0907 0 -24 0.8297 0 3.7234 0 -0.0495 0 +13 0.1764 0 0.1766 0 -0.5206 0 +14 -1.1506 0 -0.6344 0 -0.1845 0 +15 -0.5187 0 -0.4837 0 -0.1692 0 +16 -0.0483 0 -0.0077 0 -0.0014 0 +17 -0.0148 0 -0.0791 0 -0.0148 0 +18 0.0143 0 -0.0132 0 0.0091 0 +19 0.0219 0 -0.026 0 0.0714 0 +20 -0.7532 0 2.7392 0 0.0907 0 +21 0.8297 0 3.7234 0 -0.0495 0 +22 0 0 0 0 0 0 +23 0 0 0 0 0 0 +24 -1.6938 0 2.7386 0 -0.336 0 25 0 0 0 0 0 0 -26 0 0 0 0 0 0 -27 -1.6938 0 2.7386 0 -0.336 0 -28 0 0 0 0 0 0 -29 0.0972 0 0.0722 0 -0.2581 0 -30 -0.0228 0 0.028 0 -0.1863 0 -31 0.1693 0 -0.009 0 -0.0687 0 -32 0.1693 0 -0.009 0 -0.0687 0 -33 0 0 0 0 0 0 -34 -1.1506 0 -0.6344 0 -0.1845 0 -35 -0.5187 0 -0.4837 0 -0.1692 0 -36 0.1764 0 0.1766 0 -0.5206 0 +26 0.0972 0 0.0722 0 -0.2581 0 +27 -0.0228 0 0.028 0 -0.1863 0 +28 0.1693 0 -0.009 0 -0.0687 0 +29 0.1693 0 -0.009 0 -0.0687 0 +30 0 0 0 0 0 0 +31 -1.1506 0 -0.6344 0 -0.1845 0 +32 -0.5187 0 -0.4837 0 -0.1692 0 +33 0.1764 0 0.1766 0 -0.5206 0 AngleAngleTorsion Coeffs @@ -329,30 +299,27 @@ AngleAngleTorsion Coeffs 10 -8.019 108.53 123.145 11 -15.3496 107.734 123.145 12 -15.7572 111.91 110.77 -13 -12.564 110.77 110.77 -14 -27.3953 112.67 111.91 -15 -16.164 112.67 110.77 -16 -22.045 112.67 112.67 -17 -7.5499 111.91 110.954 -18 -10.4258 110.62 110.954 -19 -4.6337 113.868 114.302 -20 -6.659 113.868 108.937 -21 -7.4314 111.037 114.302 -22 -8.1335 111.037 108.937 -23 -6.5335 111.037 116.926 -24 -15.5547 111.037 125.542 -25 0 111.037 0 -26 -1.3234 117.961 116.926 -27 -7.3186 117.961 125.542 -28 0 117.961 0 -29 -1.0631 114.302 112.67 -30 -12.7974 114.302 110.77 -31 -5.4514 108.53 116.926 -32 -12.2417 107.734 116.926 -33 0 0 111.254 -34 -7.5499 110.954 111.91 -35 -10.4258 110.954 110.62 -36 -27.3953 111.91 112.67 +13 -27.3953 112.67 111.91 +14 -7.5499 111.91 110.954 +15 -10.4258 110.62 110.954 +16 -4.6337 113.868 114.302 +17 -6.659 113.868 108.937 +18 -7.4314 111.037 114.302 +19 -8.1335 111.037 108.937 +20 -6.5335 111.037 116.926 +21 -15.5547 111.037 125.542 +22 0 111.037 0 +23 -1.3234 117.961 116.926 +24 -7.3186 117.961 125.542 +25 0 117.961 0 +26 -1.0631 114.302 112.67 +27 -12.7974 114.302 110.77 +28 -5.4514 108.53 116.926 +29 -12.2417 107.734 116.926 +30 0 0 111.254 +31 -7.5499 110.954 111.91 +32 -10.4258 110.954 110.62 +33 -27.3953 111.91 112.67 EndBondTorsion Coeffs @@ -368,30 +335,27 @@ EndBondTorsion Coeffs 10 0.2654 0.0503 0.1046 -0.281 0.0816 -0.1522 1.53 1.202 11 1.2143 0.2831 0.3916 -0.2298 0.0354 0.3853 1.101 1.202 12 0.1022 0.209 0.6433 0.196 0.7056 0.112 1.457 1.101 -13 0.213 0.312 0.0777 0.213 0.312 0.0777 1.101 1.101 -14 0.1032 0.5896 -0.4836 0.0579 -0.0043 -0.1906 1.53 1.457 -15 0.2486 0.2422 -0.0925 0.0814 0.0591 0.2219 1.53 1.101 -16 -0.0732 0 0 -0.0732 0 0 1.53 1.53 -17 -0.9466 0.9356 -0.5542 0.057 0.0625 0.4112 1.53 1.006 -18 -1.1685 0.9266 -0.0993 0.085 0.3061 0.2104 1.101 1.006 -19 -0.0992 -0.0727 -0.4139 0.132 0.0015 0.1324 1.01 1.53 -20 -0.4894 0.1644 0.3105 -0.8983 0.2826 0.0881 1.01 1.101 -21 -0.1245 -0.9369 0.7781 -0.2033 0.0035 0.056 1.416 1.53 -22 0.2292 1.1732 -0.058 -0.3667 0.8197 0.1335 1.416 1.101 -23 0.2299 -0.1141 -0.1424 0.0933 -0.4631 0.2883 1.452 1.5202 -24 0.1598 0.7253 -0.1007 0.1226 -2.1326 0.5581 1.452 1.202 -25 0 0 0 0 0 0 1.452 1.3649 -26 0.6413 0.1676 0.144 -0.6979 0.5619 0.4212 1.01 1.5202 -27 0.1214 0.1936 0.0816 -0.7604 -2.6431 1.2467 1.01 1.202 -28 0 0 0 0 0 0 1.01 1.3649 -29 -0.0797 -0.0406 0.0255 0.0742 0.0105 0.0518 1.452 1.53 -30 0.3022 0.2513 0.4641 -0.0601 -0.3763 -0.1876 1.452 1.101 -31 -0.2631 -0.0076 -0.1145 -0.2751 -0.3058 -0.1767 1.53 1.416 -32 -0.0268 0.7836 0.0035 0.3552 -0.2685 0.5834 1.101 1.416 -33 0 0 0 0 0 0 1.416 0.965 -34 0.057 0.0625 0.4112 -0.9466 0.9356 -0.5542 1.006 1.53 -35 0.085 0.3061 0.2104 -1.1685 0.9266 -0.0993 1.006 1.101 -36 0.0579 -0.0043 -0.1906 0.1032 0.5896 -0.4836 1.457 1.53 +13 0.1032 0.5896 -0.4836 0.0579 -0.0043 -0.1906 1.53 1.457 +14 -0.9466 0.9356 -0.5542 0.057 0.0625 0.4112 1.53 1.006 +15 -1.1685 0.9266 -0.0993 0.085 0.3061 0.2104 1.101 1.006 +16 -0.0992 -0.0727 -0.4139 0.132 0.0015 0.1324 1.01 1.53 +17 -0.4894 0.1644 0.3105 -0.8983 0.2826 0.0881 1.01 1.101 +18 -0.1245 -0.9369 0.7781 -0.2033 0.0035 0.056 1.416 1.53 +19 0.2292 1.1732 -0.058 -0.3667 0.8197 0.1335 1.416 1.101 +20 0.2299 -0.1141 -0.1424 0.0933 -0.4631 0.2883 1.452 1.5202 +21 0.1598 0.7253 -0.1007 0.1226 -2.1326 0.5581 1.452 1.202 +22 0 0 0 0 0 0 