Skip to content

Commit 30af8ec

Browse files
committed
Documentation Update for votca/votca@62f254a
1 parent 7bc4f43 commit 30af8ec

37 files changed

+13200
-14608
lines changed

.doctrees/environment.pickle

-66.3 KB
Binary file not shown.

.doctrees/nbsphinx/xtp-tutorials/DFTGWBSE_ENERGY.ipynb

Lines changed: 48 additions & 48 deletions
Original file line numberDiff line numberDiff line change
@@ -43,10 +43,10 @@
4343
"execution_count": 1,
4444
"metadata": {
4545
"execution": {
46-
"iopub.execute_input": "2024-05-01T02:05:19.151904Z",
47-
"iopub.status.busy": "2024-05-01T02:05:19.151455Z",
48-
"iopub.status.idle": "2024-05-01T02:05:19.279836Z",
49-
"shell.execute_reply": "2024-05-01T02:05:19.279272Z"
46+
"iopub.execute_input": "2024-05-01T12:42:51.389016Z",
47+
"iopub.status.busy": "2024-05-01T12:42:51.388824Z",
48+
"iopub.status.idle": "2024-05-01T12:42:51.516325Z",
49+
"shell.execute_reply": "2024-05-01T12:42:51.515794Z"
5050
}
5151
},
5252
"outputs": [
@@ -60,7 +60,7 @@
6060
"\r\n",
6161
"please submit bugs to https://github.com/votca/votca/issues\r\n",
6262
"\r\n",
63-
"xtp_tools, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
63+
"xtp_tools, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
6464
"\r\n",
6565
"Runs excitation/charge transport tools\r\n",
6666
"\r\n",
@@ -110,10 +110,10 @@
110110
"execution_count": 2,
111111
"metadata": {
112112
"execution": {
113-
"iopub.execute_input": "2024-05-01T02:05:19.283263Z",
114-
"iopub.status.busy": "2024-05-01T02:05:19.282850Z",
115-
"iopub.status.idle": "2024-05-01T02:05:24.536515Z",
116-
"shell.execute_reply": "2024-05-01T02:05:24.535909Z"
113+
"iopub.execute_input": "2024-05-01T12:42:51.519253Z",
114+
"iopub.status.busy": "2024-05-01T12:42:51.518863Z",
115+
"iopub.status.idle": "2024-05-01T12:42:56.616719Z",
116+
"shell.execute_reply": "2024-05-01T12:42:56.616011Z"
117117
}
118118
},
119119
"outputs": [],
@@ -141,10 +141,10 @@
141141
"execution_count": 3,
142142
"metadata": {
143143
"execution": {
144-
"iopub.execute_input": "2024-05-01T02:05:24.539983Z",
145-
"iopub.status.busy": "2024-05-01T02:05:24.539570Z",
146-
"iopub.status.idle": "2024-05-01T02:05:24.776796Z",
147-
"shell.execute_reply": "2024-05-01T02:05:24.776167Z"
144+
"iopub.execute_input": "2024-05-01T12:42:56.620098Z",
145+
"iopub.status.busy": "2024-05-01T12:42:56.619706Z",
146+
"iopub.status.idle": "2024-05-01T12:42:56.853702Z",
147+
"shell.execute_reply": "2024-05-01T12:42:56.853215Z"
148148
}
149149
},
150150
"outputs": [
@@ -174,10 +174,10 @@
174174
"execution_count": 4,
175175
"metadata": {
176176
"execution": {
177-
"iopub.execute_input": "2024-05-01T02:05:24.780007Z",
178-
"iopub.status.busy": "2024-05-01T02:05:24.779625Z",
179-
"iopub.status.idle": "2024-05-01T02:05:24.891677Z",
180-
"shell.execute_reply": "2024-05-01T02:05:24.891000Z"
177+
"iopub.execute_input": "2024-05-01T12:42:56.856310Z",
178+
"iopub.status.busy": "2024-05-01T12:42:56.856102Z",
179+
