-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathERF_8H_source.html
2018 lines (2016 loc) · 431 KB
/
ERF_8H_source.html
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
933
934
935
936
937
938
939
940
941
942
943
944
945
946
947
948
949
950
951
952
953
954
955
956
957
958
959
960
961
962
963
964
965
966
967
968
969
970
971
972
973
974
975
976
977
978
979
980
981
982
983
984
985
986
987
988
989
990
991
992
993
994
995
996
997
998
999
1000
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "https://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<meta http-equiv="Content-Type" content="text/xhtml;charset=UTF-8"/>
<meta http-equiv="X-UA-Compatible" content="IE=9"/>
<meta name="generator" content="Doxygen 1.9.1"/>
<meta name="viewport" content="width=device-width, initial-scale=1"/>
<title>ERF: Source/ERF.H Source File</title>
<link href="tabs.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="jquery.js"></script>
<script type="text/javascript" src="dynsections.js"></script>
<link href="navtree.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="resize.js"></script>
<script type="text/javascript" src="navtreedata.js"></script>
<script type="text/javascript" src="navtree.js"></script>
<link href="search/search.css" rel="stylesheet" type="text/css"/>
<script type="text/javascript" src="search/searchdata.js"></script>
<script type="text/javascript" src="search/search.js"></script>
<link href="doxygen.css" rel="stylesheet" type="text/css" />
</head>
<body>
<div id="top"><!-- do not remove this div, it is closed by doxygen! -->
<div id="titlearea">
<table cellspacing="0" cellpadding="0">
<tbody>
<tr style="height: 56px;">
<td id="projectalign" style="padding-left: 0.5em;">
<div id="projectname">ERF
</div>
<div id="projectbrief">Energy Research and Forecasting: An Atmospheric Modeling Code</div>
</td>
</tr>
</tbody>
</table>
</div>
<!-- end header part -->
<!-- Generated by Doxygen 1.9.1 -->
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:cf05388f2679ee054f2beb29a391d25f4e673ac3&dn=gpl-2.0.txt GPL-v2 */
var searchBox = new SearchBox("searchBox", "search",false,'Search','.html');
/* @license-end */
</script>
<script type="text/javascript" src="menudata.js"></script>
<script type="text/javascript" src="menu.js"></script>
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:cf05388f2679ee054f2beb29a391d25f4e673ac3&dn=gpl-2.0.txt GPL-v2 */
$(function() {
initMenu('',true,false,'search.php','Search');
$(document).ready(function() { init_search(); });
});
/* @license-end */</script>
<div id="main-nav"></div>
</div><!-- top -->
<div id="side-nav" class="ui-resizable side-nav-resizable">
<div id="nav-tree">
<div id="nav-tree-contents">
<div id="nav-sync" class="sync"></div>
</div>
</div>
<div id="splitbar" style="-moz-user-select:none;"
class="ui-resizable-handle">
</div>
</div>
<script type="text/javascript">
/* @license magnet:?xt=urn:btih:cf05388f2679ee054f2beb29a391d25f4e673ac3&dn=gpl-2.0.txt GPL-v2 */
$(document).ready(function(){initNavTree('ERF_8H_source.html',''); initResizable(); });
/* @license-end */
</script>
<div id="doc-content">
<!-- window showing the filter options -->
<div id="MSearchSelectWindow"
onmouseover="return searchBox.OnSearchSelectShow()"
onmouseout="return searchBox.OnSearchSelectHide()"
onkeydown="return searchBox.OnSearchSelectKey(event)">
</div>
<!-- iframe showing the search results (closed by default) -->
<div id="MSearchResultsWindow">
<iframe src="javascript:void(0)" frameborder="0"
name="MSearchResults" id="MSearchResults">
</iframe>
</div>
<div class="header">
<div class="headertitle">
<div class="title">ERF.H</div> </div>
</div><!--header-->
<div class="contents">
<a href="ERF_8H.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> <span class="preprocessor">#ifndef ERF_H_</span></div>
<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="preprocessor">#define ERF_H_</span></div>
<div class="line"><a name="l00003"></a><span class="lineno"> 3</span>  </div>
<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="preprocessor">#include <string></span></div>
<div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="preprocessor">#include <limits></span></div>
<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> <span class="preprocessor">#include <memory></span></div>
<div class="line"><a name="l00007"></a><span class="lineno"> 7</span>  </div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor">#ifdef _OPENMP</span></div>
<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="preprocessor">#include <omp.h></span></div>
<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00011"></a><span class="lineno"> 11</span>  </div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="preprocessor">#include <AMReX_AmrCore.H></span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="preprocessor">#include <AMReX_BCRec.H></span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="preprocessor">#include <AMReX_Print.H></span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span>  </div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="preprocessor">#include <AMReX_ParallelDescriptor.H></span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="preprocessor">#include <AMReX_ParmParse.H></span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span> <span class="preprocessor">#include <AMReX_MultiFabUtil.H></span></div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="preprocessor">#include <AMReX_FillPatchUtil.H></span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="preprocessor">#include <AMReX_VisMF.H></span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="preprocessor">#include <AMReX_PhysBCFunct.H></span></div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="preprocessor">#include <AMReX_YAFluxRegister.H></span></div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> <span class="preprocessor">#include <AMReX_ErrorList.H></span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span> <span class="preprocessor">#include <AMReX_EBFabFactory.H></span></div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="preprocessor">#include <AMReX_EBMultiFabUtil.H></span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span>  </div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span> <span class="preprocessor">#include <<a class="code" href="ERF__EB_8H.html">ERF_EB.H</a>></span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span>  </div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="preprocessor">#ifdef ERF_USE_FFT</span></div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span> <span class="preprocessor">#include <AMReX_FFT_Poisson.H></span></div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span>  </div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> <span class="preprocessor">#ifdef AMREX_MEM_PROFILING</span></div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> <span class="preprocessor">#include <AMReX_MemProfiler.H></span></div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span>  </div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> <span class="preprocessor">#include "<a class="code" href="ERF__ProbCommon_8H.html">ERF_ProbCommon.H</a>"</span></div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span>  </div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="preprocessor">#include <<a class="code" href="ERF__IndexDefines_8H.html">ERF_IndexDefines.H</a>></span></div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="preprocessor">#include <<a class="code" href="ERF__DataStruct_8H.html">ERF_DataStruct.H</a>></span></div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> <span class="preprocessor">#include <<a class="code" href="ERF__TurbPertStruct_8H.html">ERF_TurbPertStruct.H</a>></span></div>
<div class="line"><a name="l00042"></a><span class="lineno"> 42</span> <span class="preprocessor">#include <<a class="code" href="ERF__InputSoundingData_8H.html">ERF_InputSoundingData.H</a>></span></div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <span class="preprocessor">#include <<a class="code" href="ERF__InputSpongeData_8H.html">ERF_InputSpongeData.H</a>></span></div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> <span class="preprocessor">#include <<a class="code" href="ERF__ABLMost_8H.html">ERF_ABLMost.H</a>></span></div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> <span class="preprocessor">#include <<a class="code" href="ERF__Derive_8H.html">ERF_Derive.H</a>></span></div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> <span class="preprocessor">#include <<a class="code" href="ERF__ReadBndryPlanes_8H.html">ERF_ReadBndryPlanes.H</a>></span></div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> <span class="preprocessor">#include <<a class="code" href="ERF__WriteBndryPlanes_8H.html">ERF_WriteBndryPlanes.H</a>></span></div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span> <span class="preprocessor">#include <<a class="code" href="ERF__MRI_8H.html">ERF_MRI.H</a>></span></div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span> <span class="preprocessor">#include <<a class="code" href="ERF__PhysBCFunct_8H.html">ERF_PhysBCFunct.H</a>></span></div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span> <span class="preprocessor">#include <<a class="code" href="ERF__FillPatcher_8H.html">ERF_FillPatcher.H</a>></span></div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span> <span class="preprocessor">#include <<a class="code" href="ERF__SampleData_8H.html">ERF_SampleData.H</a>></span></div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span> <span class="preprocessor">#include <<a class="code" href="ERF__ForestDrag_8H.html">ERF_ForestDrag.H</a>></span></div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  </div>
<div class="line"><a name="l00054"></a><span class="lineno"> 54</span> <span class="preprocessor">#ifdef ERF_USE_PARTICLES</span></div>
<div class="line"><a name="l00055"></a><span class="lineno"> 55</span> <span class="preprocessor">#include "<a class="code" href="ERF__ParticleData_8H.html">ERF_ParticleData.H</a>"</span></div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  </div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span> <span class="preprocessor">#include "<a class="code" href="ERF__EulerianMicrophysics_8H.html">ERF_EulerianMicrophysics.H</a>"</span></div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span> <span class="preprocessor">#include "<a class="code" href="ERF__LagrangianMicrophysics_8H.html">ERF_LagrangianMicrophysics.H</a>"</span></div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> <span class="preprocessor">#include "<a class="code" href="ERF__LandSurface_8H.html">ERF_LandSurface.H</a>"</span></div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span> <span class="preprocessor">#ifdef ERF_USE_WINDFARM</span></div>
<div class="line"><a name="l00062"></a><span class="lineno"> 62</span> <span class="preprocessor">#include "<a class="code" href="ERF__WindFarm_8H.html">ERF_WindFarm.H</a>"</span></div>
<div class="line"><a name="l00063"></a><span class="lineno"> 63</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00064"></a><span class="lineno"> 64</span>  </div>
<div class="line"><a name="l00065"></a><span class="lineno"> 65</span> <span class="preprocessor">#ifdef ERF_USE_RRTMGP</span></div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span> <span class="preprocessor">#include "<a class="code" href="ERF__Radiation_8H.html">ERF_Radiation.H</a>"</span></div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  </div>
<div class="line"><a name="l00069"></a><span class="lineno"> 69</span> <span class="preprocessor">#include <iostream></span></div>
<div class="line"><a name="l00070"></a><span class="lineno"> 70</span>  </div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span> <span class="preprocessor">#ifdef AMREX_LAZY</span></div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span> <span class="preprocessor">#include <AMReX_Lazy.H></span></div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00074"></a><span class="lineno"> 74</span>  </div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span> <span class="preprocessor">#ifdef ERF_USE_MULTIBLOCK</span></div>
<div class="line"><a name="l00076"></a><span class="lineno"> 76</span> <span class="keyword">class </span>MultiBlockContainer;</div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span> <span class="comment"></span> </div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> <span class="comment">/**</span></div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span> <span class="comment"> * Enum of possible interpolation types between coarse/fine</span></div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span> <span class="comment">*/</span></div>
<div class="line"><a name="l00082"></a><span class="lineno"><a class="line" href="ERF_8H.html#a5ec6fb22ac274a44a8dbf881fecbe144"> 82</a></span> <a class="code" href="ERF_8H.html#a5ec6fb22ac274a44a8dbf881fecbe144">AMREX_ENUM</a>(StateInterpType,</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  FullState, Perturbational</div>
<div class="line"><a name="l00084"></a><span class="lineno"> 84</span> );</div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span> <span class="comment"></span> </div>
<div class="line"><a name="l00086"></a><span class="lineno"> 86</span> <span class="comment">/**</span></div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span> <span class="comment"> * Enum of possible plotfile types</span></div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span> <span class="comment">*/</span></div>
<div class="line"><a name="l00089"></a><span class="lineno"><a class="line" href="ERF_8H.html#a6b6b6faa8ce9b3e9b869c29b6e7a4cf4"> 89</a></span> <a class="code" href="ERF_8H.html#a5ec6fb22ac274a44a8dbf881fecbe144">AMREX_ENUM</a>(PlotFileType,</div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <a class="code" href="ERF__DiffStruct_8H.html#a84e6bfbbb8e490790c506939b364f735a6adf97f83acf6453d4a6a4b1070f3754">None</a>, Amrex, Netcdf</div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span> );</div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  </div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  </div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span> <span class="preprocessor">#if 0</span><span class="comment"></span></div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span> <span class="comment">/**</span></div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span> <span class="comment"> * Enum of possible coarse/fine interpolation options</span></div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span> <span class="comment">*/</span></div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span> <span class="keyword">namespace </span>InterpType {</div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  <span class="keyword">enum</span> {</div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  PCInterp = 0,</div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  NodeBilinear,</div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  CellConservativeLinear,</div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  CellBilinear,</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  CellQuadratic,</div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  CellConservativeProtected,</div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  CellConservativeQuartic,</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  FaceLinear,</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  FaceConserativeLinear</div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  };</div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span> }</div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span> <span class="comment"></span> </div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> <span class="comment">/**</span></div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> <span class="comment"> * Main class in ERF code, instantiated from main.cpp</span></div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span> <span class="comment">*/</span></div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  </div>
<div class="line"><a name="l00117"></a><span class="lineno"><a class="line" href="classERF.html"> 117</a></span> <span class="keyword">class </span><a class="code" href="classERF.html">ERF</a></div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  : <span class="keyword">public</span> amrex::AmrCore</div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span> {</div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span> <span class="comment"></span> </div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span> <span class="comment"> ////////////////</span></div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> <span class="comment"></span> <span class="comment">// public member functions</span></div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  </div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  <span class="comment">// constructor - reads in parameters from inputs file</span></div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  <span class="comment">// - sizes multilevel arrays and data structures</span></div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  <a class="code" href="classERF.html#a30129012dd367825e5e4fd1406694f58">ERF</a> ();</div>