1.452 1.3649 +23 0.6413 0.1676 0.144 -0.6979 0.5619 0.4212 1.01 1.5202 +24 0.1214 0.1936 0.0816 -0.7604 -2.6431 1.2467 1.01 1.202 +25 0 0 0 0 0 0 1.01 1.3649 +26 -0.0797 -0.0406 0.0255 0.0742 0.0105 0.0518 1.452 1.53 +27 0.3022 0.2513 0.4641 -0.0601 -0.3763 -0.1876 1.452 1.101 +28 -0.2631 -0.0076 -0.1145 -0.2751 -0.3058 -0.1767 1.53 1.416 +29 -0.0268 0.7836 0.0035 0.3552 -0.2685 0.5834 1.101 1.416 +30 0 0 0 0 0 0 1.416 0.965 +31 0.057 0.0625 0.4112 -0.9466 0.9356 -0.5542 1.006 1.53 +32 0.085 0.3061 0.2104 -1.1685 0.9266 -0.0993 1.006 1.101 +33 0.0579 -0.0043 -0.1906 0.1032 0.5896 -0.4836 1.457 1.53 MiddleBondTorsion Coeffs @@ -407,30 +371,27 @@ MiddleBondTorsion Coeffs 10 0.3388 -0.1096 0.1219 1.5202 11 0.2359 0.9139 0.9594 1.5202 12 -10.4959 -0.7647 -0.0545 1.53 -13 -14.261 -0.5322 -0.4864 1.53 -14 -15.4174 -7.3055 -1.0749 1.53 -15 -14.879 -3.6581 -0.3138 1.53 -16 -17.787 -7.1877 0 1.53 -17 -2.2208 0.5479 -0.3527 1.457 -18 -3.4611 1.6996 -0.6007 1.457 -19 -3.5406 -3.3866 0.0352 1.452 -20 -1.1752 2.8058 0.8083 1.452 -21 -3.9501 -0.4002 -0.6798 1.452 -22 -0.6899 -2.2646 1.1579 1.452 +13 -15.4174 -7.3055 -1.0749 1.53 +14 -2.2208 0.5479 -0.3527 1.457 +15 -3.4611 1.6996 -0.6007 1.457 +16 -3.5406 -3.3866 0.0352 1.452 +17 -1.1752 2.8058 0.8083 1.452 +18 -3.9501 -0.4002 -0.6798 1.452 +19 -0.6899 -2.2646 1.1579 1.452 +20 0 0 0 1.416 +21 -8.8301 14.3079 -1.7716 1.416 +22 0 0 0 1.416 23 0 0 0 1.416 -24 -8.8301 14.3079 -1.7716 1.416 +24 -0.9084 6.1447 -0.4852 1.416 25 0 0 0 1.416 -26 0 0 0 1.416 -27 -0.9084 6.1447 -0.4852 1.416 -28 0 0 0 1.416 -29 -4.2324 -3.3023 -1.3244 1.53 -30 -4.1028 -0.5941 -0.047 1.53 -31 0 0 0 1.5202 -32 0 0 0 1.5202 -33 0 0 0 1.3649 -34 -2.2208 0.5479 -0.3527 1.457 -35 -3.4611 1.6996 -0.6007 1.457 -36 -15.4174 -7.3055 -1.0749 1.53 +26 -4.2324 -3.3023 -1.3244 1.53 +27 -4.1028 -0.5941 -0.047 1.53 +28 0 0 0 1.5202 +29 0 0 0 1.5202 +30 0 0 0 1.3649 +31 -2.2208 0.5479 -0.3527 1.457 +32 -3.4611 1.6996 -0.6007 1.457 +33 -15.4174 -7.3055 -1.0749 1.53 BondBond13 Coeffs @@ -446,30 +407,27 @@ BondBond13 Coeffs 10 0 1.53 1.202 11 0 1.101 1.202 12 0 1.457 1.101 -13 0 1.101 1.101 -14 0 1.53 1.457 -15 0 1.53 1.101 -16 0 1.53 1.53 -17 0 1.53 1.006 -18 0 