"iopub.status.idle": "2024-05-01T12:42:56.966368Z",
180+
"shell.execute_reply": "2024-05-01T12:42:56.965880Z"
181181
}
182182
},
183183
"outputs": [
@@ -221,10 +221,10 @@
221221
"execution_count": 5,
222222
"metadata": {
223223
"execution": {
224-
"iopub.execute_input": "2024-05-01T02:05:24.895220Z",
225-
"iopub.status.busy": "2024-05-01T02:05:24.894802Z",
226-
"iopub.status.idle": "2024-05-01T02:05:25.006252Z",
227-
"shell.execute_reply": "2024-05-01T02:05:25.005600Z"
224+
"iopub.execute_input": "2024-05-01T12:42:56.969149Z",
225+
"iopub.status.busy": "2024-05-01T12:42:56.968788Z",
226+
"iopub.status.idle": "2024-05-01T12:42:57.078554Z",
227+
"shell.execute_reply": "2024-05-01T12:42:57.077996Z"
228228
}
229229
},
230230
"outputs": [
@@ -253,10 +253,10 @@
253253
"execution_count": 6,
254254
"metadata": {
255255
"execution": {
256-
"iopub.execute_input": "2024-05-01T02:05:25.009223Z",
257-
"iopub.status.busy": "2024-05-01T02:05:25.009020Z",
258-
"iopub.status.idle": "2024-05-01T02:05:29.561245Z",
259-
"shell.execute_reply": "2024-05-01T02:05:29.560645Z"
256+
"iopub.execute_input": "2024-05-01T12:42:57.081185Z",
257+
"iopub.status.busy": "2024-05-01T12:42:57.080813Z",
258+
"iopub.status.idle": "2024-05-01T12:43:01.626843Z",
259+
"shell.execute_reply": "2024-05-01T12:43:01.626232Z"
260260
}
261261
},
262262
"outputs": [],
@@ -284,10 +284,10 @@
284284
"execution_count": 7,
285285
"metadata": {
286286
"execution": {
287-
"iopub.execute_input": "2024-05-01T02:05:29.564510Z",
288-
"iopub.status.busy": "2024-05-01T02:05:29.564288Z",
289-
"iopub.status.idle": "2024-05-01T02:05:32.142621Z",
290-
"shell.execute_reply": "2024-05-01T02:05:32.141958Z"
287+
"iopub.execute_input": "2024-05-01T12:43:01.630035Z",
288+
"iopub.status.busy": "2024-05-01T12:43:01.629805Z",
289+
"iopub.status.idle": "2024-05-01T12:43:04.203394Z",
290+
"shell.execute_reply": "2024-05-01T12:43:04.202777Z"
291291
}
292292
},
293293
"outputs": [
@@ -301,17 +301,17 @@
301301
"\r\n",
302302
"please submit bugs to https://github.com/votca/votca/issues\r\n",
303303
"\r\n",
304-
"xtp_tools, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
304+
"xtp_tools, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
305305
"\r\n",
306306
"Initializing tool\r\n",
307307
"... partialcharges Evaluating tool\r\n",
308308
"... partialcharges Using 1 threads\r\n",
309309
"... ... Loading QM data from methane.orb\r\n",
310310
"... ... ===== Running on 1 threads ===== \r\n",
311-
"... ... 2024-5-1 2:5:29 Calculated Densities at Numerical Grid, Number of electrons is -2.37461e-08\r\n",
312-
"... ... 2024-5-1 2:5:29 Calculating ESP at CHELPG grid points\r\n",
313-
"... ... 2024-5-1 2:5:32 Netcharge constrained to 0\r\n",
314-
"... ... Sum of fitted charges: 2.42063e-14\r\n",
311+
"... ... 2024-5-1 12:43:1 Calculated Densities at Numerical Grid, Number of electrons is -2.37461e-08\r\n",
312+
"... ... 2024-5-1 12:43:1 Calculating ESP at CHELPG grid points\r\n",
313+
