A series of Python3 script to lower the barrier of computing and simulating molecular and material systems.
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165 lines
7.9 KiB

$orca_opt_file
$trust
0.300000000000
$epredict
0.000000000000
$ediffsc
1000.000000000000
$ctyp
3
$coordinates
2 15
2.04783952 -0.08842029 0.05378161 4.11179840 -0.08842029 0.05378161
1.35986582 0.14562230 1.98557304 1.35984693 -1.87842557 -0.70942209
1.35984693 1.46754242 -1.11478724
2.04783967 -0.08842079 0.05378147 4.09310822 -0.08842110 0.05378114
1.36609511 0.14350168 1.96808595 1.36607801 -1.86221457 -0.70251159
1.36607659 1.45345335 -1.10421005
# redundant internal coordinates
# nbonds nangles ndihedrals nimpropers ncartesians
# bond definitions A B
# angle definitions A B C
# dihedral definitions A B C D
# improper torsion definitions A B C D
# cartesian definitions A x/y/z
$redundant_internals
4 6 0 0 0
1 0 0
2 0 0
3 0 0
4 0 0
1 0 3 0 0
2 0 3 0 0
1 0 4 0 0
2 0 4 0 0
3 0 4 0 0
1 0 2 0 0
$energies
2
-4.1749622483400000
-4.1752184657600004
$gradients
2 15
-0.0000007027180753 0.0000014387602336 0.0000009460158834 0.0066855552936276
-0.0000000643554089 -0.0000003970702217 -0.0022276278337514 0.0007581175019065
0.0062554075125006 -0.0022288833907888 -0.0057987716608484 -0.0024720579359168
-0.0022283413510121 0.0050392797541172 -0.0037838985222454
0.0000000069934767 -0.0000000602662131 -0.0000010646089677 0.0000994225620411
0.0000000169269605 0.0000005691799504 -0.0000328585318492 0.0000113508347243
0.0000930299124637 -0.0000332572398987 -0.0000863132891762 -0.0000365693505511
-0.0000333137837699 0.0000750057937044 -0.0000559651328954
$redundant_coords
2 10
2.0639588834687914 2.0639529780229191 2.0639604187625662 2.0639541891671147
1.9106362103301444 1.9106318901742594 1.9106372774642242 1.9106284618533667
1.9106378039402774 1.9106277736825448
2.0452685438782034 2.0452690128484385 2.0452683311090660 2.0452679753166412
1.9106359165290279 1.9106321869383560 1.9106369385632869 1.9106308078628313
1.9106362603062705 1.9106273072615485
$redundant_gradients
2 10
0.0066855552943175 0.0066833517770569 0.0066861606506103 0.0066841404245860
0.0000000853864811 -0.0000000862473864 0.0000000984938569 -0.0000006818140913
0.0000004486212740 0.0000001355546232
0.0000994225619480 0.0000993127144977 0.0000994650090370 0.0000993360051177
0.0000003467160888 -0.0000001265741208 0.0000004686716716 -0.0000003142379003
0.0000003775998394 -0.0000007521838795
$hessian_approx
15 15
0 1 2 3 4 5
0 0.839473 -0.000001 0.000002 -0.357201 0.000000 -0.000001
1 -0.000001 0.839476 -0.000001 0.000001 -0.136202 -0.000000
2 0.000002 -0.000001 0.839472 0.000014 -0.000000 -0.136200
3 -0.357201 0.000001 0.000014 0.355996 -0.000001 -0.000013
4 0.000000 -0.136202 -0.000000 -0.000001 0.102151 0.000000
5 -0.000001 -0.000000 -0.136200 -0.000013 0.000000 0.102150
6 -0.160756 0.008353 0.068945 0.000403 0.007722 0.063744
7 0.008354 -0.139043 -0.023454 -0.000138 0.000328 0.002709
8 0.068950 -0.023455 -0.329795 -0.001126 0.002709 0.022359
9 -0.160757 -0.063889 -0.027246 0.000401 -0.059061 -0.025178
10 -0.063889 -0.302427 -0.070885 0.001047 0.019209 0.008201