<div class="line"><a name="l00128"></a><span class="lineno"><a class="line" href="classERF.html#a30901583bd41e7bf4dddb3c1ea329dfe"> 128</a></span>  <a class="code" href="classERF.html#a30901583bd41e7bf4dddb3c1ea329dfe">~ERF</a> () <span class="keyword">override</span>;</div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  </div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aab5871c91a4d8888c110865e9d35e8b2">ERF_shared</a> ();</div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  </div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  <span class="comment">// Declare a default move constructor so we ensure the destructor is</span></div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <span class="comment">// not called when we return an object of this class by value</span></div>
<div class="line"><a name="l00134"></a><span class="lineno"><a class="line" href="classERF.html#a13fc8f3a00573ee7735c3228316164a9"> 134</a></span>  <a class="code" href="classERF.html#a13fc8f3a00573ee7735c3228316164a9">ERF</a> (<a class="code" href="classERF.html">ERF</a>&&) noexcept = delete;</div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  </div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  <span class="comment">// Declare a default move assignment operator</span></div>
<div class="line"><a name="l00137"></a><span class="lineno"><a class="line" href="classERF.html#abbc40e6fe700b80e3666dd3723624f05"> 137</a></span>  <a class="code" href="classERF.html">ERF</a>& operator=(<a class="code" href="classERF.html">ERF</a>&& other) noexcept = delete;</div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  </div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <span class="comment">// Delete the copy constructor</span></div>
<div class="line"><a name="l00140"></a><span class="lineno"><a class="line" href="classERF.html#af4f5db4e6643e9ebc8ffeebcbca3978a"> 140</a></span>  <a class="code" href="classERF.html">ERF</a> (const <a class="code" href="classERF.html">ERF</a>& other) = delete;</div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  <span class="comment">//</span></div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  <span class="comment">// Delete the copy assignment operator</span></div>
<div class="line"><a name="l00143"></a><span class="lineno"><a class="line" href="classERF.html#a72fcc41d6f5225e9ca3b8c9111ff37e7"> 143</a></span>  <a class="code" href="classERF.html">ERF</a>& operator=(const <a class="code" href="classERF.html">ERF</a>& other) = delete;</div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  </div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  <span class="comment">// Advance solution to final time</span></div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a0be12798b46f52fa4b5a995f147c3f96">Evolve</a> ();</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  </div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  <span class="comment">// Tag cells for refinement</span></div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a18e6dbbf968b4492e78aa427791620f4">ErrorEst</a> (<span class="keywordtype">int</span> lev, <a class="code" href="namespaceamrex.html">amrex</a>::TagBoxArray& tags, <a class="code" href="namespaceamrex.html">amrex</a>::Real time, <span class="keywordtype">int</span> ngrow) override;</div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  </div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  <span class="comment">// Initialize multilevel data</span></div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad5d585e110291969767013a515719224">InitData</a> ();</div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  </div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  <span class="comment">// Initialize multilevel data before MultiBlock</span></div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a9084860e0049795487636a9e0ccbc89e">InitData_pre</a> ();</div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  </div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <span class="comment">// Initialize multilevel data after MultiBlock</span></div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aa8b243c093bd872b6f7592603ff97792">InitData_post</a> ();</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  </div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a31b92a0c6fa4e19ff90feef3611f5f06">WriteMyEBSurface</a> ();</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  </div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  <span class="comment">// Compute the divergence -- whether EB, no-terrain, flat terrain or general terrain</span></div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a757e8303ce8ed936c05f559349f10aa5">compute_divergence</a> (<span class="keywordtype">int</span> lev, <a class="code" href="namespaceamrex.html">amrex</a>::MultiFab& rhs, <a class="code" href="namespaceamrex.html">amrex</a>::Array<<a class="code" href="namespaceamrex.html">amrex</a>::MultiFab const*,AMREX_SPACEDIM> rho0_u_const,</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  <a class="code" href="namespaceamrex.html">amrex</a>::Geometry const& geom_at_lev);</div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  </div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  <span class="comment">// Project the velocities to be divergence-free -- this is only relevant if anelastic == 1</span></div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad6c0181fed533a5b5a79864b44895506">project_velocities</a> (<span class="keywordtype">int</span> lev, <a class="code" href="namespaceamrex.html">amrex</a>::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>, <a class="code" href="namespaceamrex.html">amrex</a>::Vector<<a class="code" href="namespaceamrex.html">amrex</a>::MultiFab >& vars,</div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span>  <a class="code" href="namespaceamrex.html">amrex</a>::MultiFab& p);</div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span>  </div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span>  <span class="comment">// Project the velocities to be divergence-free with a thin body</span></div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a2847cfdeb389a173ee587ba30a474686">project_velocities_tb</a> (<span class="keywordtype">int</span> lev, <a class="code" href="namespaceamrex.html">amrex</a>::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>, <a class="code" href="namespaceamrex.html">amrex</a>::Vector<<a class="code" href="namespaceamrex.html">amrex</a>::MultiFab >& vars,</div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span>  <a class="code" href="namespaceamrex.html">amrex</a>::MultiFab& p);</div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span>  </div>
<div class="line"><a name="l00174"></a><span class="lineno"> 174</span>  <span class="comment">// Calculate wall distance by solving a Poisson equation</span></div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a984c145a81739ab4c7f8fd03a334d239">poisson_wall_dist</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span>  </div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span> <span class="preprocessor">#ifdef ERF_USE_FFT</span></div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span>  <span class="keywordtype">void</span> solve_with_fft (<span class="keywordtype">int</span> lev, amrex::MultiFab& rhs, amrex::MultiFab& p,</div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span>  amrex::Array<amrex::MultiFab,AMREX_SPACEDIM>& fluxes);</div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00181"></a><span class="lineno"> 181</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aa31ae8bd097ec65d711070aedf11a14a">solve_with_EB_mlmg</a> (<span class="keywordtype">int</span> lev, amrex::Vector<amrex::MultiFab>& rhs, amrex::Vector<amrex::MultiFab>& p,</div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span>  amrex::Vector<amrex::Array<amrex::MultiFab,AMREX_SPACEDIM>>& fluxes);</div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span>  </div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a9866c7874624259ffcfc6edf46dd58ec">solve_with_gmres</a> (<span class="keywordtype">int</span> lev, amrex::Vector<amrex::MultiFab>& rhs, amrex::Vector<amrex::MultiFab>& p,</div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span>  amrex::Vector<amrex::Array<amrex::MultiFab,AMREX_SPACEDIM>>& fluxes);</div>
<div class="line"><a name="l00186"></a><span class="lineno"> 186</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a8a7c7fe95147d8772047aa0772a09564">solve_with_mlmg</a> (<span class="keywordtype">int</span> lev, amrex::Vector<amrex::MultiFab>& rhs, amrex::Vector<amrex::MultiFab>& p,</div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span>  amrex::Vector<amrex::Array<amrex::MultiFab,AMREX_SPACEDIM>>& fluxes);</div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  </div>
<div class="line"><a name="l00189"></a><span class="lineno"> 189</span>  <span class="comment">// Define the projection bc's based on the domain bc types</span></div>
<div class="line"><a name="l00190"></a><span class="lineno"> 190</span>  amrex::Array<amrex::LinOpBCType,AMREX_SPACEDIM></div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span>  <a class="code" href="classERF.html#a57580311d47c9fd5e27ba156d287c169">get_projection_bc</a> (amrex::Orientation::Side side) <span class="keyword">const</span> noexcept;</div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span>  <span class="keywordtype">bool</span> <a class="code" href="classERF.html#a8279f37ed1b99d9111c49c7b3f854c47">projection_has_dirichlet</a> (amrex::Array<amrex::LinOpBCType,AMREX_SPACEDIM> bcs) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  </div>
<div class="line"><a name="l00194"></a><span class="lineno"> 194</span>  <span class="comment">// Init (NOT restart or regrid)</span></div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a80981e20939a6a38ba17478da2253ff1">init_only</a> (<span class="keywordtype">int</span> lev, amrex::Real time);</div>
<div class="line"><a name="l00196"></a><span class="lineno"> 196</span>  </div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span>  <span class="comment">// Restart</span></div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a530d2ce59e6fd46e9fb00e4d11eaf737">restart</a> ();</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  </div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  <span class="comment">// Is it time to write a plotfile or checkpoint?</span></div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  <span class="keywordtype">bool</span> <a class="code" href="classERF.html#af2e4de4eaa0f93149c1aefd58dc7068a">writeNow</a> (<span class="keyword">const</span> amrex::Real cur_time, <span class="keyword">const</span> amrex::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>, <span class="keyword">const</span> <span class="keywordtype">int</span> nstep,</div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> plot_int, <span class="keyword">const</span> amrex::Real plot_per);</div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  </div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  <span class="comment">// Called after every level 0 timestep</span></div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a58f6683aff0fbe6949bfe8b49275a8b3">post_timestep</a> (<span class="keywordtype">int</span> nstep, amrex::Real time, amrex::Real dt_lev);</div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span>  </div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  <span class="comment">// Diagnostics</span></div>
<div class="line"><a name="l00208"></a><span class="lineno"> 208</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a922892a05ee0c5bccd210a3e5a8599e1">sum_integrated_quantities</a> (amrex::Real time);</div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a91c184ac7e5889fe785aa846112ce2e6">sum_derived_quantities</a> (amrex::Real time);</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  </div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a55eae94c5363e227b571739738bb26b7">write_1D_profiles</a> (amrex::Real time);</div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a39efa3a0f3ae3deb7a43f4ce110ee49a">write_1D_profiles_stag</a> (amrex::Real time);</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  </div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  amrex::Real <a class="code" href="classERF.html#a0f6effb7eeed11385b20e4bbf516b459">cloud_fraction</a> (amrex::Real time);</div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span>  </div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span>  <span class="comment">// Fill the physical boundary conditions for cell-centered velocity (diagnostic only)</span></div>
<div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a0857fa7f21e3077bb8bd7808023a6d09">FillBdyCCVels</a> (amrex::Vector<amrex::MultiFab>& mf_cc_vel, <span class="keywordtype">int</span> levc=0);</div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  </div>
<div class="line"><a name="l00219"></a><span class="lineno"> 219</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aa28182226262c67cfd686d35bfeabcad">sample_points</a> (<span class="keywordtype">int</span> lev, amrex::Real time, amrex::IntVect cell, amrex::MultiFab& mf);</div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#afb798c72ea4fde6f4da8d01a24c8c165">sample_lines</a> (<span class="keywordtype">int</span> lev, amrex::Real time, amrex::IntVect cell, amrex::MultiFab& mf);</div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  </div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ab5b66549344d8b04b126fa0ef16c7ca2">derive_diag_profiles</a> (amrex::Real time,</div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_u , amrex::Gpu::HostVector<amrex::Real>& h_avg_v,</div>
<div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_w , amrex::Gpu::HostVector<amrex::Real>& h_avg_rho,</div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_th , amrex::Gpu::HostVector<amrex::Real>& h_avg_ksgs,</div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_Kmv , amrex::Gpu::HostVector<amrex::Real>& h_avg_Khv,</div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qv , amrex::Gpu::HostVector<amrex::Real>& h_avg_qc,</div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qr ,</div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wqv , amrex::Gpu::HostVector<amrex::Real>& h_avg_wqc,</div>
<div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wqr ,</div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qi , amrex::Gpu::HostVector<amrex::Real>& h_avg_qs,</div>
<div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qg ,</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uu , amrex::Gpu::HostVector<amrex::Real>& h_avg_uv,</div>
<div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uw,</div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_vv , amrex::Gpu::HostVector<amrex::Real>& h_avg_vw,</div>
<div class="line"><a name="l00236"></a><span class="lineno"> 236</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_ww,</div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uth , amrex::Gpu::HostVector<amrex::Real>& h_avg_vth,</div>
<div class="line"><a name="l00238"></a><span class="lineno"> 238</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wth, amrex::Gpu::HostVector<amrex::Real>& h_avg_thth,</div>
<div class="line"><a name="l00239"></a><span class="lineno"> 239</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_ku, amrex::Gpu::HostVector<amrex::Real>& h_avg_kv,</div>
<div class="line"><a name="l00240"></a><span class="lineno"> 240</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_kw,</div>
<div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_p,</div>
<div class="line"><a name="l00242"></a><span class="lineno"> 242</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_pu, amrex::Gpu::HostVector<amrex::Real>& h_avg_pv,</div>
<div class="line"><a name="l00243"></a><span class="lineno"> 243</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_pw, amrex::Gpu::HostVector<amrex::Real>& h_avg_wthv);</div>
<div class="line"><a name="l00244"></a><span class="lineno"> 244</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a8b93b715895b00e86e7db653d2a7284a">derive_diag_profiles_stag</a> (amrex::Real time,</div>
<div class="line"><a name="l00245"></a><span class="lineno"> 245</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_u , amrex::Gpu::HostVector<amrex::Real>& h_avg_v,</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_w , amrex::Gpu::HostVector<amrex::Real>& h_avg_rho,</div>
<div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_th , amrex::Gpu::HostVector<amrex::Real>& h_avg_ksgs,</div>
<div class="line"><a name="l00248"></a><span class="lineno"> 248</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_Kmv , amrex::Gpu::HostVector<amrex::Real>& h_avg_Khv,</div>
<div class="line"><a name="l00249"></a><span class="lineno"> 249</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qv , amrex::Gpu::HostVector<amrex::Real>& h_avg_qc,</div>