"... ... 2024-5-1 12:43:4 Netcharge constrained to 0\r\n",
314+
"... ... Sum of fitted charges: 2.41751e-14\r\n",
315315
"... ... RMSE of fit: 0.00221585\r\n",
316316
"... ... RRMSE of fit: 0.107179\r\n",
317317
"... ... El Dipole from fitted charges [e*bohr]:\r\n",
@@ -339,10 +339,10 @@
339339
"execution_count": 8,
340340
"metadata": {
341341
"execution": {
342-
"iopub.execute_input": "2024-05-01T02:05:32.145536Z",
343-
"iopub.status.busy": "2024-05-01T02:05:32.145326Z",
344-
"iopub.status.idle": "2024-05-01T02:05:32.281631Z",
345-
"shell.execute_reply": "2024-05-01T02:05:32.281080Z"
342+
"iopub.execute_input": "2024-05-01T12:43:04.206230Z",
343+
"iopub.status.busy": "2024-05-01T12:43:04.206031Z",
344+
"iopub.status.idle": "2024-05-01T12:43:04.341224Z",
345+
"shell.execute_reply": "2024-05-01T12:43:04.340736Z"
346346
}
347347
},
348348
"outputs": [
@@ -356,7 +356,7 @@
356356
"\r\n",
357357
"please submit bugs to https://github.com/votca/votca/issues\r\n",
358358
"\r\n",
359-
"xtp_tools, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
359+
"xtp_tools, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
360360
"\r\n",
361361
"Initializing tool\r\n",
362362
"... spectrum Evaluating tool\r\n",
@@ -398,10 +398,10 @@
398398
"execution_count": 9,
399399
"metadata": {
400400
"execution": {
401-
"iopub.execute_input": "2024-05-01T02:05:32.284965Z",
402-
"iopub.status.busy": "2024-05-01T02:05:32.284743Z",
403-
"iopub.status.idle": "2024-05-01T02:05:33.897437Z",
404-
"shell.execute_reply": "2024-05-01T02:05:33.896809Z"
401+
"iopub.execute_input": "2024-05-01T12:43:04.344212Z",
402+
"iopub.status.busy": "2024-05-01T12:43:04.343898Z",
403+
"iopub.status.idle": "2024-05-01T12:43:05.892558Z",
404+
"shell.execute_reply": "2024-05-01T12:43:05.891904Z"
405405
}
406406
},
407407
"outputs": [
@@ -435,10 +435,10 @@
435435
"execution_count": 10,
436436
"metadata": {
437437
"execution": {
438-
"iopub.execute_input": "2024-05-01T02:05:33.900804Z",
439-
"iopub.status.busy": "2024-05-01T02:05:33.900576Z",
440-
"iopub.status.idle": "2024-05-01T02:05:35.115188Z",
441-
"shell.execute_reply": "2024-05-01T02:05:35.114297Z"
438+
"iopub.execute_input": "2024-05-01T12:43:05.895586Z",
439+
"iopub.status.busy": "2024-05-01T12:43:05.895364Z",
440+
"iopub.status.idle": "2024-05-01T12:43:07.026441Z",
441+
"shell.execute_reply": "2024-05-01T12:43:07.025783Z"
442442
}
443443
},
444444
"outputs": [
@@ -448,7 +448,7 @@
448448
"text": [
449449
"<>:5: SyntaxWarning: invalid escape sequence '\\s'\n",
450450
"<>:5: SyntaxWarning: invalid escape sequence '\\s'\n",
451-
"/tmp/ipykernel_15117/3151737206.py:5: SyntaxWarning: invalid escape sequence '\\s'\n",
451+
"/tmp/ipykernel_15123/3151737206.py:5: SyntaxWarning: invalid escape sequence '\\s'\n",
452452
" df = pd.read_table(\"methane_spectrum.dat\", comment=\"#\", sep='\\s+',names=columns)\n",
453453
"/usr/lib/python3.12/site-packages/seaborn/axisgrid.py:854: FutureWarning: \n",
454454
"\n",