1.101 1.006 -19 0 1.01 1.53 -20 0 1.01 1.101 -21 0 1.416 1.53 -22 0 1.416 1.101 -23 0 1.452 1.5202 -24 0 1.452 1.202 -25 0 1.452 1.3649 -26 0 1.01 1.5202 -27 0 1.01 1.202 -28 0 1.01 1.3649 -29 0 1.452 1.53 -30 0 1.452 1.101 -31 0 1.53 1.416 -32 0 1.101 1.416 -33 0 1.416 0.965 -34 0 1.006 1.53 -35 0 1.006 1.101 -36 0 1.457 1.53 +13 0 1.53 1.457 +14 0 1.53 1.006 +15 0 1.101 1.006 +16 0 1.01 1.53 +17 0 1.01 1.101 +18 0 1.416 1.53 +19 0 1.416 1.101 +20 0 1.452 1.5202 +21 0 1.452 1.202 +22 0 1.452 1.3649 +23 0 1.01 1.5202 +24 0 1.01 1.202 +25 0 1.01 1.3649 +26 0 1.452 1.53 +27 0 1.452 1.101 +28 0 1.53 1.416 +29 0 1.101 1.416 +30 0 1.416 0.965 +31 0 1.006 1.53 +32 0 1.006 1.101 +33 0 1.457 1.53 AngleTorsion Coeffs @@ -485,30 +443,27 @@ AngleTorsion Coeffs 10 0.0885 -1.3703 -0.5452 0.675 0.5965 0.6725 108.53 123.145 11 9.1299 -0.4847 0.3582 -1.4946 0.7308 -0.2083 107.734 123.145 12 -1.1075 0.282 0.8318 0.5111 1.6328 -1.0155 111.91 110.77 -13 -0.8085 0.5569 -0.2466 -0.8085 0.5569 -0.2466 110.77 110.77 -14 -1.9225 -1.345 0.221 2.0125 0.944 -2.7612 112.67 111.91 -15 -0.2454 0 -0.1136 0.3113 0.4516 -0.1988 112.67 110.77 -16 0.3886 -0.3139 0.1389 0.3886 -0.3139 0.1389 112.67 112.67 -17 -3.343 4.4558 -0.0346 0.2873 -0.8072 -0.096 111.91 110.954 -18 -3.9582 2.0063 0.3213 -0.4294 -0.4442 -0.6141 110.62 110.954 -19 -0.5807 0.2041 -0.1384 -2.8967 2.7084 -0.0375 113.868 114.302 -20 -0.3868 0.2041 0.0445 -3.7022 1.3876 0.2393 113.868 108.937 -21 -1.523 1.1296 0.7167 -0.7555 0.0564 1.2177 111.037 114.302 -22 0.0372 -0.3418 -0.0775 -1.5157 2.0781 0.5364 111.037 108.937 -23 5.916 1.7856 0.4052 4.2133 2.9302 3.2903 111.037 116.926 -24 7.4427 2.1505 -0.2206 4.4466 4.0317 1.7129 111.037 125.542 -25 0 0 0 0 0 0 111.037 0 -26 1.9306 0.2105 0.0557 -2.2134 1.2909 0.9726 117.961 116.926 -27 2.3848 0.703 0.1399 -2.6238 0.3606 0.5474 117.961 125.542 -28 0 0 0 0 0 0 117.961 0 -29 0.2039 0.1602 -0.7946 -0.5501 -1.6982 0.2485 114.302 112.67 -30 -1.982 0.2325 -0.3928 -1.2469 1.6933 -1.2081 114.302 110.77 -31 2.1802 -0.0335 -1.3816 2.1221 0.5032 -0.0767 108.53 116.926 -32 7.095 0.0075 0.691 2.0013 0.5068 0.8406 107.734 116.926 -33 0 0 0 0 0 0 0 111.254 -34 0.2873 -0.8072 -0.096 -3.343 4.4558 -0.0346 110.954 111.91 -35 -0.4294 -0.4442 -0.6141 -3.9582 2.0063 0.3213 110.954 110.62 -36 2.0125 0.944 -2.7612 -1.9225 -1.345 0.221 111.91 112.67 +13 -1.9225 -1.345 0.221 2.0125 0.944 -2.7612 112.67 111.91 +14 -3.343 4.4558 -0.0346 0.2873 -0.8072 -0.096 111.91 110.954 +15 -3.9582 2.0063 0.3213 -0.4294 -0.4442 -0.6141 110.62 110.954 +16 -0.5807 0.2041 -0.1384 -2.8967 2.7084 -0.0375 113.868 114.302 +17 -0.3868 0.2041 0.0445 -3.7022 1.3876 0.2393 113.868 108.937 +18 -1.523 1.1296 0.7167 -0.7555 0.0564 1.2177 111.037 114.302 +19 0.0372 -0.3418 -0.0775 -1.5157 2.0781 0.5364 111.037 108.937 +20 5.916 1.7856 0.4052 4.2133 2.9302 3.2903 111.037 116.926 +21 7.4427 2.1505 -0.2206 4.4466 4.0317 1.7129 111.037 125.542 +22 0 0 0 0 0 0 111.037 0 +23 1.9306 0.2105 0.0557 -2.2134 1.2909 0.9726 117.961 116.926 +24 2.3848 0.703 0.1399 -2.6238 0.3606 0.5474 117.961 125.542 +25 0 0 0 0 0 0 117.961 0 +26 0.2039 0.1602 -0.7946 -0.5501 -1.6982 0.2485 114.302 112.67 +27 -1.982 0.2325 -0.3928 -1.2469 1.6933 -1.2081 114.302 110.77 +28 2.1802 -0.0335 -1.3816 2.1221 0.5032 -0.0767 108.53 116.926 +29 7.095 0.0075 0.691 2.0013 0.5068 0.8406 107.734 116.926 +30 0 0 0 0 0 0 0 111.254 +31 0.2873 -0.8072 -0.096 -3.343 4.4558 -0.0346 110.954 111.91 +32 -0.4294 -0.4442 -0.6141 -3.9582 2.0063 0.3213 110.954 110.62 +33 2.0125 0.944 -2.7612 -1.9225 -1.345 0.221 111.91 112.67 Improper Coeffs # class2 @@ -516,15 +471,7 @@ Improper Coeffs # class2 2 0 0 3 0 0 4 0 0 -5 0 0 -6 0 0 -7 0 0 -8 0 0 -9 0 0 -10 0 0 -11 0 0 -12 0 0 -13 24.3329 0 +5 24.3329 0 AngleAngle Coeffs @@ -532,378 +479,342 @@ AngleAngle Coeffs 2 0.2738 -0.4825 0.2738 110.77 107.66 110.77 3 -1.3199 -1.3199 0.1184 112.67 110.77 110.77 4 2.0403 -1.8202 1.0827 108.53 107.734 110.77 -5 -3.3867 -3.4976 -3.3867 107.734 107.66 107.734 -6 0 0 0 110.954 107.067 110.954 -7 0.2738 -0.4825 0.2738 110.77 107.66 110.77 -8 -1.3199 -1.3199 0.1184 112.67 110.77 110.77 -9 -2.5301 0.5381 2.4286 111.91 110.62 110.77 -10 2.4321 -3.5496 2.4321 110.62 107.66 110.62 -11 0 0 0 123.145 118.985 0 -12 0 0 0 113.868 117.961 111.037 -13 0 0 0 116.926 123.145 125.542 +5 0 0 0 116.926 123.145 125.542 Atoms # full -1 1 1 0.0000000000000000e+00 12.288168 