<div class="line"><a name="l00250"></a><span class="lineno"> 250</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qr ,</div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wqv , amrex::Gpu::HostVector<amrex::Real>& h_avg_wqc,</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wqr ,</div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qi , amrex::Gpu::HostVector<amrex::Real>& h_avg_qs,</div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_qg ,</div>
<div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uu , amrex::Gpu::HostVector<amrex::Real>& h_avg_uv,</div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uw,</div>
<div class="line"><a name="l00257"></a><span class="lineno"> 257</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_vv , amrex::Gpu::HostVector<amrex::Real>& h_avg_vw,</div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_ww,</div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_uth , amrex::Gpu::HostVector<amrex::Real>& h_avg_vth,</div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_wth, amrex::Gpu::HostVector<amrex::Real>& h_avg_thth,</div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_ku, amrex::Gpu::HostVector<amrex::Real>& h_avg_kv,</div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_kw,</div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_p,</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_pu, amrex::Gpu::HostVector<amrex::Real>& h_avg_pv,</div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_pw, amrex::Gpu::HostVector<amrex::Real>& h_avg_wthv);</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  </div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad7886dcab90f37a8fcc91ede0c68b6cb">derive_stress_profiles</a> (amrex::Gpu::HostVector<amrex::Real>& h_avg_tau11, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau12,</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_tau13, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau22,</div>
<div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_tau23, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau33,</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_hfx3, amrex::Gpu::HostVector<amrex::Real>& h_avg_q1fx3,</div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_q2fx3, amrex::Gpu::HostVector<amrex::Real>& h_avg_diss);</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ae09680325ba108583147eb2e254a266e">derive_stress_profiles_stag</a> (amrex::Gpu::HostVector<amrex::Real>& h_avg_tau11, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau12,</div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_tau13, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau22,</div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_tau23, amrex::Gpu::HostVector<amrex::Real>& h_avg_tau33,</div>
<div class="line"><a name="l00275"></a><span class="lineno"> 275</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_hfx3, amrex::Gpu::HostVector<amrex::Real>& h_avg_q1fx3,</div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  amrex::Gpu::HostVector<amrex::Real>& h_avg_q2fx3, amrex::Gpu::HostVector<amrex::Real>& h_avg_diss);</div>
<div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  </div>
<div class="line"><a name="l00278"></a><span class="lineno"> 278</span>  <span class="comment">// Perform the volume-weighted sum</span></div>
<div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  amrex::Real</div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  <a class="code" href="classERF.html#a379ddb8c6e4e37f8aad17a9fed5270ff">volWgtSumMF</a> (<span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::MultiFab& mf, <span class="keywordtype">int</span> comp,</div>
<div class="line"><a name="l00281"></a><span class="lineno"> 281</span>  <span class="keyword">const</span> amrex::MultiFab& mapfac, <span class="keywordtype">bool</span> finemask);</div>
<div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  </div>
<div class="line"><a name="l00283"></a><span class="lineno"> 283</span>  <span class="comment">// Decide if it is time to take an action</span></div>
<div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  <span class="keyword">static</span> <span class="keywordtype">bool</span> <a class="code" href="classERF.html#ad4c61fad53912d1e8d0f774d365bcf0f">is_it_time_for_action</a> (<span class="keywordtype">int</span> nstep, amrex::Real time, amrex::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>,</div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span>  <span class="keywordtype">int</span> action_interval, amrex::Real action_per);</div>
<div class="line"><a name="l00286"></a><span class="lineno"> 286</span>  </div>
<div class="line"><a name="l00287"></a><span class="lineno"> 287</span>  <span class="comment">// Make a new level using provided BoxArray and DistributionMapping and</span></div>
<div class="line"><a name="l00288"></a><span class="lineno"> 288</span>  <span class="comment">// fill with interpolated coarse level data.</span></div>
<div class="line"><a name="l00289"></a><span class="lineno"> 289</span>  <span class="comment">// overrides the pure virtual function in AmrCore</span></div>
<div class="line"><a name="l00290"></a><span class="lineno"> 290</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#abb6175c28b36d23f5dda2994ca4a85e7">MakeNewLevelFromCoarse</a> (<span class="keywordtype">int</span> lev, amrex::Real time, <span class="keyword">const</span> amrex::BoxArray& ba,</div>
<div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  <span class="keyword">const</span> amrex::DistributionMapping& dm) <span class="keyword">override</span>;</div>
<div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  </div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  <span class="comment">// Remake an existing level using provided BoxArray and DistributionMapping and</span></div>
<div class="line"><a name="l00294"></a><span class="lineno"> 294</span>  <span class="comment">// fill with existing fine and coarse data.</span></div>
<div class="line"><a name="l00295"></a><span class="lineno"> 295</span>  <span class="comment">// overrides the pure virtual function in AmrCore</span></div>
<div class="line"><a name="l00296"></a><span class="lineno"> 296</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aae7a3a76e08e54c618cf79b30ed2d73d">RemakeLevel</a> (<span class="keywordtype">int</span> lev, amrex::Real time, <span class="keyword">const</span> amrex::BoxArray& ba,</div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  <span class="keyword">const</span> amrex::DistributionMapping& dm) <span class="keyword">override</span>;</div>
<div class="line"><a name="l00298"></a><span class="lineno"> 298</span>  </div>
<div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  <span class="comment">// Delete level data</span></div>
<div class="line"><a name="l00300"></a><span class="lineno"> 300</span>  <span class="comment">// overrides the pure virtual function in AmrCore</span></div>
<div class="line"><a name="l00301"></a><span class="lineno"> 301</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ac44e400a7ce68e18fa44e9416cb1344e">ClearLevel</a> (<span class="keywordtype">int</span> lev) <span class="keyword">override</span>;</div>
<div class="line"><a name="l00302"></a><span class="lineno"> 302</span>  </div>
<div class="line"><a name="l00303"></a><span class="lineno"> 303</span>  <span class="comment">// Make a new level from scratch using provided BoxArray and DistributionMapping.</span></div>
<div class="line"><a name="l00304"></a><span class="lineno"> 304</span>  <span class="comment">// Only used during initialization.</span></div>
<div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  <span class="comment">// overrides the pure virtual function in AmrCore</span></div>
<div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aaf10bbf8c9a5dbc257a88c4c1b650fee">MakeNewLevelFromScratch</a> (<span class="keywordtype">int</span> lev, amrex::Real time, <span class="keyword">const</span> amrex::BoxArray& ba,</div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  <span class="keyword">const</span> amrex::DistributionMapping& dm) <span class="keyword">override</span>;</div>
<div class="line"><a name="l00308"></a><span class="lineno"> 308</span>  </div>
<div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  <span class="comment">// compute dt from CFL considerations</span></div>
<div class="line"><a name="l00310"></a><span class="lineno"> 310</span>  amrex::Real <a class="code" href="classERF.html#a6b1d727e63de2e49aa4f8e00b0dda1d5">estTimeStep</a> (<span class="keywordtype">int</span> lev, <span class="keywordtype">long</span>& dt_fast_ratio) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00311"></a><span class="lineno"> 311</span>  </div>
<div class="line"><a name="l00312"></a><span class="lineno"> 312</span> <span class="preprocessor">#ifdef ERF_USE_WW3_COUPLING</span></div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  <span class="comment">//amrex::Print() << " About to call send_to_ww3 from ERF.H" << std::endl;</span></div>
<div class="line"><a name="l00314"></a><span class="lineno"> 314</span>  <span class="keywordtype">void</span> send_to_ww3(<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00315"></a><span class="lineno"> 315</span>  <span class="comment">//amrex::Print() << " About to call read_waves from ERF.H" << std::endl;</span></div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  <span class="keywordtype">void</span> read_waves(<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00317"></a><span class="lineno"> 317</span>  <span class="comment">//void send_to_ww3 (int lev);</span></div>
<div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  <span class="comment">//void read_waves (int lev);</span></div>
<div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  </div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span>  <span class="comment">//void send_to_ww3 (int lev);</span></div>
<div class="line"><a name="l00321"></a><span class="lineno"> 321</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00322"></a><span class="lineno"> 322</span>  </div>
<div class="line"><a name="l00323"></a><span class="lineno"> 323</span>  <span class="comment">// Interface for advancing the data at one level by one "slow" timestep</span></div>
<div class="line"><a name="l00324"></a><span class="lineno"> 324</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#af836d1bb05ac4c9f535358e14714f13e">advance_dycore</a> (<span class="keywordtype">int</span> level,</div>
<div class="line"><a name="l00325"></a><span class="lineno"> 325</span>  amrex::Vector<amrex::MultiFab>& state_old,</div>
<div class="line"><a name="l00326"></a><span class="lineno"> 326</span>  amrex::Vector<amrex::MultiFab>& state_new,</div>
<div class="line"><a name="l00327"></a><span class="lineno"> 327</span>  amrex::MultiFab& xvel_old, amrex::MultiFab& yvel_old, amrex::MultiFab& zvel_old,</div>
<div class="line"><a name="l00328"></a><span class="lineno"> 328</span>  amrex::MultiFab& xvel_new, amrex::MultiFab& yvel_new, amrex::MultiFab& zvel_new,</div>
<div class="line"><a name="l00329"></a><span class="lineno"> 329</span>  amrex::MultiFab& source, amrex::MultiFab& xmom_src,</div>
<div class="line"><a name="l00330"></a><span class="lineno"> 330</span>  amrex::MultiFab& ymom_src, amrex::MultiFab& zmom_src,</div>
<div class="line"><a name="l00331"></a><span class="lineno"> 331</span>  amrex::Geometry fine_geom,</div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span>  amrex::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>, amrex::Real time);</div>
<div class="line"><a name="l00333"></a><span class="lineno"> 333</span>  </div>
<div class="line"><a name="l00334"></a><span class="lineno"> 334</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad64b5fe566102dc053b35ad337971a3e">advance_microphysics</a> (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00335"></a><span class="lineno"> 335</span>  amrex::MultiFab& cons_in,</div>
<div class="line"><a name="l00336"></a><span class="lineno"> 336</span>  <span class="keyword">const</span> amrex::Real& dt_advance,</div>
<div class="line"><a name="l00337"></a><span class="lineno"> 337</span>  <span class="keyword">const</span> <span class="keywordtype">int</span>& iteration,</div>
<div class="line"><a name="l00338"></a><span class="lineno"> 338</span>  <span class="keyword">const</span> amrex::Real& time);</div>
<div class="line"><a name="l00339"></a><span class="lineno"> 339</span>  </div>
<div class="line"><a name="l00340"></a><span class="lineno"> 340</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ab463dd8a88f21f3a5ff33b583a883c28">advance_lsm</a> (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00341"></a><span class="lineno"> 341</span>  amrex::MultiFab& cons_in,</div>
<div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  amrex::MultiFab& xvel_in,</div>
<div class="line"><a name="l00343"></a><span class="lineno"> 343</span>  amrex::MultiFab& yvel_in,</div>
<div class="line"><a name="l00344"></a><span class="lineno"> 344</span>  <span class="keyword">const</span> amrex::Real& dt_advance);</div>
<div class="line"><a name="l00345"></a><span class="lineno"> 345</span>  </div>
<div class="line"><a name="l00346"></a><span class="lineno"> 346</span> <span class="preprocessor">#if defined(ERF_USE_RRTMGP)</span></div>
<div class="line"><a name="l00347"></a><span class="lineno"> 347</span>  <span class="keywordtype">void</span> advance_radiation (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00348"></a><span class="lineno"> 348</span>  amrex::MultiFab& cons_in,</div>
<div class="line"><a name="l00349"></a><span class="lineno"> 349</span>  <span class="keyword">const</span> amrex::Real& dt_advance);</div>
<div class="line"><a name="l00350"></a><span class="lineno"> 350</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00351"></a><span class="lineno"> 351</span>  </div>
<div class="line"><a name="l00352"></a><span class="lineno"> 352</span>  amrex::MultiFab& <a class="code" href="classERF.html#af46289079e053a6d74ddef0bf1a5d8a3">build_fine_mask</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00353"></a><span class="lineno"> 353</span>  </div>
<div class="line"><a name="l00354"></a><span class="lineno"> 354</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a01987b2556834788694f2f3741a2afe4">MakeHorizontalAverages</a> ();</div>
<div class="line"><a name="l00355"></a><span class="lineno"> 355</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a93ed2dd2c2441da6853d6f48b6467324">MakeDiagnosticAverage</a> (amrex::Vector<amrex::Real>& h_havg, amrex::MultiFab& S, <span class="keywordtype">int</span> n);</div>
<div class="line"><a name="l00356"></a><span class="lineno"><a class="line" href="classERF.html#af1981699bedbbfd6785f26ca340a74d8"> 356</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#af1981699bedbbfd6785f26ca340a74d8">derive_upwp</a> (amrex::Vector<amrex::Real>& h_havg);</div>
<div class="line"><a name="l00357"></a><span class="lineno"> 357</span>  </div>
<div class="line"><a name="l00358"></a><span class="lineno"> 358</span>  <span class="comment">// Write plotfile to disk</span></div>
<div class="line"><a name="l00359"></a><span class="lineno"> 359</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a98cccb83ca76c44d6ae583d051e76faf">WritePlotFile</a> (<span class="keywordtype">int</span> which, PlotFileType plotfile_type, amrex::Vector<std::string> plot_var_names);</div>
<div class="line"><a name="l00360"></a><span class="lineno"> 360</span>  </div>
<div class="line"><a name="l00361"></a><span class="lineno"> 361</span>  <span class="comment">// Write subvolume of data into a different "plotfile"</span></div>
<div class="line"><a name="l00362"></a><span class="lineno"> 362</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a3849ef0f90b5798c571259313a3d501a">WriteSubvolume</a> ();</div>
<div class="line"><a name="l00363"></a><span class="lineno"> 363</span>  </div>
<div class="line"><a name="l00364"></a><span class="lineno"> 364</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a61510e69bdaee84a01cf33943b043a5c">WriteMultiLevelPlotfileWithTerrain</a> (<span class="keyword">const</span> std::string &plotfilename,</div>
<div class="line"><a name="l00365"></a><span class="lineno"> 365</span>  <span class="keywordtype">int</span> nlevels,</div>
<div class="line"><a name="l00366"></a><span class="lineno"> 366</span>  <span class="keyword">const</span> amrex::Vector<const amrex::MultiFab*> &mf,</div>
<div class="line"><a name="l00367"></a><span class="lineno"> 367</span>  <span class="keyword">const</span> amrex::Vector<const amrex::MultiFab*> &mf_nd,</div>
<div class="line"><a name="l00368"></a><span class="lineno"> 368</span>  <span class="keyword">const</span> amrex::Vector<std::string> &varnames,</div>
<div class="line"><a name="l00369"></a><span class="lineno"> 369</span>  <span class="keyword">const</span> amrex::Vector<amrex::Geometry>& my_geom,</div>
<div class="line"><a name="l00370"></a><span class="lineno"> 370</span>  amrex::Real time,</div>