.doctrees/nbsphinx/xtp-tutorials/LAMMPS_KMC.ipynb

Lines changed: 33 additions & 33 deletions
Original file line numberDiff line numberDiff line change
@@ -35,10 +35,10 @@
3535
"execution_count": 1,
3636
"metadata": {
3737
"execution": {
38-
"iopub.execute_input": "2024-05-01T02:05:37.546344Z",
39-
"iopub.status.busy": "2024-05-01T02:05:37.546147Z",
40-
"iopub.status.idle": "2024-05-01T02:05:39.030207Z",
41-
"shell.execute_reply": "2024-05-01T02:05:39.029549Z"
38+
"iopub.execute_input": "2024-05-01T12:43:09.153979Z",
39+
"iopub.status.busy": "2024-05-01T12:43:09.153789Z",
40+
"iopub.status.idle": "2024-05-01T12:43:10.590695Z",
41+
"shell.execute_reply": "2024-05-01T12:43:10.590166Z"
4242
}
4343
},
4444
"outputs": [
@@ -90,10 +90,10 @@
9090
"execution_count": 2,
9191
"metadata": {
9292
"execution": {
93-
"iopub.execute_input": "2024-05-01T02:05:39.033935Z",
94-
"iopub.status.busy": "2024-05-01T02:05:39.033554Z",
95-
"iopub.status.idle": "2024-05-01T02:05:40.128393Z",
96-
"shell.execute_reply": "2024-05-01T02:05:40.127837Z"
93+
"iopub.execute_input": "2024-05-01T12:43:10.593901Z",
94+
"iopub.status.busy": "2024-05-01T12:43:10.593695Z",
95+
"iopub.status.idle": "2024-05-01T12:43:11.666833Z",
96+
"shell.execute_reply": "2024-05-01T12:43:11.666308Z"
9797
}
9898
},
9999
"outputs": [
@@ -107,7 +107,7 @@
107107
"\r\n",
108108
"please submit bugs to https://github.com/votca/votca/issues\r\n",
109109
"\r\n",
110-
"xtp_run, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
110+
"xtp_run, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
111111
"\r\n",
112112
"Initializing calculator\r\n",
113113
"... eanalyze\r\n",
@@ -145,10 +145,10 @@
145145
"execution_count": 3,
146146
"metadata": {
147147
"execution": {
148-
"iopub.execute_input": "2024-05-01T02:05:40.131635Z",
149-
"iopub.status.busy": "2024-05-01T02:05:40.131242Z",
150-
"iopub.status.idle": "2024-05-01T02:05:40.243113Z",
151-
"shell.execute_reply": "2024-05-01T02:05:40.242434Z"
148+
"iopub.execute_input": "2024-05-01T12:43:11.669604Z",
149+
"iopub.status.busy": "2024-05-01T12:43:11.669398Z",
150+
"iopub.status.idle": "2024-05-01T12:43:11.780382Z",
151+
"shell.execute_reply": "2024-05-01T12:43:11.779787Z"
152152
}
153153
},
154154
"outputs": [
@@ -182,10 +182,10 @@
182182
"execution_count": 4,
183183
"metadata": {
184184
"execution": {
185-
"iopub.execute_input": "2024-05-01T02:05:40.246267Z",
186-
"iopub.status.busy": "2024-05-01T02:05:40.246047Z",
187-
"iopub.status.idle": "2024-05-01T02:05:41.473749Z",
188-
"shell.execute_reply": "2024-05-01T02:05:41.473150Z"
185+
"iopub.execute_input": "2024-05-01T12:43:11.783472Z",
186+
"iopub.status.busy": "2024-05-01T12:43:11.782965Z",
187+
"iopub.status.idle": "2024-05-01T12:43:12.898571Z",
188+
"shell.execute_reply": "2024-05-01T12:43:12.897833Z"
189189
}
190190
},
191191
"outputs": [
@@ -195,7 +195,7 @@
195195
"text": [
196196
"<>:5: SyntaxWarning: invalid escape sequence '\\s'\n",
197197
"<>:5: SyntaxWarning: invalid escape sequence '\\s'\n",
198-
"/tmp/ipykernel_15156/2362228021.py:5: SyntaxWarning: invalid escape sequence '\\s'\n",
198+
"/tmp/ipykernel_15162/2362228021.py:5: SyntaxWarning: invalid escape sequence '\\s'\n",
199199
" df = pd.read_table(\"eanalyze.pairhist_e.out\", comment=\"#\", sep='\\s+',names=columns, skiprows=2)\n",