11 -0.027241 -0.070873 -0.166423 0.000445 0.008190 0.003497
12 -0.160758 0.055537 -0.041715 0.000402 0.051339 -0.038553
13 0.055536 -0.261803 0.094342 -0.000909 0.014513 -0.010910
14 -0.041710 0.094330 -0.207053 0.000680 -0.010899 0.008193
6 7 8 9 10 11
0 -0.160756 0.008354 0.068950 -0.160757 -0.063889 -0.027241
1 0.008353 -0.139043 -0.023455 -0.063889 -0.302427 -0.070873
2 0.068945 -0.023454 -0.329795 -0.027246 -0.070885 -0.166423
3 0.000403 -0.000138 -0.001126 0.000401 0.001047 0.000445
4 0.007722 0.000328 0.002709 -0.059061 0.019209 0.008190
5 0.063744 0.002709 0.022359 -0.025178 0.008201 0.003497
6 0.130355 -0.009595 -0.079197 0.014999 0.005632 -0.027822
7 -0.009595 0.105415 0.026942 0.028289 0.011284 -0.051595
8 -0.079197 0.026942 0.324535 0.002343 0.001756 -0.003183
9 0.014999 0.028289 0.002343 0.130357 0.073385 0.031290
10 0.005632 0.011284 0.001756 0.073385 0.293078 0.081407
11 -0.027822 -0.051595 -0.003183 0.031290 0.081407 0.136860
12 0.014999 -0.026910 0.009030 0.015000 -0.016175 0.023328
13 -0.012114 0.022015 -0.007952 0.021277 -0.021144 0.032871
14 -0.025671 0.045400 -0.013917 0.018792 -0.020478 0.029249
12 13 14
0 -0.160758 0.055536 -0.041710
1 0.055537 -0.261803 0.094330
2 -0.041715 0.094342 -0.207053
3 0.000402 -0.000909 0.000680
4 0.051339 0.014513 -0.010899
5 -0.038553 -0.010910 0.008193
6 0.014999 -0.012114 -0.025671
7 -0.026910 0.022015 0.045400
8 0.009030 -0.007952 -0.013917
9 0.015000 0.021277 0.018792
10 -0.016175 -0.021144 -0.020478
11 0.023328 0.032871 0.029249
12 0.130357 -0.063790 0.047909
13 -0.063790 0.246419 -0.108351
14 0.047909 -0.108351 0.183528
$bmatrix
10 15
0 1 2 3 4 5
0 -1.000000 0.000000 0.000000 1.000000 -0.000000 -0.000000
1 0.333328 -0.113395 -0.935967 0.000000 0.000000 0.000000
2 0.333336 0.867267 0.369777 0.000000 0.000000 0.000000
3 0.333337 -0.753874 0.566181 0.000000 0.000000 0.000000
4 0.460970 -0.599679 -0.255685 0.000000 0.449758 0.191764
5 -0.460968 -0.521269 0.391495 0.000000 0.000000 0.000000
6 0.460970 0.521273 -0.391491 -0.000000 -0.390954 0.293617
7 -0.460968 0.599677 0.255690 0.000000 0.000000 0.000000
8 -0.460977 -0.078407 -0.647176 0.000000 0.000000 0.000000
9 0.460972 0.078407 0.647176 -0.000000 -0.058805 -0.485384
6 7 8 9 10 11
0 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
1 -0.333328 0.113395 0.935967 0.000000 0.000000 0.000000
2 0.000000 0.000000 0.000000 -0.333336 -0.867267 -0.369777
3 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
4 0.000000 0.000000 0.000000 -0.460970 0.149921 0.063922
5 0.230485 0.430156 0.029969 0.230483 0.091113 -0.421464
6 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
7 0.230486 -0.410554 0.131823 0.000000 0.000000 0.000000
8 0.000000 0.000000 0.000000 0.230488 -0.241033 0.357539
9 -0.460972 -0.019601 -0.161792 0.000000 0.000000 0.000000
12 13 14
0 0.000000 0.000000 0.000000
1 0.000000 0.000000 0.000000
2 0.000000 0.000000 0.000000
3 -0.333337 0.753874 -0.566181
4 0.000000 0.000000 0.000000
5 0.000000 0.000000 0.000000
6 -0.460970 -0.130319 0.097874
7 0.230482 -0.189122 -0.387513
8 0.230488 0.319439 0.289637
9 0.000000 0.000000 0.000000