<div class="line"><a name="l00371"></a><span class="lineno"> 371</span>  <span class="keyword">const</span> amrex::Vector<int> &level_steps,</div>
<div class="line"><a name="l00372"></a><span class="lineno"> 372</span>  <span class="keyword">const</span> amrex::Vector<amrex::IntVect>& my_ref_ratio,</div>
<div class="line"><a name="l00373"></a><span class="lineno"> 373</span>  <span class="keyword">const</span> std::string &versionName = <span class="stringliteral">"HyperCLaw-V1.1"</span>,</div>
<div class="line"><a name="l00374"></a><span class="lineno"> 374</span>  <span class="keyword">const</span> std::string &levelPrefix = <span class="stringliteral">"Level_"</span>,</div>
<div class="line"><a name="l00375"></a><span class="lineno"> 375</span>  <span class="keyword">const</span> std::string &mfPrefix = <span class="stringliteral">"Cell"</span>,</div>
<div class="line"><a name="l00376"></a><span class="lineno"> 376</span>  <span class="keyword">const</span> amrex::Vector<std::string>& extra_dirs = amrex::Vector<std::string>()) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00377"></a><span class="lineno"> 377</span>  </div>
<div class="line"><a name="l00378"></a><span class="lineno"> 378</span>  </div>
<div class="line"><a name="l00379"></a><span class="lineno"> 379</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a3a918bd26ed0c1dc2efa75c2586ff664">WriteGenericPlotfileHeaderWithTerrain</a> (std::ostream &HeaderFile,</div>
<div class="line"><a name="l00380"></a><span class="lineno"> 380</span>  <span class="keywordtype">int</span> nlevels,</div>
<div class="line"><a name="l00381"></a><span class="lineno"> 381</span>  <span class="keyword">const</span> amrex::Vector<amrex::BoxArray> &bArray,</div>
<div class="line"><a name="l00382"></a><span class="lineno"> 382</span>  <span class="keyword">const</span> amrex::Vector<std::string> &varnames,</div>
<div class="line"><a name="l00383"></a><span class="lineno"> 383</span>  <span class="keyword">const</span> amrex::Vector<amrex::Geometry>& my_geom,</div>
<div class="line"><a name="l00384"></a><span class="lineno"> 384</span>  amrex::Real time,</div>
<div class="line"><a name="l00385"></a><span class="lineno"> 385</span>  <span class="keyword">const</span> amrex::Vector<int> &level_steps,</div>
<div class="line"><a name="l00386"></a><span class="lineno"> 386</span>  <span class="keyword">const</span> amrex::Vector<amrex::IntVect>& my_ref_ratio,</div>
<div class="line"><a name="l00387"></a><span class="lineno"> 387</span>  <span class="keyword">const</span> std::string &versionName,</div>
<div class="line"><a name="l00388"></a><span class="lineno"> 388</span>  <span class="keyword">const</span> std::string &levelPrefix,</div>
<div class="line"><a name="l00389"></a><span class="lineno"> 389</span>  <span class="keyword">const</span> std::string &mfPrefix) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00390"></a><span class="lineno"> 390</span>  </div>
<div class="line"><a name="l00391"></a><span class="lineno"> 391</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a29929644893f3e44beb5ed9403cbdaac">erf_enforce_hse</a> (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00392"></a><span class="lineno"> 392</span>  amrex::MultiFab& dens, amrex::MultiFab& <a class="code" href="namespaceMicVar__Kess.html#a889f8349e0684381d06cc26a8b1f49ffa82dd7c202e6cce14520ac01cfaa4f4ad">pres</a>, amrex::MultiFab& pi,</div>
<div class="line"><a name="l00393"></a><span class="lineno"> 393</span>  amrex::MultiFab& th, amrex::MultiFab& <a class="code" href="namespaceMicVar__Kess.html#a889f8349e0684381d06cc26a8b1f49ffaf099273d19f4b8cdca199c5177231e35">qv</a>,</div>
<div class="line"><a name="l00394"></a><span class="lineno"> 394</span>  std::unique_ptr<amrex::MultiFab>& z_cc);</div>
<div class="line"><a name="l00395"></a><span class="lineno"> 395</span>  </div>
<div class="line"><a name="l00396"></a><span class="lineno"> 396</span> <span class="preprocessor">#ifdef ERF_USE_NETCDF</span><span class="comment"></span></div>
<div class="line"><a name="l00397"></a><span class="lineno"> 397</span> <span class="comment"> //! Write a timestep to 1D vertical column output for coupling</span></div>
<div class="line"><a name="l00398"></a><span class="lineno"> 398</span> <span class="comment"></span> <span class="keywordtype">void</span> writeToNCColumnFile (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00399"></a><span class="lineno"> 399</span>  <span class="keyword">const</span> std::string& colfile_name, amrex::Real xloc, amrex::Real yloc,</div>
<div class="line"><a name="l00400"></a><span class="lineno"> 400</span>  amrex::Real time);</div>
<div class="line"><a name="l00401"></a><span class="lineno"> 401</span> <span class="preprocessor">#endif </span><span class="comment">//ERF_USE_NETCDF</span></div>
<div class="line"><a name="l00402"></a><span class="lineno"> 402</span>  </div>
<div class="line"><a name="l00403"></a><span class="lineno"> 403</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a2908bcd920ab5e3fef171a37302853ec">init_from_input_sounding</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00404"></a><span class="lineno"> 404</span>  </div>
<div class="line"><a name="l00405"></a><span class="lineno"> 405</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#abfdc95a7c3cf7e413c1352bac38c93e8">input_sponge</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00406"></a><span class="lineno"> 406</span>  </div>
<div class="line"><a name="l00407"></a><span class="lineno"> 407</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a857a8f76768ec4451b995cbf4f4ac176">init_from_hse</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00408"></a><span class="lineno"> 408</span>  </div>
<div class="line"><a name="l00409"></a><span class="lineno"> 409</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#af4f87fb01d61c18d8eb85ac5ac159785">init_thin_body</a> (<span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::BoxArray& ba, <span class="keyword">const</span> amrex::DistributionMapping& dm);</div>
<div class="line"><a name="l00410"></a><span class="lineno"> 410</span>  </div>
<div class="line"><a name="l00411"></a><span class="lineno"> 411</span> <span class="preprocessor">#ifdef ERF_USE_MULTIBLOCK</span></div>
<div class="line"><a name="l00412"></a><span class="lineno"> 412</span>  <span class="comment">// constructor used when ERF is created by a multiblock driver</span></div>
<div class="line"><a name="l00413"></a><span class="lineno"> 413</span>  <span class="comment">// calls AmrCore constructor -> AmrMesh constructor</span></div>
<div class="line"><a name="l00414"></a><span class="lineno"> 414</span>  <a class="code" href="classERF.html#a30129012dd367825e5e4fd1406694f58">ERF</a> (<span class="keyword">const</span> amrex::RealBox& rb, <span class="keywordtype">int</span> max_level_in,</div>
<div class="line"><a name="l00415"></a><span class="lineno"> 415</span>  <span class="keyword">const</span> amrex::Vector<int>& n_cell_in, <span class="keywordtype">int</span> coord,</div>
<div class="line"><a name="l00416"></a><span class="lineno"> 416</span>  <span class="keyword">const</span> amrex::Vector<amrex::IntVect>& ref_ratio,</div>
<div class="line"><a name="l00417"></a><span class="lineno"> 417</span>  <span class="keyword">const</span> amrex::Array<int,AMREX_SPACEDIM>& is_per,</div>
<div class="line"><a name="l00418"></a><span class="lineno"> 418</span>  std::string prefix);</div>
<div class="line"><a name="l00419"></a><span class="lineno"> 419</span>  </div>
<div class="line"><a name="l00420"></a><span class="lineno"> 420</span>  <span class="comment">// Advance a block specified number of time steps</span></div>
<div class="line"><a name="l00421"></a><span class="lineno"> 421</span>  <span class="keywordtype">void</span> Evolve_MB (<span class="keywordtype">int</span> MBstep, <span class="keywordtype">int</span> max_block_step);</div>
<div class="line"><a name="l00422"></a><span class="lineno"> 422</span>  </div>
<div class="line"><a name="l00423"></a><span class="lineno"> 423</span>  <span class="comment">// get the current time values and dt</span></div>
<div class="line"><a name="l00424"></a><span class="lineno"> 424</span>  amrex::Real get_t_old (<span class="keywordtype">int</span> lev) { <span class="keywordflow">return</span> <a class="code" href="classERF.html#a7085d7d5fc94a0f84efc06957267d58e">t_old</a>[lev]; }</div>
<div class="line"><a name="l00425"></a><span class="lineno"> 425</span>  amrex::Real get_t_new (<span class="keywordtype">int</span> lev) { <span class="keywordflow">return</span> <a class="code" href="classERF.html#a65741b6379d273c19a25cf48bb947614">t_new</a>[lev]; }</div>
<div class="line"><a name="l00426"></a><span class="lineno"> 426</span>  amrex::Real get_dt (<span class="keywordtype">int</span> lev) { <span class="keywordflow">return</span> <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>[lev]; }</div>
<div class="line"><a name="l00427"></a><span class="lineno"> 427</span>  </div>
<div class="line"><a name="l00428"></a><span class="lineno"> 428</span>  <span class="comment">// Set parmparse prefix for MultiBlock</span></div>
<div class="line"><a name="l00429"></a><span class="lineno"> 429</span>  <span class="keywordtype">void</span> SetParmParsePrefix (std::string name) { <a class="code" href="classERF.html#a59df30e7a5537c8543bb00772bd98b58">pp_prefix</a> = name; }</div>
<div class="line"><a name="l00430"></a><span class="lineno"> 430</span>  </div>
<div class="line"><a name="l00431"></a><span class="lineno"> 431</span>  <span class="comment">// Set 'this' from multiblock container</span></div>
<div class="line"><a name="l00432"></a><span class="lineno"> 432</span>  <span class="keywordtype">void</span> SetMultiBlockPointer (MultiBlockContainer *mbc) { m_mbc = mbc; }</div>
<div class="line"><a name="l00433"></a><span class="lineno"> 433</span>  </div>
<div class="line"><a name="l00434"></a><span class="lineno"> 434</span>  <span class="comment">// Public data copy for MB</span></div>
<div class="line"><a name="l00435"></a><span class="lineno"> 435</span>  std::vector<amrex::Box> domain_p;</div>
<div class="line"><a name="l00436"></a><span class="lineno"> 436</span>  amrex::Vector<amrex::Vector<amrex::MultiFab> > <a class="code" href="classERF.html#a1204ca4dc5d79f5da191ffbe09dfab9b">vars_new</a>;</div>
<div class="line"><a name="l00437"></a><span class="lineno"> 437</span>  amrex::Vector<amrex::Vector<amrex::MultiFab> > <a class="code" href="classERF.html#af31e928baa970a1507dfb0233b352542">vars_old</a>;</div>
<div class="line"><a name="l00438"></a><span class="lineno"> 438</span>  </div>
<div class="line"><a name="l00439"></a><span class="lineno"> 439</span>  <span class="comment">// Velocity time averaged field</span></div>
<div class="line"><a name="l00440"></a><span class="lineno"> 440</span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a3e146164ca6929ec6d4984b6a3f43c81">vel_t_avg</a>;</div>
<div class="line"><a name="l00441"></a><span class="lineno"> 441</span>  amrex::Vector<amrex::Real> <a class="code" href="classERF.html#a6837423e9248e923fcaa1987b59d8160">t_avg_cnt</a>;</div>
<div class="line"><a name="l00442"></a><span class="lineno"> 442</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00443"></a><span class="lineno"> 443</span>  </div>
<div class="line"><a name="l00444"></a><span class="lineno"><a class="line" href="classERF.html#a59df30e7a5537c8543bb00772bd98b58"> 444</a></span>  std::string <a class="code" href="classERF.html#a59df30e7a5537c8543bb00772bd98b58">pp_prefix</a> {<span class="stringliteral">"erf"</span>};</div>
<div class="line"><a name="l00445"></a><span class="lineno"> 445</span>  </div>
<div class="line"><a name="l00446"></a><span class="lineno"> 446</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a2135641de33dea5057799569c74cac42">fill_from_bndryregs</a> (<span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs,</div>
<div class="line"><a name="l00447"></a><span class="lineno"> 447</span>  amrex::Real time);</div>
<div class="line"><a name="l00448"></a><span class="lineno"> 448</span>  </div>
<div class="line"><a name="l00449"></a><span class="lineno"> 449</span> <span class="preprocessor">#ifdef ERF_USE_NETCDF</span></div>
<div class="line"><a name="l00450"></a><span class="lineno"> 450</span>  <span class="keywordtype">void</span> fill_from_realbdy (<span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs,</div>
<div class="line"><a name="l00451"></a><span class="lineno"> 451</span>  amrex::Real time,</div>
<div class="line"><a name="l00452"></a><span class="lineno"> 452</span>  <span class="keywordtype">bool</span> cons_only,</div>
<div class="line"><a name="l00453"></a><span class="lineno"> 453</span>  <span class="keywordtype">int</span> icomp_cons,</div>
<div class="line"><a name="l00454"></a><span class="lineno"> 454</span>  <span class="keywordtype">int</span> ncomp_cons,</div>
<div class="line"><a name="l00455"></a><span class="lineno"> 455</span>  amrex::IntVect ngvect_cons,</div>
<div class="line"><a name="l00456"></a><span class="lineno"> 456</span>  amrex::IntVect ngvect_vels);</div>
<div class="line"><a name="l00457"></a><span class="lineno"> 457</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00458"></a><span class="lineno"> 458</span>  </div>
<div class="line"><a name="l00459"></a><span class="lineno"> 459</span> <span class="preprocessor">#ifdef ERF_USE_NETCDF</span></div>
<div class="line"><a name="l00460"></a><span class="lineno"> 460</span>  <span class="keywordtype">void</span> init_from_wrfinput (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00461"></a><span class="lineno"> 461</span>  <span class="keywordtype">void</span> init_from_metgrid (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00462"></a><span class="lineno"> 462</span> <span class="preprocessor">#endif </span><span class="comment">// ERF_USE_NETCDF</span></div>
<div class="line"><a name="l00463"></a><span class="lineno"> 463</span>  </div>
<div class="line"><a name="l00464"></a><span class="lineno"> 464</span> <span class="preprocessor">#ifdef ERF_USE_WINDFARM</span></div>
<div class="line"><a name="l00465"></a><span class="lineno"> 465</span>  <span class="keywordtype">void</span> init_windfarm(<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00466"></a><span class="lineno"> 466</span>  <span class="keywordtype">void</span> advance_windfarm (<span class="keyword">const</span> amrex::Geometry& a_geom,</div>
<div class="line"><a name="l00467"></a><span class="lineno"> 467</span>  <span class="keyword">const</span> amrex::Real& dt_advance,</div>
<div class="line"><a name="l00468"></a><span class="lineno"> 468</span>  amrex::MultiFab& cons_in,</div>
<div class="line"><a name="l00469"></a><span class="lineno"> 469</span>  amrex::MultiFab& U_old, amrex::MultiFab& V_old, amrex::MultiFab& W_old,</div>
<div class="line"><a name="l00470"></a><span class="lineno"> 470</span>  amrex::MultiFab& mf_vars_windfarm,</div>
<div class="line"><a name="l00471"></a><span class="lineno"> 471</span>  <span class="keyword">const</span> amrex::MultiFab& mf_Nturb,</div>
<div class="line"><a name="l00472"></a><span class="lineno"> 472</span>  <span class="keyword">const</span> amrex::MultiFab& mf_SMark,</div>
<div class="line"><a name="l00473"></a><span class="lineno"> 473</span>  <span class="keyword">const</span> amrex::Real& time);</div>
<div class="line"><a name="l00474"></a><span class="lineno"> 474</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00475"></a><span class="lineno"> 475</span>  </div>
<div class="line"><a name="l00476"></a><span class="lineno"><a class="line" href="classERF.html#a0572de619e757aab7ad9a4e0c7967da4"> 476</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a0572de619e757aab7ad9a4e0c7967da4">MakeEBGeometry</a> ();</div>
<div class="line"><a name="l00477"></a><span class="lineno"><a class="line" href="classERF.html#a0cf9cd65604501647629fd69a0d28bb6"> 477</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a0cf9cd65604501647629fd69a0d28bb6">make_eb_box</a> ();</div>
<div class="line"><a name="l00478"></a><span class="lineno"><a class="line" href="classERF.html#aeca994ecf1b09d58cdc991920504ec34"> 478</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aeca994ecf1b09d58cdc991920504ec34">make_eb_regular</a> ();</div>
<div class="line"><a name="l00479"></a><span class="lineno"> 479</span>  </div>
<div class="line"><a name="l00480"></a><span class="lineno"> 480</span>  <span class="comment">// more flexible version of AverageDown() that lets you average down across multiple levels</span></div>
<div class="line"><a name="l00481"></a><span class="lineno"> 481</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ae17524f168760cf435685a08d97480e7">AverageDownTo</a> (<span class="keywordtype">int</span> crse_lev, <span class="keywordtype">int</span> scomp, <span class="keywordtype">int</span> ncomp); <span class="comment">// NOLINT</span></div>
<div class="line"><a name="l00482"></a><span class="lineno"> 482</span>  </div>
<div class="line"><a name="l00483"></a><span class="lineno"> 483</span>  <span class="comment">// write checkpoint file to disk</span></div>