0.738732 4.374280 0 0 0 -2 1 2 2.9999999999999999e-01 13.959928 -0.883144 5.090597 0 0 0 -3 1 3 0.0000000000000000e+00 14.411288 -1.994419 5.682160 0 0 0 -4 1 4 0.0000000000000000e+00 12.881083 0.872503 3.506176 0 0 0 -5 1 4 0.0000000000000000e+00 11.232775 0.801641 3.998777 0 0 0 -6 1 5 0.0000000000000000e+00 13.704366 -2.470396 6.130105 0 0 0 -7 1 1 0.0000000000000000e+00 12.489752 -0.793693 4.710639 0 0 0 -8 1 1 0.0000000000000000e+00 12.455071 1.866388 5.385870 0 0 0 -9 1 1 0.0000000000000000e+00 11.248961 1.901849 6.347664 0 0 0 -10 1 2 2.9999999999999999e-01 10.005971 2.466710 5.772840 -1 1 0 -11 1 6 0.0000000000000000e+00 14.795360 -0.034436 4.807367 0 0 0 -12 1 6 0.0000000000000000e+00 9.115239 1.654547 5.617002 -1 0 0 -13 1 3 0.0000000000000000e+00 9.745096 3.807654 5.573585 -1 1 0 -14 1 4 0.0000000000000000e+00 12.248215 -1.371492 3.808598 0 0 0 -15 1 4 0.0000000000000000e+00 11.715755 -1.036825 5.500449 0 0 0 -16 1 4 0.0000000000000000e+00 12.559724 2.807687 4.858452 0 1 0 -17 1 4 0.0000000000000000e+00 13.299968 1.616570 6.123781 0 0 0 -18 1 4 0.0000000000000000e+00 11.650505 2.330454 7.282410 0 1 0 -19 1 4 0.0000000000000000e+00 10.888420 0.913219 6.637162 -1 0 0 -20 1 5 0.0000000000000000e+00 10.550073 4.294209 5.758192 -1 1 0 -21 2 1 0.0000000000000000e+00 5.851425 1.929552 6.038335 0 0 0 -22 2 1 0.0000000000000000e+00 6.741509 3.160751 6.233074 0 0 0 -23 2 7 -2.9999999999999999e-01 7.957761 3.121780 5.252257 1 0 0 -24 2 7 -2.9999999999999999e-01 2.599653 -2.258940 5.985863 0 -1 0 -25 2 1 0.0000000000000000e+00 3.834337 -1.907078 5.441528 0 -1 0 -26 2 1 0.0000000000000000e+00 4.810793 -1.083699 6.310184 0 -1 0 -27 2 4 0.0000000000000000e+00 6.505912 1.182799 5.449104 0 0 0 -28 2 4 0.0000000000000000e+00 5.156429 2.256468 5.348423 0 0 0 -29 2 4 0.0000000000000000e+00 7.232782 3.178785 7.181911 0 0 0 -30 2 4 0.0000000000000000e+00 6.251671 4.103621 6.222913 0 0 0 -31 2 8 0.0000000000000000e+00 8.249909 4.070668 4.881297 1 0 0 -32 2 8 0.0000000000000000e+00 7.813025 2.623184 4.400744 1 0 0 -33 2 8 0.0000000000000000e+00 2.626695 -2.857547 6.817247 0 -1 0 -34 2 8 0.0000000000000000e+00 1.955281 -2.684319 5.328460 0 -1 0 -35 2 4 0.0000000000000000e+00 