200200
"/usr/lib/python3.12/site-packages/seaborn/axisgrid.py:854: FutureWarning: \n",
201201
"\n",
@@ -248,10 +248,10 @@
248248
"execution_count": 5,
249249
"metadata": {
250250
"execution": {
251-
"iopub.execute_input": "2024-05-01T02:05:41.476754Z",
252-
"iopub.status.busy": "2024-05-01T02:05:41.476310Z",
253-
"iopub.status.idle": "2024-05-01T02:05:42.450630Z",
254-
"shell.execute_reply": "2024-05-01T02:05:42.450012Z"
251+
"iopub.execute_input": "2024-05-01T12:43:12.901598Z",
252+
"iopub.status.busy": "2024-05-01T12:43:12.901106Z",
253+
"iopub.status.idle": "2024-05-01T12:43:13.857692Z",
254+
"shell.execute_reply": "2024-05-01T12:43:13.857131Z"
255255
}
256256
},
257257
"outputs": [
@@ -265,7 +265,7 @@
265265
"\r\n",
266266
"please submit bugs to https://github.com/votca/votca/issues\r\n",
267267
"\r\n",
268-
"xtp_run, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
268+
"xtp_run, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
269269
"\r\n",
270270
"Initializing calculator\r\n",
271271
"... ianalyze\r\n",
@@ -299,10 +299,10 @@
299299
"execution_count": 6,
300300
"metadata": {
301301
"execution": {
302-
"iopub.execute_input": "2024-05-01T02:05:42.453831Z",
303-
"iopub.status.busy": "2024-05-01T02:05:42.453602Z",
304-
"iopub.status.idle": "2024-05-01T02:05:42.667453Z",
305-
"shell.execute_reply": "2024-05-01T02:05:42.666298Z"
302+
"iopub.execute_input": "2024-05-01T12:43:13.860527Z",
303+
"iopub.status.busy": "2024-05-01T12:43:13.860302Z",
304+
"iopub.status.idle": "2024-05-01T12:43:14.068729Z",
305+
"shell.execute_reply": "2024-05-01T12:43:14.068125Z"
306306
}
307307
},
308308
"outputs": [
@@ -312,7 +312,7 @@
312312
"text": [
313313
"<>:2: SyntaxWarning: invalid escape sequence '\\s'\n",
314314
"<>:2: SyntaxWarning: invalid escape sequence '\\s'\n",
315-
"/tmp/ipykernel_15156/886975016.py:2: SyntaxWarning: invalid escape sequence '\\s'\n",
315+
"/tmp/ipykernel_15162/886975016.py:2: SyntaxWarning: invalid escape sequence '\\s'\n",
316316
" df = pd.read_table(\"ianalyze.ihist_h.out\", comment=\"#\", sep='\\s+',names=columns, skiprows=2)\n",
317317
"/usr/lib/python3.12/site-packages/seaborn/axisgrid.py:854: FutureWarning: \n",
318318
"\n",
@@ -362,10 +362,10 @@
362362
"execution_count": 7,
363363
"metadata": {
364364
"execution": {
365-
"iopub.execute_input": "2024-05-01T02:05:42.670543Z",
366-
"iopub.status.busy": "2024-05-01T02:05:42.670122Z",
367-
"iopub.status.idle": "2024-05-01T02:05:43.619022Z",
368-
"shell.execute_reply": "2024-05-01T02:05:43.618432Z"
365+
"iopub.execute_input": "2024-05-01T12:43:14.071224Z",
366+
"iopub.status.busy": "2024-05-01T12:43:14.071024Z",
367+
"iopub.status.idle": "2024-05-01T12:43:14.998771Z",
368+
"shell.execute_reply": "2024-05-01T12:43:14.998086Z"
369369
}
370370
},
371371
"outputs": [
@@ -379,7 +379,7 @@
379379
"\r\n",
380380
"please submit bugs to https://github.com/votca/votca/issues\r\n",
381381
"\r\n",
382-
"xtp_run, version 2024-dev gitid: f9ac5e0 (compiled May 1 2024, 02:03:16)\r\n",
382+
"xtp_run, version 2024-dev gitid: 62f254a (compiled May 1 2024, 12:40:44)\r\n",
383383
"\r\n",
384384
"Initializing calculator\r\n",
385385
"... kmcmultiple\r\n",

0 commit comments

Comments
 (0)