<div class="line"><a name="l00484"></a><span class="lineno"> 484</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad101fd46096db2d6b21544bfede6551f">WriteCheckpointFile</a> () <span class="keyword">const</span>;</div>
<div class="line"><a name="l00485"></a><span class="lineno"> 485</span>  </div>
<div class="line"><a name="l00486"></a><span class="lineno"> 486</span>  <span class="comment">// read checkpoint file from disk</span></div>
<div class="line"><a name="l00487"></a><span class="lineno"> 487</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#af285247b24b173cd851fe49799d17f42">ReadCheckpointFile</a> ();</div>
<div class="line"><a name="l00488"></a><span class="lineno"> 488</span>  </div>
<div class="line"><a name="l00489"></a><span class="lineno"> 489</span>  <span class="comment">// read checkpoint file from disk -- called after instantiating m_most</span></div>
<div class="line"><a name="l00490"></a><span class="lineno"> 490</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a53fbe0d6ca7ba034c618eb7052ed9771">ReadCheckpointFileMOST</a> ();</div>
<div class="line"><a name="l00491"></a><span class="lineno"> 491</span>  </div>
<div class="line"><a name="l00492"></a><span class="lineno"> 492</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a8f50cd1ba85fbf9ae0579a56ba06eb1b">init_zphys</a> (<span class="keywordtype">int</span> lev, amrex::Real time);</div>
<div class="line"><a name="l00493"></a><span class="lineno"> 493</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a691172d44ab3e8b4d6fb18c068cc1ab4">remake_zphys</a> (<span class="keywordtype">int</span> lev, amrex::Real time, std::unique_ptr<amrex::MultiFab>& temp_zphys_nd);</div>
<div class="line"><a name="l00494"></a><span class="lineno"> 494</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a7dba7f9e6bd3f6898fac9ac2efcec692">update_terrain_arrays</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00495"></a><span class="lineno"> 495</span>  </div>
<div class="line"><a name="l00496"></a><span class="lineno"> 496</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00497"></a><span class="lineno"> 497</span> <span class="comment"></span> </div>
<div class="line"><a name="l00498"></a><span class="lineno"> 498</span> <span class="comment"> ///////////////////////////</span></div>
<div class="line"><a name="l00499"></a><span class="lineno"> 499</span> <span class="comment"></span> <span class="comment">// private member functions</span><span class="comment"></span></div>
<div class="line"><a name="l00500"></a><span class="lineno"> 500</span> <span class="comment"> ///////////////////////////</span></div>
<div class="line"><a name="l00501"></a><span class="lineno"> 501</span> <span class="comment"></span> </div>
<div class="line"><a name="l00502"></a><span class="lineno"> 502</span>  <span class="comment">// read in some parameters from inputs file</span></div>
<div class="line"><a name="l00503"></a><span class="lineno"> 503</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a2d39cd3bdc3d90609ad3b14e266d190a">ReadParameters</a> ();</div>
<div class="line"><a name="l00504"></a><span class="lineno"> 504</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ad71a033b3fd107465a8621eaf7c77b28">ParameterSanityChecks</a> ();</div>
<div class="line"><a name="l00505"></a><span class="lineno"> 505</span>  </div>
<div class="line"><a name="l00506"></a><span class="lineno"> 506</span>  <span class="comment">// set covered coarse cells/faces to be the average of overlying fine cells/faces</span></div>
<div class="line"><a name="l00507"></a><span class="lineno"> 507</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a8202de1f8f372e3e6fdc483447c6a55f">AverageDown</a> ();</div>
<div class="line"><a name="l00508"></a><span class="lineno"> 508</span>  </div>
<div class="line"><a name="l00509"></a><span class="lineno"> 509</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a419510fced05e9afc05c466beeeb66f7">update_diffusive_arrays</a> (<span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::BoxArray& ba, <span class="keyword">const</span> amrex::DistributionMapping& dm);</div>
<div class="line"><a name="l00510"></a><span class="lineno"> 510</span>  </div>
<div class="line"><a name="l00511"></a><span class="lineno"> 511</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#adc284f421c5fd9dd15c0e5cbe4ff5fc8">Construct_ERFFillPatchers</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00512"></a><span class="lineno"> 512</span>  </div>
<div class="line"><a name="l00513"></a><span class="lineno"> 513</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ac0951404aa6802aad7a3be6b7375dfa2">Define_ERFFillPatchers</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00514"></a><span class="lineno"> 514</span>  </div>
<div class="line"><a name="l00515"></a><span class="lineno"><a class="line" href="classERF.html#a7261c4eb7722af0dfe6cdfb8e2e9e4db"> 515</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a7261c4eb7722af0dfe6cdfb8e2e9e4db">init1DArrays</a> ();</div>
<div class="line"><a name="l00516"></a><span class="lineno"> 516</span>  </div>
<div class="line"><a name="l00517"></a><span class="lineno"> 517</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a618e8fdff3239cc79d4145d02b1ecaa2">init_bcs</a> ();</div>
<div class="line"><a name="l00518"></a><span class="lineno"> 518</span>  </div>
<div class="line"><a name="l00519"></a><span class="lineno"> 519</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a604939a8058f7efa36a427adb889739c">init_custom</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00520"></a><span class="lineno"> 520</span>  </div>
<div class="line"><a name="l00521"></a><span class="lineno"> 521</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ae618963cf90e247b72fbd71d5b13599d">init_uniform</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00522"></a><span class="lineno"> 522</span>  </div>
<div class="line"><a name="l00523"></a><span class="lineno"> 523</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aaf237fbe118d80f149295c0579608579">init_stuff</a> (<span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::BoxArray& ba, <span class="keyword">const</span> amrex::DistributionMapping& dm,</div>
<div class="line"><a name="l00524"></a><span class="lineno"> 524</span>  amrex::Vector<amrex::MultiFab>& lev_new, amrex::Vector<amrex::MultiFab>& lev_old,</div>
<div class="line"><a name="l00525"></a><span class="lineno"> 525</span>  amrex::MultiFab& tmp_base_state,</div>
<div class="line"><a name="l00526"></a><span class="lineno"> 526</span>  std::unique_ptr<amrex::MultiFab>& tmp_zphys_nd);</div>
<div class="line"><a name="l00527"></a><span class="lineno"> 527</span>  </div>
<div class="line"><a name="l00528"></a><span class="lineno"> 528</span>  <span class="comment">// Initialize the Turbulent perturbation</span></div>
<div class="line"><a name="l00529"></a><span class="lineno"> 529</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aa89efe0abf37918ce3f212fb0e26f1bc">turbPert_update</a> (<span class="keyword">const</span> <span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::Real <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>);</div>
<div class="line"><a name="l00530"></a><span class="lineno"> 530</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#afb76c0633e2ba944c543e7a03a5e9424">turbPert_amplitude</a> (<span class="keyword">const</span> <span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00531"></a><span class="lineno"> 531</span>  </div>
<div class="line"><a name="l00532"></a><span class="lineno"> 532</span>  <span class="comment">// Initialize the integrator object</span></div>
<div class="line"><a name="l00533"></a><span class="lineno"> 533</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a5600f8ce250d4811012719fdf5e85f00">initialize_integrator</a> (<span class="keywordtype">int</span> lev, amrex::MultiFab& cons_mf, amrex::MultiFab& vel_mf);</div>
<div class="line"><a name="l00534"></a><span class="lineno"> 534</span>  </div>
<div class="line"><a name="l00535"></a><span class="lineno"> 535</span>  <span class="comment">// Create the physbcs objects</span></div>
<div class="line"><a name="l00536"></a><span class="lineno"> 536</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ac81ec7f74a1be1c4a1e6e15e08385ed5">make_physbcs</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00537"></a><span class="lineno"> 537</span>  </div>
<div class="line"><a name="l00538"></a><span class="lineno"> 538</span>  <span class="comment">// Initialize the microphysics object</span></div>
<div class="line"><a name="l00539"></a><span class="lineno"> 539</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#afc2898daad269536c1a15443abf3fa75">initializeMicrophysics</a> (<span class="keyword">const</span> <span class="keywordtype">int</span>&);</div>
<div class="line"><a name="l00540"></a><span class="lineno"> 540</span>  </div>
<div class="line"><a name="l00541"></a><span class="lineno"> 541</span> <span class="preprocessor">#ifdef ERF_USE_WINDFARM</span></div>
<div class="line"><a name="l00542"></a><span class="lineno"> 542</span>  <span class="comment">// Initialize the windfarm object</span></div>
<div class="line"><a name="l00543"></a><span class="lineno"> 543</span>  <span class="keywordtype">void</span> initializeWindFarm (<span class="keyword">const</span> <span class="keywordtype">int</span>&);</div>
<div class="line"><a name="l00544"></a><span class="lineno"> 544</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00545"></a><span class="lineno"> 545</span>  </div>
<div class="line"><a name="l00546"></a><span class="lineno"> 546</span>  <span class="comment">// Compute a vector of new MultiFabs by copying from valid region and filling ghost cells</span></div>
<div class="line"><a name="l00547"></a><span class="lineno"> 547</span>  <span class="comment">//</span></div>
<div class="line"><a name="l00548"></a><span class="lineno"> 548</span>  <span class="comment">// NOTE: FillPatch takes in an empty MF, and returns cell-centered + velocities (not momenta)</span></div>
<div class="line"><a name="l00549"></a><span class="lineno"> 549</span>  <span class="comment">//</span></div>
<div class="line"><a name="l00550"></a><span class="lineno"> 550</span>  <span class="comment">// This one works only at level = 0 (base state does not change)</span></div>
<div class="line"><a name="l00551"></a><span class="lineno"><a class="line" href="classERF.html#afded764725240c356faffa97dddbe03d"> 551</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#afded764725240c356faffa97dddbe03d">FillPatch</a> (<span class="keywordtype">int</span> lev, amrex::Real time,</div>
<div class="line"><a name="l00552"></a><span class="lineno"> 552</span>  <span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs_vel,</div>
<div class="line"><a name="l00553"></a><span class="lineno"> 553</span>  <span class="keywordtype">bool</span> cons_only=<span class="keyword">false</span>);</div>
<div class="line"><a name="l00554"></a><span class="lineno"> 554</span>  </div>
<div class="line"><a name="l00555"></a><span class="lineno"> 555</span>  <span class="comment">// This one works only at level > 0 (base state does change)</span></div>
<div class="line"><a name="l00556"></a><span class="lineno"><a class="line" href="classERF.html#acb10e650516e54568f879e48f81d6187"> 556</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#acb10e650516e54568f879e48f81d6187">FillPatch</a> (<span class="keywordtype">int</span> lev, amrex::Real time,</div>
<div class="line"><a name="l00557"></a><span class="lineno"> 557</span>  <span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs_vel,</div>
<div class="line"><a name="l00558"></a><span class="lineno"> 558</span>  <span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs_mom,</div>
<div class="line"><a name="l00559"></a><span class="lineno"> 559</span>  <span class="keyword">const</span> amrex::MultiFab& old_base_state,</div>
<div class="line"><a name="l00560"></a><span class="lineno"> 560</span>  <span class="keyword">const</span> amrex::MultiFab& new_base_state,</div>
<div class="line"><a name="l00561"></a><span class="lineno"> 561</span>  <span class="keywordtype">bool</span> fillset=<span class="keyword">true</span>, <span class="keywordtype">bool</span> cons_only=<span class="keyword">false</span>);</div>
<div class="line"><a name="l00562"></a><span class="lineno"> 562</span>  </div>
<div class="line"><a name="l00563"></a><span class="lineno"> 563</span>  <span class="comment">// Compute new multifabs by copying data from valid region and filling ghost cells.</span></div>
<div class="line"><a name="l00564"></a><span class="lineno"> 564</span>  <span class="comment">// Unlike FillPatch, FillIntermediatePatch will use the supplied multifabs instead of fine level data.</span></div>
<div class="line"><a name="l00565"></a><span class="lineno"> 565</span>  <span class="comment">// This is to support filling boundary cells at an intermediate time between old/new times</span></div>
<div class="line"><a name="l00566"></a><span class="lineno"> 566</span>  <span class="comment">// on the fine level when valid data at a specific time is already available (such as</span></div>
<div class="line"><a name="l00567"></a><span class="lineno"> 567</span>  <span class="comment">// at each RK stage when integrating between initial and final times at a given level).</span></div>
<div class="line"><a name="l00568"></a><span class="lineno"> 568</span>  <span class="comment">//</span></div>
<div class="line"><a name="l00569"></a><span class="lineno"> 569</span>  <span class="comment">// NOTE: FillIntermediatePatch takes in updated momenta, and returns both updated velocity and momenta</span></div>
<div class="line"><a name="l00570"></a><span class="lineno"> 570</span>  <span class="comment">//</span></div>
<div class="line"><a name="l00571"></a><span class="lineno"> 571</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a5434c771d76cf50e4a0dd9e1b0eb27fc">FillIntermediatePatch</a> (<span class="keywordtype">int</span> lev, amrex::Real time,</div>
<div class="line"><a name="l00572"></a><span class="lineno"> 572</span>  <span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs_vel,</div>
<div class="line"><a name="l00573"></a><span class="lineno"> 573</span>  <span class="keyword">const</span> amrex::Vector<amrex::MultiFab*>& mfs_mom,</div>
<div class="line"><a name="l00574"></a><span class="lineno"> 574</span>  <span class="keywordtype">int</span> ng_cons, <span class="keywordtype">int</span> ng_vel, <span class="keywordtype">bool</span> cons_only, <span class="keywordtype">int</span> icomp_cons, <span class="keywordtype">int</span> ncomp_cons,</div>
<div class="line"><a name="l00575"></a><span class="lineno"> 575</span>  <span class="keywordtype">bool</span> allow_most_bcs = <span class="keyword">true</span>);</div>
<div class="line"><a name="l00576"></a><span class="lineno"> 576</span>  </div>
<div class="line"><a name="l00577"></a><span class="lineno"> 577</span>  <span class="comment">// Fill all multifabs (and all components) in a vector of multifabs corresponding to the</span></div>
<div class="line"><a name="l00578"></a><span class="lineno"> 578</span>  <span class="comment">// grid variables defined in vars_old and vars_new just as FillCoarsePatch.</span></div>
<div class="line"><a name="l00579"></a><span class="lineno"> 579</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#ac4497025ab94461899960ee067c2c72a">FillCoarsePatch</a> (<span class="keywordtype">int</span> lev, amrex::Real time);</div>
<div class="line"><a name="l00580"></a><span class="lineno"> 580</span>  </div>
<div class="line"><a name="l00581"></a><span class="lineno"> 581</span>  <span class="comment">// advance a level by dt</span></div>
<div class="line"><a name="l00582"></a><span class="lineno"> 582</span>  <span class="comment">// includes a recursive call for finer levels</span></div>
<div class="line"><a name="l00583"></a><span class="lineno"> 583</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aff397ccf7eb99c51d7c705a35e85ec5f">timeStep</a> (<span class="keywordtype">int</span> lev, amrex::Real time, <span class="keywordtype">int</span> iteration);</div>
<div class="line"><a name="l00584"></a><span class="lineno"> 584</span>  </div>
<div class="line"><a name="l00585"></a><span class="lineno"> 585</span>  <span class="comment">// advance a single level for a single time step</span></div>
<div class="line"><a name="l00586"></a><span class="lineno"> 586</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a47413fe5588f7dd71a1d5087a9e804f9">Advance</a> (<span class="keywordtype">int</span> lev, amrex::Real time, amrex::Real dt_lev, <span class="keywordtype">int</span> iteration, <span class="keywordtype">int</span> ncycle);</div>
<div class="line"><a name="l00587"></a><span class="lineno"> 587</span> <span class="comment"></span> </div>
<div class="line"><a name="l00588"></a><span class="lineno"> 588</span> <span class="comment"> //! Initialize HSE</span></div>
<div class="line"><a name="l00589"></a><span class="lineno"> 589</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#a92c020bfaa43e40fb5ffc449427a0318">initHSE</a> ();</div>