3.637708 -1.322842 4.469265 0 -1 0 -36 2 4 0.0000000000000000e+00 4.415570 -2.739689 4.997336 0 -1 0 -37 2 4 0.0000000000000000e+00 5.710714 -1.010014 5.642798 0 -1 0 -38 2 4 0.0000000000000000e+00 5.103831 -1.696423 7.160345 0 -1 0 -39 2 1 0.0000000000000000e+00 5.270763 1.286629 7.308822 0 0 0 -40 2 4 0.0000000000000000e+00 4.834381 2.168531 7.931687 0 0 1 -41 2 4 0.0000000000000000e+00 6.118354 0.786724 7.794709 0 0 1 -42 2 1 0.0000000000000000e+00 4.273849 0.167695 6.957862 0 -1 0 -43 2 4 0.0000000000000000e+00 3.792544 -0.081782 7.904418 0 -1 1 -44 2 4 0.0000000000000000e+00 3.527495 0.674238 6.348869 0 0 0 +1 1 c2 -0.37128 12.288168 0.738732 4.37428 +2 1 c_1 0.77363 13.959928 -0.883144 5.090597 +3 1 o -0.68333 14.411288 -1.994419 5.68216 +4 1 hc 0.20049 12.881083 0.872503 3.506176 +5 1 hc 0.19609 11.232775 0.801641 3.998777 +6 1 ho 0.48328 13.704366 -2.470396 6.130105 +7 1 c2 -0.46692 12.489752 -0.793693 4.710639 +8 1 c2 -0.38182 12.455071 1.866388 5.38587 +9 1 c2 -0.47583 11.248961 1.901849 6.347664 +10 1 c_1 0.78608 10.005971 2.46671 5.77284 +11 1 o_1 -0.56991 14.79536 -0.034436 4.807367 +12 1 o_1 -0.58244 9.115239 1.654547 5.617002 +13 1 o -0.68598 9.745096 3.807654 5.573585 +14 1 hc 0.20664 12.248215 -1.371492 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8 9 19 +32 hc-c2-c2-hc 17 8 9 18 +33 hc-c2-c2-hc 17 8 9 19 +34 c_1-c2-c2-hc 10 9 8 16 +35 c_1-c2-c2-hc 10 9 8 17 +36 c2-c2-c_1-o_1 8 9 10 12 +37 c2-c2-c_1-o 8 9 10 13 +38 hc-c2-c_1-o_1 18 9 10 12 +39 hc-c2-c_1-o 18 9 10 13 +40 hc-c2-c_1-o_1 19 9 10 12 +41 hc-c2-c_1-o 19 9 10 13 +42 c2-c_1-o-ho 9 10 13 20 +43 o_1-c_1-o-ho 12 10 13 20 +44 hc-c2-c2-hc 27 21 22 29 +45 hc-c2-c2-hc 27 21 22 30 +46 hc-c2-c2-hc 28 21 22 29 +47 hc-c2-c2-hc 28 21 22 30 +48 c2-c2-c2-na 39 21 22 23 +49 c2-c2-c2-hc 39 21 22 29 +50 c2-c2-c2-hc 39 21 22 30 +51 c2-c2-c2-hc 22 21 39 40 +52 c2-c2-c2-hc 22 21 39 41 +53 c2-c2-c2-c2 22 21 39 42 +54 hc-c2-c2-hc 27 21 39 40 +55 hc-c2-c2-hc 27 21 39 41 +56 hc-c2-c2-hc 28 21 39 40 +57 hc-c2-c2-hc 28 21 39 41 +58 na-c2-c2-hc 23 22 21 27 +59 na-c2-c2-hc 23 22 21 28 +60 c2-c2-na-hn 21 22 23 31 +61 c2-c2-na-hn 21 22 23 32 +62 hn-na-c2-hc 29 22 23 31 +63 hn-na-c2-hc 29 22 