<div class="line"><a name="l00590"></a><span class="lineno"> 590</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a92c020bfaa43e40fb5ffc449427a0318">initHSE</a> (<span class="keywordtype">int</span> lev);</div>
<div class="line"><a name="l00591"></a><span class="lineno"> 591</span> <span class="comment"></span> </div>
<div class="line"><a name="l00592"></a><span class="lineno"> 592</span> <span class="comment"> //! Initialize Rayleigh damping profiles</span></div>
<div class="line"><a name="l00593"></a><span class="lineno"> 593</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#a039a764a1d942c484e8aea49e87bc046">initRayleigh</a> ();</div>
<div class="line"><a name="l00594"></a><span class="lineno"> 594</span> <span class="comment"></span> </div>
<div class="line"><a name="l00595"></a><span class="lineno"> 595</span> <span class="comment"> //! Initialize sponge profiles</span></div>
<div class="line"><a name="l00596"></a><span class="lineno"> 596</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#ab26ec4f9c35a519063af2a938c1012e6">initSponge</a> ();</div>
<div class="line"><a name="l00597"></a><span class="lineno"> 597</span> <span class="comment"></span> </div>
<div class="line"><a name="l00598"></a><span class="lineno"> 598</span> <span class="comment"> //! Set Rayleigh mean profiles from input sounding</span></div>
<div class="line"><a name="l00599"></a><span class="lineno"> 599</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#a0877d5a0263641c13b92d2d16f47b689">setRayleighRefFromSounding</a> (<span class="keywordtype">bool</span> restarting);</div>
<div class="line"><a name="l00600"></a><span class="lineno"> 600</span> <span class="comment"></span> </div>
<div class="line"><a name="l00601"></a><span class="lineno"> 601</span> <span class="comment"> //! Set sponge mean profiles from input sounding</span></div>
<div class="line"><a name="l00602"></a><span class="lineno"> 602</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#ae27a45d751287a887769df20dea60633">setSpongeRefFromSounding</a> (<span class="keywordtype">bool</span> restarting);</div>
<div class="line"><a name="l00603"></a><span class="lineno"> 603</span>  </div>
<div class="line"><a name="l00604"></a><span class="lineno"> 604</span>  <span class="comment">// a wrapper for estTimeStep()</span></div>
<div class="line"><a name="l00605"></a><span class="lineno"> 605</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#aa38639155e79bab8a0c283aa6e7afa81">ComputeDt</a> (<span class="keywordtype">int</span> step = -1);</div>
<div class="line"><a name="l00606"></a><span class="lineno"> 606</span>  </div>
<div class="line"><a name="l00607"></a><span class="lineno"> 607</span>  <span class="comment">// get plotfile name</span></div>
<div class="line"><a name="l00608"></a><span class="lineno"><a class="line" href="classERF.html#a54f6c5d799e51521ad10bb57d29d0c44"> 608</a></span>  [[nodiscard]] std::string <a class="code" href="classERF.html#a54f6c5d799e51521ad10bb57d29d0c44">PlotFileName</a> (<span class="keywordtype">int</span> lev) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00609"></a><span class="lineno"> 609</span>  </div>
<div class="line"><a name="l00610"></a><span class="lineno"> 610</span>  <span class="comment">// set plotfile variables names</span></div>
<div class="line"><a name="l00611"></a><span class="lineno"> 611</span>  <span class="keyword">static</span> amrex::Vector<std::string> <a class="code" href="classERF.html#a2dcd22cb915d923c687f60267f44542b">PlotFileVarNames</a> (amrex::Vector<std::string> plot_var_names) ;</div>
<div class="line"><a name="l00612"></a><span class="lineno"> 612</span>  </div>
<div class="line"><a name="l00613"></a><span class="lineno"> 613</span>  <span class="comment">// set which variables and derived quantities go into plotfiles</span></div>
<div class="line"><a name="l00614"></a><span class="lineno"> 614</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a1fcb440c67da60c86372aec1fe871cb7">setPlotVariables</a> (<span class="keyword">const</span> std::string& pp_plot_var_names, amrex::Vector<std::string>& plot_var_names);</div>
<div class="line"><a name="l00615"></a><span class="lineno"> 615</span>  <span class="comment">// append variables to plot</span></div>
<div class="line"><a name="l00616"></a><span class="lineno"> 616</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a7758f75dc7c9029eddc4c58ac0567654">appendPlotVariables</a> (<span class="keyword">const</span> std::string& pp_plot_var_names, amrex::Vector<std::string>& plot_var_names);</div>
<div class="line"><a name="l00617"></a><span class="lineno"> 617</span>  </div>
<div class="line"><a name="l00618"></a><span class="lineno"> 618</span> <span class="preprocessor">#ifdef ERF_USE_NETCDF</span><span class="comment"></span></div>
<div class="line"><a name="l00619"></a><span class="lineno"> 619</span> <span class="comment"> //! Write plotfile using NETCDF</span></div>
<div class="line"><a name="l00620"></a><span class="lineno"> 620</span> <span class="comment"></span> <span class="keywordtype">void</span> writeNCPlotFile (<span class="keywordtype">int</span> lev, <span class="keywordtype">int</span> which, <span class="keyword">const</span> std::string& dir,</div>
<div class="line"><a name="l00621"></a><span class="lineno"> 621</span>  <span class="keyword">const</span> amrex::Vector<const amrex::MultiFab*> &mf,</div>
<div class="line"><a name="l00622"></a><span class="lineno"> 622</span>  <span class="keyword">const</span> amrex::Vector<std::string> &plot_var_names,</div>
<div class="line"><a name="l00623"></a><span class="lineno"> 623</span>  <span class="keyword">const</span> amrex::Vector<int>& level_steps, amrex::Real time) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00624"></a><span class="lineno"> 624</span> <span class="comment"></span> </div>
<div class="line"><a name="l00625"></a><span class="lineno"> 625</span> <span class="comment"> //! Write checkpointFile using NetCdf</span></div>
<div class="line"><a name="l00626"></a><span class="lineno"> 626</span> <span class="comment"></span> <span class="keywordtype">void</span> WriteNCCheckpointFile () <span class="keyword">const</span>;</div>
<div class="line"><a name="l00627"></a><span class="lineno"> 627</span> <span class="comment"></span> </div>
<div class="line"><a name="l00628"></a><span class="lineno"> 628</span> <span class="comment"> //! Read checkpointFile for restart</span></div>
<div class="line"><a name="l00629"></a><span class="lineno"> 629</span> <span class="comment"></span> <span class="keywordtype">void</span> ReadNCCheckpointFile ();</div>
<div class="line"><a name="l00630"></a><span class="lineno"> 630</span> <span class="comment"></span> </div>
<div class="line"><a name="l00631"></a><span class="lineno"> 631</span> <span class="comment"> //! Write MultiFab in NetCDF format</span></div>
<div class="line"><a name="l00632"></a><span class="lineno"> 632</span> <span class="comment"></span> <span class="keyword">static</span> <span class="keywordtype">void</span> WriteNCMultiFab (<span class="keyword">const</span> amrex::FabArray<amrex::FArrayBox> &fab,</div>
<div class="line"><a name="l00633"></a><span class="lineno"> 633</span>  <span class="keyword">const</span> std::string& name,</div>
<div class="line"><a name="l00634"></a><span class="lineno"> 634</span>  <span class="keywordtype">bool</span> set_ghost = <span class="keyword">false</span>) ;</div>
<div class="line"><a name="l00635"></a><span class="lineno"> 635</span> <span class="comment"></span> </div>
<div class="line"><a name="l00636"></a><span class="lineno"> 636</span> <span class="comment"> //! Read MultiFab in NetCDF format</span></div>
<div class="line"><a name="l00637"></a><span class="lineno"> 637</span> <span class="comment"></span> <span class="keywordtype">void</span> ReadNCMultiFab (amrex::FabArray<amrex::FArrayBox> &mf,</div>
<div class="line"><a name="l00638"></a><span class="lineno"> 638</span>  <span class="keyword">const</span> std::string &name,</div>
<div class="line"><a name="l00639"></a><span class="lineno"> 639</span>  <span class="keywordtype">int</span> coordinatorProc = amrex::ParallelDescriptor::IOProcessorNumber(),</div>
<div class="line"><a name="l00640"></a><span class="lineno"> 640</span>  <span class="keywordtype">int</span> allow_empty_mf = 0);</div>
<div class="line"><a name="l00641"></a><span class="lineno"> 641</span> <span class="comment"></span> </div>
<div class="line"><a name="l00642"></a><span class="lineno"> 642</span> <span class="comment"> //! Create 1D vertical column output for coupling</span></div>
<div class="line"><a name="l00643"></a><span class="lineno"> 643</span> <span class="comment"></span> <span class="keywordtype">void</span> createNCColumnFile (<span class="keywordtype">int</span> lev,</div>
<div class="line"><a name="l00644"></a><span class="lineno"> 644</span>  <span class="keyword">const</span> std::string& colfile_name, amrex::Real xloc, amrex::Real yloc);</div>
<div class="line"><a name="l00645"></a><span class="lineno"> 645</span>  </div>
<div class="line"><a name="l00646"></a><span class="lineno"> 646</span>  <span class="comment">// Copy from the NC*fabs into the MultiFabs holding the boundary data</span></div>
<div class="line"><a name="l00647"></a><span class="lineno"> 647</span>  <span class="keywordtype">void</span> init_from_wrfbdy (amrex::Vector<amrex::FArrayBox*> x_vel_lateral,</div>
<div class="line"><a name="l00648"></a><span class="lineno"> 648</span>  amrex::Vector<amrex::FArrayBox*> y_vel_lateral,</div>
<div class="line"><a name="l00649"></a><span class="lineno"> 649</span>  amrex::Vector<amrex::FArrayBox*> z_vel_lateral,</div>
<div class="line"><a name="l00650"></a><span class="lineno"> 650</span>  amrex::Vector<amrex::FArrayBox*> T_lateral);</div>
<div class="line"><a name="l00651"></a><span class="lineno"> 651</span>  </div>
<div class="line"><a name="l00652"></a><span class="lineno"> 652</span>  amrex::Real start_bdy_time;</div>
<div class="line"><a name="l00653"></a><span class="lineno"> 653</span>  </div>
<div class="line"><a name="l00654"></a><span class="lineno"> 654</span>  <span class="comment">// *** *** FArrayBox's for holding the SURFACE data</span></div>
<div class="line"><a name="l00655"></a><span class="lineno"> 655</span>  <span class="comment">// amrex::IArrayBox NC_IVGTYP_fab; // Vegetation type (IVGTYP); Discrete numbers;</span></div>
<div class="line"><a name="l00656"></a><span class="lineno"> 656</span>  <span class="comment">// amrex::FArrayBox NC_z0_fab; // Surface Roughness, z0 = z0 (IVGTYP)</span></div>
<div class="line"><a name="l00657"></a><span class="lineno"> 657</span>  <span class="comment">// amrex::FArrayBox NC_PSFC_fab; // Surface pressure</span></div>
<div class="line"><a name="l00658"></a><span class="lineno"> 658</span>  </div>
<div class="line"><a name="l00659"></a><span class="lineno"> 659</span>  <span class="comment">// TODO: Clarify the relation between SST and TSK</span></div>
<div class="line"><a name="l00660"></a><span class="lineno"> 660</span>  <span class="comment">// amrex::FArrayBox NC_SST_fab; // Sea Surface Temperature; Defined even for land area</span></div>
<div class="line"><a name="l00661"></a><span class="lineno"> 661</span>  <span class="comment">// amrex::FArrayBox NC_TSK_fab; // Surface Skin Temperature; Appears to be same as SST...</span></div>
<div class="line"><a name="l00662"></a><span class="lineno"> 662</span>  </div>
<div class="line"><a name="l00663"></a><span class="lineno"> 663</span>  <span class="comment">// Vectors (over time) of Vector (over variables) of FArrayBoxs for holding the data read from the wrfbdy NetCDF file</span></div>
<div class="line"><a name="l00664"></a><span class="lineno"> 664</span>  amrex::Vector<amrex::Vector<amrex::FArrayBox>> bdy_data_xlo;</div>
<div class="line"><a name="l00665"></a><span class="lineno"> 665</span>  amrex::Vector<amrex::Vector<amrex::FArrayBox>> bdy_data_xhi;</div>
<div class="line"><a name="l00666"></a><span class="lineno"> 666</span>  amrex::Vector<amrex::Vector<amrex::FArrayBox>> bdy_data_ylo;</div>
<div class="line"><a name="l00667"></a><span class="lineno"> 667</span>  amrex::Vector<amrex::Vector<amrex::FArrayBox>> bdy_data_yhi;</div>
<div class="line"><a name="l00668"></a><span class="lineno"> 668</span>  </div>
<div class="line"><a name="l00669"></a><span class="lineno"> 669</span>  amrex::Real bdy_time_interval;</div>
<div class="line"><a name="l00670"></a><span class="lineno"> 670</span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> lat_m, lon_m; <span class="comment">// Latitude and Longitude on the grid</span></div>
<div class="line"><a name="l00671"></a><span class="lineno"> 671</span> <span class="preprocessor">#endif </span><span class="comment">// ERF_USE_NETCDF</span></div>
<div class="line"><a name="l00672"></a><span class="lineno"> 672</span>  </div>
<div class="line"><a name="l00673"></a><span class="lineno"><a class="line" href="classERF.html#ad6a92272a5ad07f176892de07353f268"> 673</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ab54f3fc49bad059469da4e34c82296a6">sinPhi_m</a>, <a class="code" href="classERF.html#ad6a92272a5ad07f176892de07353f268">cosPhi_m</a>; <span class="comment">// Coriolis factors on the grid</span></div>
<div class="line"><a name="l00674"></a><span class="lineno"> 674</span>  </div>
<div class="line"><a name="l00675"></a><span class="lineno"> 675</span>  <span class="comment">// Struct for working with the sounding data we take as an input</span></div>
<div class="line"><a name="l00676"></a><span class="lineno"><a class="line" href="classERF.html#a83572d8dfad51158945b4a5ab06b2f72"> 676</a></span>  <a class="code" href="structInputSoundingData.html">InputSoundingData</a> <a class="code" href="classERF.html#a83572d8dfad51158945b4a5ab06b2f72">input_sounding_data</a>;</div>
<div class="line"><a name="l00677"></a><span class="lineno"> 677</span>  </div>
<div class="line"><a name="l00678"></a><span class="lineno"> 678</span>  <span class="comment">// Struct for working with the sponge data we take as an input</span></div>
<div class="line"><a name="l00679"></a><span class="lineno"><a class="line" href="classERF.html#a8cb877a46fd94b5294425299dcb9cbaf"> 679</a></span>  <a class="code" href="structInputSpongeData.html">InputSpongeData</a> <a class="code" href="classERF.html#a8cb877a46fd94b5294425299dcb9cbaf">input_sponge_data</a>;</div>
<div class="line"><a name="l00680"></a><span class="lineno"> 680</span>  </div>
<div class="line"><a name="l00681"></a><span class="lineno"> 681</span>  <span class="comment">// Vector (6 planes) of DeviceVectors (ncell in plane) for Dirichlet BC data</span></div>
<div class="line"><a name="l00682"></a><span class="lineno"><a class="line" href="classERF.html#a902f60d94be5eaf86361d1d5ad942105"> 682</a></span>  amrex::Vector<amrex::Gpu::DeviceVector<amrex::Real>> <a class="code" href="classERF.html#a902f60d94be5eaf86361d1d5ad942105">xvel_bc_data</a>;</div>
<div class="line"><a name="l00683"></a><span class="lineno"><a class="line" href="classERF.html#ae5e40fcd6dd76c80d0b5b09be5baef97"> 683</a></span>  amrex::Vector<amrex::Gpu::DeviceVector<amrex::Real>> <a class="code" href="classERF.html#ae5e40fcd6dd76c80d0b5b09be5baef97">yvel_bc_data</a>;</div>
<div class="line"><a name="l00684"></a><span class="lineno"><a class="line" href="classERF.html#ae08c25dcf643c6ef39f27d7dd0cb7423"> 684</a></span>  amrex::Vector<amrex::Gpu::DeviceVector<amrex::Real>> <a class="code" href="classERF.html#ae08c25dcf643c6ef39f27d7dd0cb7423">zvel_bc_data</a>;</div>
<div class="line"><a name="l00685"></a><span class="lineno"><a class="line" href="classERF.html#a67c86c65b27f8ceee58b5ca989116e14"> 685</a></span>  amrex::Vector<amrex::Gpu::DeviceVector<amrex::Real>> <a class="code" href="classERF.html#a67c86c65b27f8ceee58b5ca989116e14">th_bc_data</a>;</div>
<div class="line"><a name="l00686"></a><span class="lineno"> 686</span>  </div>
<div class="line"><a name="l00687"></a><span class="lineno"> 687</span>  <span class="comment">// Function to read and populate above vectors (if input file exists)</span></div>
<div class="line"><a name="l00688"></a><span class="lineno"> 688</span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a3079a30cce7e1a01d5c9705f393b5a63">init_Dirichlet_bc_data</a> (<span class="keyword">const</span> std::string input_file);</div>
<div class="line"><a name="l00689"></a><span class="lineno"> 689</span>  </div>
<div class="line"><a name="l00690"></a><span class="lineno"> 690</span>  <span class="comment">// Read the file passed to amr.restart and use it as an initial condition for</span></div>
<div class="line"><a name="l00691"></a><span class="lineno"> 691</span>  <span class="comment">// the current simulation. Supports a different number of components and</span></div>
<div class="line"><a name="l00692"></a><span class="lineno"> 692</span>  <span class="comment">// ghost cells.</span></div>
<div class="line"><a name="l00693"></a><span class="lineno"><a class="line" href="classERF.html#a2e1874d47d95c7c858c2a2336fd0eee6"> 693</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a2e1874d47d95c7c858c2a2336fd0eee6">InitializeFromFile</a> ();</div>
<div class="line"><a name="l00694"></a><span class="lineno"> 694</span>  </div>
<div class="line"><a name="l00695"></a><span class="lineno"> 695</span>  <span class="comment">// Initialize the new-time data at a level from the initial_data MultiFab</span></div>
<div class="line"><a name="l00696"></a><span class="lineno"><a class="line" href="classERF.html#a914f576acc2d1a54203a220cce10df62"> 696</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a914f576acc2d1a54203a220cce10df62">InitializeLevelFromData</a> (<span class="keywordtype">int</span> lev, <span class="keyword">const</span> amrex::MultiFab& initial_data);</div>
<div class="line"><a name="l00697"></a><span class="lineno"> 697</span>  </div>
<div class="line"><a name="l00698"></a><span class="lineno"> 698</span>  <span class="comment">// utility to skip to next line in Header</span></div>
<div class="line"><a name="l00699"></a><span class="lineno"> 699</span>  <span class="keyword">static</span> <span class="keywordtype">void</span> <a class="code" href="classERF.html#aaee255b031e63bd9b5807f6612739dbd">GotoNextLine</a> (std::istream& is);</div>
<div class="line"><a name="l00700"></a><span class="lineno"> 700</span>  </div>
<div class="line"><a name="l00701"></a><span class="lineno"> 701</span>  <span class="comment">// Single level functions called by advance()</span></div>
<div class="line"><a name="l00702"></a><span class="lineno"><a class="line" href="classERF.html#adca0cddd75f33ecb5fb8e0ef9601dae4"> 702</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#adca0cddd75f33ecb5fb8e0ef9601dae4">post_update</a> (amrex::MultiFab& state_mf, amrex::Real time, <span class="keyword">const</span> amrex::Geometry& geom);</div>
<div class="line"><a name="l00703"></a><span class="lineno"><a class="line" href="classERF.html#a76600d7a4a0451c9727d2cc57dae4220"> 703</a></span>  <span class="keywordtype">void</span> <a class="code" href="classERF.html#a76600d7a4a0451c9727d2cc57dae4220">fill_rhs</a> (amrex::MultiFab& rhs_mf, <span class="keyword">const</span> amrex::MultiFab& state_mf, amrex::Real time, <span class="keyword">const</span> amrex::Geometry& geom);</div>
<div class="line"><a name="l00704"></a><span class="lineno"> 704</span> <span class="comment"></span> </div>
<div class="line"><a name="l00705"></a><span class="lineno"> 705</span> <span class="comment"> ////////////////</span></div>
<div class="line"><a name="l00706"></a><span class="lineno"> 706</span> <span class="comment"></span> <span class="comment">// private data members</span></div>
<div class="line"><a name="l00707"></a><span class="lineno"> 707</span>  </div>
<div class="line"><a name="l00708"></a><span class="lineno"><a class="line" href="classERF.html#a60e8cb933f237903e3fbcd6376c26db0"> 708</a></span>  std::unique_ptr<ProblemBase> <a class="code" href="classERF.html#a60e8cb933f237903e3fbcd6376c26db0">prob</a> = <span class="keyword">nullptr</span>; <span class="comment">// problem-specific functions</span></div>
<div class="line"><a name="l00709"></a><span class="lineno"> 709</span>  </div>
<div class="line"><a name="l00710"></a><span class="lineno"><a class="line" href="classERF.html#adcd9f23975ffa605247b41d391c2a2f0"> 710</a></span>  amrex::Vector<int> <a class="code" href="classERF.html#adcd9f23975ffa605247b41d391c2a2f0">num_boxes_at_level</a>; <span class="comment">// how many boxes specified at each level by tagging criteria</span></div>
<div class="line"><a name="l00711"></a><span class="lineno"><a class="line" href="classERF.html#a610a988f46e0496e6dbd0471ae817f75"> 711</a></span>  amrex::Vector<int> <a class="code" href="classERF.html#a610a988f46e0496e6dbd0471ae817f75">num_files_at_level</a>; <span class="comment">// how many wrfinput files specified at each level</span></div>
<div class="line"><a name="l00712"></a><span class="lineno"><a class="line" href="classERF.html#a050dbd236c9bf246554a53008e09f683"> 712</a></span>  amrex::Vector<amrex::Vector<amrex::Box>> <a class="code" href="classERF.html#a050dbd236c9bf246554a53008e09f683">boxes_at_level</a>; <span class="comment">// the boxes specified at each level by tagging criteria</span></div>
<div class="line"><a name="l00713"></a><span class="lineno"> 713</span>  </div>
<div class="line"><a name="l00714"></a><span class="lineno"><a class="line" href="classERF.html#aefa640a036c25b7b770e88a5f838eb2a"> 714</a></span>  amrex::Vector<int> <a class="code" href="classERF.html#aefa640a036c25b7b770e88a5f838eb2a">istep</a>; <span class="comment">// which step?</span></div>
<div class="line"><a name="l00715"></a><span class="lineno"><a class="line" href="classERF.html#aa3db2dd1b65310c66c4038650c22aaee"> 715</a></span>  amrex::Vector<int> <a class="code" href="classERF.html#aa3db2dd1b65310c66c4038650c22aaee">nsubsteps</a>; <span class="comment">// how many substeps on each level?</span></div>
<div class="line"><a name="l00716"></a><span class="lineno"> 716</span>  </div>
<div class="line"><a name="l00717"></a><span class="lineno"> 717</span>  <span class="comment">// keep track of old time, new time, and time step at each level</span></div>
<div class="line"><a name="l00718"></a><span class="lineno"><a class="line" href="classERF.html#a65741b6379d273c19a25cf48bb947614"> 718</a></span>  amrex::Vector<amrex::Real> <a class="code" href="classERF.html#a65741b6379d273c19a25cf48bb947614">t_new</a>;</div>
<div class="line"><a name="l00719"></a><span class="lineno"><a class="line" href="classERF.html#a7085d7d5fc94a0f84efc06957267d58e"> 719</a></span>  amrex::Vector<amrex::Real> <a class="code" href="classERF.html#a7085d7d5fc94a0f84efc06957267d58e">t_old</a>;</div>
<div class="line"><a name="l00720"></a><span class="lineno"><a class="line" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d"> 720</a></span>  amrex::Vector<amrex::Real> <a class="code" href="classERF.html#ad34bae243fdb6c3029f5abe4fb4bca2d">dt</a>;</div>
<div class="line"><a name="l00721"></a><span class="lineno"><a class="line" href="classERF.html#a3cf7cb2e51eb7b69cb4079ffc6722459"> 721</a></span>  amrex::Vector<long> <a class="code" href="classERF.html#a3cf7cb2e51eb7b69cb4079ffc6722459">dt_mri_ratio</a>;</div>
<div class="line"><a name="l00722"></a><span class="lineno"> 722</span>  </div>
<div class="line"><a name="l00723"></a><span class="lineno"> 723</span>  <span class="comment">// array of multifabs to store the solution at each level of refinement</span></div>
<div class="line"><a name="l00724"></a><span class="lineno"> 724</span>  <span class="comment">// after advancing a level we use "swap".</span></div>
<div class="line"><a name="l00725"></a><span class="lineno"> 725</span> <span class="preprocessor">#ifndef ERF_USE_MULTIBLOCK</span></div>
<div class="line"><a name="l00726"></a><span class="lineno"><a class="line" href="classERF.html#a1204ca4dc5d79f5da191ffbe09dfab9b"> 726</a></span>  amrex::Vector<amrex::Vector<amrex::MultiFab> > <a class="code" href="classERF.html#a1204ca4dc5d79f5da191ffbe09dfab9b">vars_new</a>;</div>
<div class="line"><a name="l00727"></a><span class="lineno"><a class="line" href="classERF.html#af31e928baa970a1507dfb0233b352542"> 727</a></span>  amrex::Vector<amrex::Vector<amrex::MultiFab> > <a class="code" href="classERF.html#af31e928baa970a1507dfb0233b352542">vars_old</a>;</div>
<div class="line"><a name="l00728"></a><span class="lineno"> 728</span>  </div>
<div class="line"><a name="l00729"></a><span class="lineno"> 729</span>  <span class="comment">// Velocity time averaged field</span></div>
<div class="line"><a name="l00730"></a><span class="lineno"><a class="line" href="classERF.html#a3e146164ca6929ec6d4984b6a3f43c81"> 730</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a3e146164ca6929ec6d4984b6a3f43c81">vel_t_avg</a>;</div>
<div class="line"><a name="l00731"></a><span class="lineno"><a class="line" href="classERF.html#a6837423e9248e923fcaa1987b59d8160"> 731</a></span>  amrex::Vector<amrex::Real> <a class="code" href="classERF.html#a6837423e9248e923fcaa1987b59d8160">t_avg_cnt</a>;</div>
<div class="line"><a name="l00732"></a><span class="lineno"> 732</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00733"></a><span class="lineno"><a class="line" href="classERF.html#a09d0fb2bd609c898a665d9530a744585"> 733</a></span>  amrex::Vector<std::unique_ptr<MRISplitIntegrator<amrex::Vector<amrex::MultiFab> > > > <a class="code" href="classERF.html#a09d0fb2bd609c898a665d9530a744585">mri_integrator_mem</a>;</div>
<div class="line"><a name="l00734"></a><span class="lineno"> 734</span>  </div>
<div class="line"><a name="l00735"></a><span class="lineno"><a class="line" href="classERF.html#a0c5206542d4193bb687f5271be6fe5e5"> 735</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a0c5206542d4193bb687f5271be6fe5e5">pp_inc</a>;</div>
<div class="line"><a name="l00736"></a><span class="lineno"> 736</span>  </div>
<div class="line"><a name="l00737"></a><span class="lineno"> 737</span>  <span class="comment">// Vector over levels of routines to impose physical boundary conditions</span></div>
<div class="line"><a name="l00738"></a><span class="lineno"><a class="line" href="classERF.html#a2e9b04043853d25f2d76edbc0bed2e72"> 738</a></span>  amrex::Vector<std::unique_ptr<ERFPhysBCFunct_cons>> <a class="code" href="classERF.html#a2e9b04043853d25f2d76edbc0bed2e72">physbcs_cons</a>;</div>
<div class="line"><a name="l00739"></a><span class="lineno"><a class="line" href="classERF.html#a64e55e5ae9df06433146db657eb9e72e"> 739</a></span>  amrex::Vector<std::unique_ptr<ERFPhysBCFunct_u>> <a class="code" href="classERF.html#a64e55e5ae9df06433146db657eb9e72e">physbcs_u</a>;</div>
<div class="line"><a name="l00740"></a><span class="lineno"><a class="line" href="classERF.html#a79231b5cfd4576a742e46ae0082b5121"> 740</a></span>  amrex::Vector<std::unique_ptr<ERFPhysBCFunct_v>> <a class="code" href="classERF.html#a79231b5cfd4576a742e46ae0082b5121">physbcs_v</a>;</div>
<div class="line"><a name="l00741"></a><span class="lineno"><a class="line" href="classERF.html#a45c8ecd777f47732993777a0afb8e140"> 741</a></span>  amrex::Vector<std::unique_ptr<ERFPhysBCFunct_w>> <a class="code" href="classERF.html#a45c8ecd777f47732993777a0afb8e140">physbcs_w</a>;</div>
<div class="line"><a name="l00742"></a><span class="lineno"><a class="line" href="classERF.html#af4e7dc93dae16aa2cc94bbb20b699a6f"> 742</a></span>  amrex::Vector<std::unique_ptr<ERFPhysBCFunct_base>> <a class="code" href="classERF.html#af4e7dc93dae16aa2cc94bbb20b699a6f">physbcs_base</a>;</div>
<div class="line"><a name="l00743"></a><span class="lineno"> 743</span>  </div>
<div class="line"><a name="l00744"></a><span class="lineno"> 744</span>  <span class="comment">// Store primitive variable for MOST BC</span></div>
<div class="line"><a name="l00745"></a><span class="lineno"><a class="line" href="classERF.html#a71629ae2fda396472198691b75d83b2e"> 745</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a71629ae2fda396472198691b75d83b2e">Theta_prim</a>;</div>
<div class="line"><a name="l00746"></a><span class="lineno"><a class="line" href="classERF.html#a521d1faf157e3bccc86c0f26ee923576"> 746</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a521d1faf157e3bccc86c0f26ee923576">Qv_prim</a>;</div>
<div class="line"><a name="l00747"></a><span class="lineno"><a class="line" href="classERF.html#a57d8432920785f8e58cf11a3232d76b5"> 747</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a57d8432920785f8e58cf11a3232d76b5">Qr_prim</a>;</div>
<div class="line"><a name="l00748"></a><span class="lineno"> 748</span>  </div>
<div class="line"><a name="l00749"></a><span class="lineno"> 749</span>  <span class="comment">// Scratch space for time integrator</span></div>
<div class="line"><a name="l00750"></a><span class="lineno"><a class="line" href="classERF.html#a6eecc44323f77917c95869928284f61d"> 750</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a6eecc44323f77917c95869928284f61d">rU_old</a>;</div>
<div class="line"><a name="l00751"></a><span class="lineno"><a class="line" href="classERF.html#a01f3db32272f53dc68025f0a98195e57"> 751</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a01f3db32272f53dc68025f0a98195e57">rU_new</a>;</div>
<div class="line"><a name="l00752"></a><span class="lineno"><a class="line" href="classERF.html#aeb64e3b4def989ce68d873aefeed5e0e"> 752</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#aeb64e3b4def989ce68d873aefeed5e0e">rV_old</a>;</div>
<div class="line"><a name="l00753"></a><span class="lineno"><a class="line" href="classERF.html#a54e37988486ef96e55e84bd8e91bb688"> 753</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a54e37988486ef96e55e84bd8e91bb688">rV_new</a>;</div>
<div class="line"><a name="l00754"></a><span class="lineno"><a class="line" href="classERF.html#ac1fa56ec90f44e3cdf487af46804163f"> 754</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#ac1fa56ec90f44e3cdf487af46804163f">rW_old</a>;</div>
<div class="line"><a name="l00755"></a><span class="lineno"><a class="line" href="classERF.html#aa46c0b0d20525aed10f447923e54dde7"> 755</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#aa46c0b0d20525aed10f447923e54dde7">rW_new</a>;</div>
<div class="line"><a name="l00756"></a><span class="lineno"> 756</span>  </div>
<div class="line"><a name="l00757"></a><span class="lineno"> 757</span>  <span class="comment">// amrex::Vector<amrex::MultiFab> xmom_crse_rhs;</span></div>
<div class="line"><a name="l00758"></a><span class="lineno"> 758</span>  <span class="comment">// amrex::Vector<amrex::MultiFab> ymom_crse_rhs;</span></div>
<div class="line"><a name="l00759"></a><span class="lineno"><a class="line" href="classERF.html#aaf7e8e28172eebdfe2224e4ee823310d"> 759</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#aaf7e8e28172eebdfe2224e4ee823310d">zmom_crse_rhs</a>;</div>
<div class="line"><a name="l00760"></a><span class="lineno"> 760</span>  </div>
<div class="line"><a name="l00761"></a><span class="lineno"><a class="line" href="classERF.html#a4b7277d54649219f31fe286eee9d415a"> 761</a></span>  std::unique_ptr<Microphysics> <a class="code" href="classERF.html#a4b7277d54649219f31fe286eee9d415a">micro</a>;</div>
<div class="line"><a name="l00762"></a><span class="lineno"><a class="line" href="classERF.html#ae00126a9c2738bf6a6cbbe77321c9cfc"> 762</a></span>  amrex::Vector<amrex::Vector<amrex::MultiFab*>> <a class="code" href="classERF.html#ae00126a9c2738bf6a6cbbe77321c9cfc">qmoist</a>; <span class="comment">// (lev,ncomp) rain_accum, snow_accum, graup_accum</span></div>
<div class="line"><a name="l00763"></a><span class="lineno"> 763</span>  </div>
<div class="line"><a name="l00764"></a><span class="lineno"> 764</span>  <span class="comment">// Variables for wind farm parametrization models</span></div>
<div class="line"><a name="l00765"></a><span class="lineno"> 765</span>  </div>
<div class="line"><a name="l00766"></a><span class="lineno"> 766</span> <span class="preprocessor">#ifdef ERF_USE_WINDFARM</span></div>
<div class="line"><a name="l00767"></a><span class="lineno"> 767</span>  std::unique_ptr<WindFarm> windfarm;</div>
<div class="line"><a name="l00768"></a><span class="lineno"> 768</span>  amrex::Vector<amrex::MultiFab> Nturb;</div>
<div class="line"><a name="l00769"></a><span class="lineno"> 769</span>  amrex::Vector<amrex::MultiFab> vars_windfarm; <span class="comment">// Fitch: Vabs, Vabsdt, dudt, dvdt, dTKEdt</span></div>
<div class="line"><a name="l00770"></a><span class="lineno"> 770</span>  <span class="comment">// EWP: dudt, dvdt, dTKEdt</span></div>
<div class="line"><a name="l00771"></a><span class="lineno"> 771</span>  </div>
<div class="line"><a name="l00772"></a><span class="lineno"> 772</span>  amrex::Vector<amrex::MultiFab> SMark; <span class="comment">// A multifab that holds an integer corresponding</span></div>
<div class="line"><a name="l00773"></a><span class="lineno"> 773</span>  <span class="comment">// to the number of the wind turbine to sample</span></div>
<div class="line"><a name="l00774"></a><span class="lineno"> 774</span>  <span class="comment">// velocity upstream of the turbine</span></div>
<div class="line"><a name="l00775"></a><span class="lineno"> 775</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00776"></a><span class="lineno"> 776</span>  </div>
<div class="line"><a name="l00777"></a><span class="lineno"><a class="line" href="classERF.html#ae0e9a78f120ba632d78cbf23c97b851c"> 777</a></span>  <a class="code" href="classLandSurface.html">LandSurface</a> <a class="code" href="classERF.html#ae0e9a78f120ba632d78cbf23c97b851c">lsm</a>;</div>
<div class="line"><a name="l00778"></a><span class="lineno"><a class="line" href="classERF.html#ad03da3399e893728741fac33100ce476"> 778</a></span>  amrex::Vector<amrex::Vector<amrex::MultiFab*>> <a class="code" href="classERF.html#ad03da3399e893728741fac33100ce476">lsm_data</a>; <span class="comment">// (lev,ncomp) Components: theta, q1, q2</span></div>
<div class="line"><a name="l00779"></a><span class="lineno"><a class="line" href="classERF.html#aa5f6a6ceae0087393f386649d8bbbc31"> 779</a></span>  amrex::Vector<amrex::Vector<amrex::MultiFab*>> <a class="code" href="classERF.html#aa5f6a6ceae0087393f386649d8bbbc31">lsm_flux</a>; <span class="comment">// (lev,ncomp) Components: theta, q1, q2</span></div>
<div class="line"><a name="l00780"></a><span class="lineno"> 780</span>  </div>