23 32 +64 hn-na-c2-hc 30 22 23 31 +65 hn-na-c2-hc 30 22 23 32 +66 c2-c2-na-hn 26 25 24 33 +67 hn-na-c2-hc 35 25 24 33 +68 hn-na-c2-hc 36 25 24 33 +69 c2-c2-na-hn 26 25 24 34 +70 hn-na-c2-hc 35 25 24 34 +71 hn-na-c2-hc 36 25 24 34 +72 na-c2-c2-hc 24 25 26 37 +73 na-c2-c2-hc 24 25 26 38 +74 hc-c2-c2-hc 35 25 26 37 +75 hc-c2-c2-hc 35 25 26 38 +76 hc-c2-c2-hc 36 25 26 37 +77 hc-c2-c2-hc 36 25 26 38 +78 c2-c2-c2-na 42 26 25 24 +79 c2-c2-c2-hc 42 26 25 35 +80 c2-c2-c2-hc 42 26 25 36 +81 c2-c2-c2-c2 25 26 42 39 +82 c2-c2-c2-hc 25 26 42 43 +83 c2-c2-c2-hc 25 26 42 44 +84 hc-c2-c2-hc 37 26 42 43 +85 hc-c2-c2-hc 37 26 42 44 +86 hc-c2-c2-hc 38 26 42 43 +87 hc-c2-c2-hc 38 26 42 44 +88 c2-c2-c2-hc 42 39 21 27 +89 c2-c2-c2-hc 42 39 21 28 +90 c2-c2-c2-c2 21 39 42 26 +91 c2-c2-c2-hc 21 39 42 43 +92 c2-c2-c2-hc 21 39 42 44 +93 hc-c2-c2-hc 40 39 42 43 +94 hc-c2-c2-hc 40 39 42 44 +95 hc-c2-c2-hc 41 39 42 43 +96 hc-c2-c2-hc 41 39 42 44 +97 c2-c2-c2-hc 39 42 26 37 +98 c2-c2-c2-hc 39 42 26 38 +99 c2-c2-c2-hc 26 42 39 40 +100 c2-c2-c2-hc 26 42 39 41 Impropers -1 2 7 1 4 5 -2 2 8 1 4 5 -3 3 7 1 8 5 -4 3 7 1 8 4 -5 1 7 2 3 11 -6 4 1 7 2 14 -7 4 1 7 2 15 -8 2 1 7 14 15 -9 5 2 7 14 15 -10 3 1 8 9 16 -11 3 1 8 9 17 -12 2 1 8 16 17 -13 2 9 8 16 17 -14 4 8 9 10 18 -15 4 8 9 10 19 -16 2 8 9 18 19 -17 5 10 9 18 19 -18 1 9 10 13 12 -19 7 22 21 27 28 -20 8 22 21 39 27 -21 8 22 21 39 28 -22 7 39 21 28 27 -23 9 21 22 23 29 -24 9 21 22 23 30 -25 7 21 22 29 30 -26 10 23 22 29 30 -27 6 22 23 31 32 -28 6 25 24 33 34 -29 9 26 25 24 35 -30 9 26 25 24 36 -31 10 24 25 35 36 -32 7 26 25 35 36 -33 7 25 26 37 38 -34 8 25 26 42 37 -35 8 25 26 42 38 -36 7 42 26 38 37 -37 7 21 39 40 41 -38 8 21 39 42 40 -39 8 21 39 42 41 -40 7 42 39 41 40 -41 8 26 42 39 43 -42 8 26 42 39 44 -43 7 26 42 43 44 -44 7 39 42 43 44 +1 c2-na-hn-hn 7 1 4 5 +2 c2-na-hn-hn 8 1 4 5 +3 c2-c_1-o_1-o 7 1 8 5 +4 c2-c_1-o_1-o 7 1 8 4 +5 c2-c_1-o-o_1 7 2 3 11 +6 c2-n-hn-c_1 1 7 2 14 +7 c2-n-hn-c_1 1 7 2 15 +8 c2-na-hn-hn 1 7 14 15 +9 c2-c_1-o_1-o 1 8 9 16 +10 c2-c_1-o_1-o 1 8 9 17 +11 c2-na-hn-hn 1 8 16 17 +12 c2-na-hn-hn 9 8 16 17 +13 c2-n-hn-c_1 8 9 10 18 +14 c2-n-hn-c_1 8 9 10 19 +15 c2-na-hn-hn 8 9 18 19 +16 c2-c_1-o-o_1 9 10 13 12