<div class="line"><a name="l00781"></a><span class="lineno"> 781</span> <span class="preprocessor">#if defined(ERF_USE_RRTMGP)</span></div>
<div class="line"><a name="l00782"></a><span class="lineno"> 782</span>  amrex::Vector<std::unique_ptr<Radiation>> rad;</div>
<div class="line"><a name="l00783"></a><span class="lineno"> 783</span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> qheating_rates; <span class="comment">// radiation heating rate source terms</span></div>
<div class="line"><a name="l00784"></a><span class="lineno"> 784</span>  </div>
<div class="line"><a name="l00785"></a><span class="lineno"> 785</span>  <span class="comment">// Containers for additional SLM inputs</span></div>
<div class="line"><a name="l00786"></a><span class="lineno"> 786</span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> sw_lw_fluxes; <span class="comment">// Direct SW (visible, NIR), Diffuse SW (visible, NIR), LW flux</span></div>
<div class="line"><a name="l00787"></a><span class="lineno"> 787</span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> solar_zenith; <span class="comment">// Solar zenith angle</span></div>
<div class="line"><a name="l00788"></a><span class="lineno"> 788</span>  </div>
<div class="line"><a name="l00789"></a><span class="lineno"> 789</span>  <span class="keywordtype">bool</span> plot_rad = <span class="keyword">false</span>;</div>
<div class="line"><a name="l00790"></a><span class="lineno"> 790</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00791"></a><span class="lineno"> 791</span>  </div>
<div class="line"><a name="l00792"></a><span class="lineno"> 792</span>  <span class="comment">// Fillpatcher classes for coarse-fine boundaries</span></div>
<div class="line"><a name="l00793"></a><span class="lineno"><a class="line" href="classERF.html#ad9084179f7384e10a519989ffd51fd34"> 793</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#ad9084179f7384e10a519989ffd51fd34">cf_width</a>{0};</div>
<div class="line"><a name="l00794"></a><span class="lineno"><a class="line" href="classERF.html#a1e3e2855b6e811596226c167573ad62d"> 794</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#a1e3e2855b6e811596226c167573ad62d">cf_set_width</a>{0};</div>
<div class="line"><a name="l00795"></a><span class="lineno"><a class="line" href="classERF.html#a34160ca20fb400ee285664117cb80512"> 795</a></span>  amrex::Vector<ERFFillPatcher> <a class="code" href="classERF.html#a34160ca20fb400ee285664117cb80512">FPr_c</a>;</div>
<div class="line"><a name="l00796"></a><span class="lineno"><a class="line" href="classERF.html#a0ef3455d5b4fc9a178e023b233d389a4"> 796</a></span>  amrex::Vector<ERFFillPatcher> <a class="code" href="classERF.html#a0ef3455d5b4fc9a178e023b233d389a4">FPr_u</a>;</div>
<div class="line"><a name="l00797"></a><span class="lineno"><a class="line" href="classERF.html#a1dc7086aec533a042e6033706845b0c3"> 797</a></span>  amrex::Vector<ERFFillPatcher> <a class="code" href="classERF.html#a1dc7086aec533a042e6033706845b0c3">FPr_v</a>;</div>
<div class="line"><a name="l00798"></a><span class="lineno"><a class="line" href="classERF.html#ac9a11403c2238d0d1e7b65b2d100dbaf"> 798</a></span>  amrex::Vector<ERFFillPatcher> <a class="code" href="classERF.html#ac9a11403c2238d0d1e7b65b2d100dbaf">FPr_w</a>;</div>
<div class="line"><a name="l00799"></a><span class="lineno"> 799</span>  </div>
<div class="line"><a name="l00800"></a><span class="lineno"> 800</span>  <span class="comment">// Diffusive stresses and Smag</span></div>
<div class="line"><a name="l00801"></a><span class="lineno"><a class="line" href="classERF.html#aeb9348353b2415d023d8f52c293cad7e"> 801</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#aeb9348353b2415d023d8f52c293cad7e">Tau11_lev</a>, <a class="code" href="classERF.html#afb4294f848d86e4aefb74848bb71047e">Tau22_lev</a>, <a class="code" href="classERF.html#a60a185c47f07bf4fb537a15d5a226d8a">Tau33_lev</a>;</div>
<div class="line"><a name="l00802"></a><span class="lineno"><a class="line" href="classERF.html#ad8c2eca71737b102cc5cf75f97c6bd63"> 802</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ad8c2eca71737b102cc5cf75f97c6bd63">Tau12_lev</a>, <a class="code" href="classERF.html#a547864dc0347f4620feb99ed564acb4d">Tau21_lev</a>;</div>
<div class="line"><a name="l00803"></a><span class="lineno"><a class="line" href="classERF.html#a5392e6104804d799b3fd943dfe390766"> 803</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a5392e6104804d799b3fd943dfe390766">Tau13_lev</a>, <a class="code" href="classERF.html#a203e7334296218672e36bab93174e146">Tau31_lev</a>;</div>
<div class="line"><a name="l00804"></a><span class="lineno"><a class="line" href="classERF.html#a03a4ad7368c1c98b492cd9d9fec9cbc5"> 804</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a03a4ad7368c1c98b492cd9d9fec9cbc5">Tau23_lev</a>, <a class="code" href="classERF.html#aa650bf1f6885b179fd8d4c24b48668cb">Tau32_lev</a>;</div>
<div class="line"><a name="l00805"></a><span class="lineno"><a class="line" href="classERF.html#a327d704704abd516be19339cb2d226f9"> 805</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a327d704704abd516be19339cb2d226f9">eddyDiffs_lev</a>;</div>
<div class="line"><a name="l00806"></a><span class="lineno"><a class="line" href="classERF.html#a9faaa96a7c270d2b2b062d9f30f19711"> 806</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a9faaa96a7c270d2b2b062d9f30f19711">SmnSmn_lev</a>;</div>
<div class="line"><a name="l00807"></a><span class="lineno"> 807</span>  </div>
<div class="line"><a name="l00808"></a><span class="lineno"> 808</span>  <span class="comment">// Sea Surface Temps and Land Masks (lev, ntimes)</span></div>
<div class="line"><a name="l00809"></a><span class="lineno"><a class="line" href="classERF.html#a5a5395054a212d8f3fc577562c14b66e"> 809</a></span>  amrex::Vector<amrex::Vector<std::unique_ptr<amrex::MultiFab>>> <a class="code" href="classERF.html#a5a5395054a212d8f3fc577562c14b66e">sst_lev</a>;</div>
<div class="line"><a name="l00810"></a><span class="lineno"><a class="line" href="classERF.html#a3f3e29874221e43e13e2a431e77e0e4e"> 810</a></span>  amrex::Vector<amrex::Vector<std::unique_ptr<amrex::iMultiFab>>> <a class="code" href="classERF.html#a3f3e29874221e43e13e2a431e77e0e4e">lmask_lev</a>;</div>
<div class="line"><a name="l00811"></a><span class="lineno"> 811</span>  </div>
<div class="line"><a name="l00812"></a><span class="lineno"> 812</span>  <span class="comment">// Other SFS terms</span></div>
<div class="line"><a name="l00813"></a><span class="lineno"><a class="line" href="classERF.html#a25174b4ae6cfcac8f7d183ce5c9fe67b"> 813</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a25174b4ae6cfcac8f7d183ce5c9fe67b">SFS_hfx1_lev</a>, <a class="code" href="classERF.html#acb607b2e675b45fdcabc09b640ce5ae2">SFS_hfx2_lev</a>, <a class="code" href="classERF.html#a1a2e3faf5dd90ad2f9ded28b486f3b46">SFS_hfx3_lev</a>;</div>
<div class="line"><a name="l00814"></a><span class="lineno"><a class="line" href="classERF.html#a6e1ad417e3bd062468d74830b65911fb"> 814</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a6e1ad417e3bd062468d74830b65911fb">SFS_diss_lev</a>;</div>
<div class="line"><a name="l00815"></a><span class="lineno"><a class="line" href="classERF.html#ae0316d5ae567a2da8439d204bace12ce"> 815</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ae0316d5ae567a2da8439d204bace12ce">SFS_q1fx1_lev</a>, <a class="code" href="classERF.html#a53fab1172ec3f01356355f8cda0919fe">SFS_q1fx2_lev</a>, <a class="code" href="classERF.html#a101ceb89b1a249efeea3f4e8052bc8c0">SFS_q1fx3_lev</a>;</div>
<div class="line"><a name="l00816"></a><span class="lineno"><a class="line" href="classERF.html#a3ea10ef7383e594b6ee5e7a9ad67607b"> 816</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a3ea10ef7383e594b6ee5e7a9ad67607b">SFS_q2fx3_lev</a>;</div>
<div class="line"><a name="l00817"></a><span class="lineno"> 817</span>  </div>
<div class="line"><a name="l00818"></a><span class="lineno"> 818</span>  <span class="comment">// Grid stretching</span></div>
<div class="line"><a name="l00819"></a><span class="lineno"><a class="line" href="classERF.html#ace4f0c79f84075dd7a43bd2b0ede1a9b"> 819</a></span>  amrex::Vector<amrex::Vector<amrex::Real>> <a class="code" href="classERF.html#ace4f0c79f84075dd7a43bd2b0ede1a9b">zlevels_stag</a>; <span class="comment">// nominal height levels</span></div>
<div class="line"><a name="l00820"></a><span class="lineno"> 820</span>  </div>
<div class="line"><a name="l00821"></a><span class="lineno"> 821</span>  <span class="comment">// Data structures for terrain-fitted coordinates</span></div>
<div class="line"><a name="l00822"></a><span class="lineno"><a class="line" href="classERF.html#a93e63e5af35efa564fd4195e8703f84c"> 822</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a93e63e5af35efa564fd4195e8703f84c">z_phys_nd</a>;</div>
<div class="line"><a name="l00823"></a><span class="lineno"><a class="line" href="classERF.html#a31be0f1ae705c52c8ccc520369013284"> 823</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a31be0f1ae705c52c8ccc520369013284">z_phys_cc</a>;</div>
<div class="line"><a name="l00824"></a><span class="lineno"> 824</span>  </div>
<div class="line"><a name="l00825"></a><span class="lineno"><a class="line" href="classERF.html#a30f8b851ed29d38695d44cff257f14e6"> 825</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a30f8b851ed29d38695d44cff257f14e6">detJ_cc</a>;</div>
<div class="line"><a name="l00826"></a><span class="lineno"><a class="line" href="classERF.html#a93bc9185c89cbeaceffaf40b8cf4a75c"> 826</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a93bc9185c89cbeaceffaf40b8cf4a75c">ax</a>;</div>
<div class="line"><a name="l00827"></a><span class="lineno"><a class="line" href="classERF.html#ade870f983d113c64406bdcb8a9194044"> 827</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ade870f983d113c64406bdcb8a9194044">ay</a>;</div>
<div class="line"><a name="l00828"></a><span class="lineno"><a class="line" href="classERF.html#a391914523e66645f7e947cefcd19c011"> 828</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a391914523e66645f7e947cefcd19c011">az</a>;</div>
<div class="line"><a name="l00829"></a><span class="lineno"> 829</span>  </div>
<div class="line"><a name="l00830"></a><span class="lineno"><a class="line" href="classERF.html#a30dcf40e8f104fb6b6132805d2eff47c"> 830</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a30dcf40e8f104fb6b6132805d2eff47c">z_phys_nd_src</a>;</div>
<div class="line"><a name="l00831"></a><span class="lineno"><a class="line" href="classERF.html#a9a411e0ea9d9bdbfab957c8081229091"> 831</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a9a411e0ea9d9bdbfab957c8081229091">detJ_cc_src</a>;</div>
<div class="line"><a name="l00832"></a><span class="lineno"><a class="line" href="classERF.html#abe77a4434d27561109ffc666546511dc"> 832</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#abe77a4434d27561109ffc666546511dc">ax_src</a>;</div>
<div class="line"><a name="l00833"></a><span class="lineno"><a class="line" href="classERF.html#aa20bd15dbe2c801bda2d3bfdb5b81eab"> 833</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#aa20bd15dbe2c801bda2d3bfdb5b81eab">ay_src</a>;</div>
<div class="line"><a name="l00834"></a><span class="lineno"><a class="line" href="classERF.html#ad2d8e37fbdac323eda857e0b8c151852"> 834</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ad2d8e37fbdac323eda857e0b8c151852">az_src</a>;</div>
<div class="line"><a name="l00835"></a><span class="lineno"> 835</span>  </div>
<div class="line"><a name="l00836"></a><span class="lineno"><a class="line" href="classERF.html#a4ef635c22e72c715f5703a6b95a7abe5"> 836</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a4ef635c22e72c715f5703a6b95a7abe5">z_phys_nd_new</a>;</div>
<div class="line"><a name="l00837"></a><span class="lineno"><a class="line" href="classERF.html#ae39bf64c5306b1dd939d82d9df728daa"> 837</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ae39bf64c5306b1dd939d82d9df728daa">detJ_cc_new</a>;</div>
<div class="line"><a name="l00838"></a><span class="lineno"><a class="line" href="classERF.html#adf9043b29880747cfe0cf12ab19bf4ae"> 838</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#adf9043b29880747cfe0cf12ab19bf4ae">ax_new</a>;</div>
<div class="line"><a name="l00839"></a><span class="lineno"><a class="line" href="classERF.html#a3004600e3ebdd453c9e1816ad96209e4"> 839</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a3004600e3ebdd453c9e1816ad96209e4">ay_new</a>;</div>
<div class="line"><a name="l00840"></a><span class="lineno"><a class="line" href="classERF.html#aa47ddd3bee550c3c1b5a93a788252d8c"> 840</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#aa47ddd3bee550c3c1b5a93a788252d8c">az_new</a>;</div>
<div class="line"><a name="l00841"></a><span class="lineno"> 841</span>  </div>
<div class="line"><a name="l00842"></a><span class="lineno"><a class="line" href="classERF.html#a72a59614c6d5ab840b924c84d5682270"> 842</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a72a59614c6d5ab840b924c84d5682270">z_t_rk</a>;</div>
<div class="line"><a name="l00843"></a><span class="lineno"> 843</span>  </div>
<div class="line"><a name="l00844"></a><span class="lineno"> 844</span>  <span class="comment">// Data structures for terrain immersed forcing</span></div>
<div class="line"><a name="l00845"></a><span class="lineno"><a class="line" href="classERF.html#a4a18cc3befd0911ccb011f9bb3b2efc2"> 845</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a4a18cc3befd0911ccb011f9bb3b2efc2">terrain_blanking</a>;</div>
<div class="line"><a name="l00846"></a><span class="lineno"> 846</span>  </div>
<div class="line"><a name="l00847"></a><span class="lineno"> 847</span>  <span class="comment">// Wall distance function</span></div>
<div class="line"><a name="l00848"></a><span class="lineno"><a class="line" href="classERF.html#a0276b556fdefec8b99be95846a3a35fe"> 848</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a0276b556fdefec8b99be95846a3a35fe">walldist</a>;</div>
<div class="line"><a name="l00849"></a><span class="lineno"> 849</span>  </div>
<div class="line"><a name="l00850"></a><span class="lineno"> 850</span>  <span class="comment">// Map scale factors</span></div>
<div class="line"><a name="l00851"></a><span class="lineno"><a class="line" href="classERF.html#a23aacdb72e9d2dfed8e2ebd2c2526497"> 851</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a23aacdb72e9d2dfed8e2ebd2c2526497">mapfac_m</a>;</div>
<div class="line"><a name="l00852"></a><span class="lineno"><a class="line" href="classERF.html#a1e8afee1508b720dab56f5d044deb301"> 852</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a1e8afee1508b720dab56f5d044deb301">mapfac_u</a>;</div>
<div class="line"><a name="l00853"></a><span class="lineno"><a class="line" href="classERF.html#ae49b5055f9a7117fa15918a5daa775b7"> 853</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ae49b5055f9a7117fa15918a5daa775b7">mapfac_v</a>;</div>
<div class="line"><a name="l00854"></a><span class="lineno"> 854</span>  </div>
<div class="line"><a name="l00855"></a><span class="lineno"><a class="line" href="classERF.html#ad0981b0ff70e6d78acbb7769f7a142b7"> 855</a></span>  amrex::Vector<amrex::Vector<amrex::Real>> <a class="code" href="classERF.html#ad0981b0ff70e6d78acbb7769f7a142b7">stretched_dz_h</a>;</div>
<div class="line"><a name="l00856"></a><span class="lineno"><a class="line" href="classERF.html#a6600f30f1043a4c5e62b5cdd05f0a99f"> 856</a></span>  amrex::Vector<amrex::Gpu::DeviceVector<amrex::Real>> <a class="code" href="classERF.html#a6600f30f1043a4c5e62b5cdd05f0a99f">stretched_dz_d</a>;</div>
<div class="line"><a name="l00857"></a><span class="lineno"> 857</span>  </div>
<div class="line"><a name="l00858"></a><span class="lineno"><a class="line" href="classERF.html#a4c1fae5e620fcd64cc9ede73715e3b7c"> 858</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a4c1fae5e620fcd64cc9ede73715e3b7c">base_state</a>;</div>
<div class="line"><a name="l00859"></a><span class="lineno"><a class="line" href="classERF.html#a37b2a4257df8ff53d4450de47f16ace1"> 859</a></span>  amrex::Vector<amrex::MultiFab> <a class="code" href="classERF.html#a37b2a4257df8ff53d4450de47f16ace1">base_state_new</a>;</div>
<div class="line"><a name="l00860"></a><span class="lineno"> 860</span>  </div>
<div class="line"><a name="l00861"></a><span class="lineno"> 861</span>  <span class="comment">// Wave coupling data</span></div>
<div class="line"><a name="l00862"></a><span class="lineno"><a class="line" href="classERF.html#aef05cf88e9e9d2b56112336761493977"> 862</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#aef05cf88e9e9d2b56112336761493977">Hwave</a>;</div>
<div class="line"><a name="l00863"></a><span class="lineno"><a class="line" href="classERF.html#ad67b414a1a8b5bab6edeaf574f922825"> 863</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#ad67b414a1a8b5bab6edeaf574f922825">Lwave</a>;</div>
<div class="line"><a name="l00864"></a><span class="lineno"><a class="line" href="classERF.html#a11f2d48d9af9b8f4574975cae06838f1"> 864</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a11f2d48d9af9b8f4574975cae06838f1">Hwave_onegrid</a>;</div>
<div class="line"><a name="l00865"></a><span class="lineno"><a class="line" href="classERF.html#a83473e4b18de294a8b97dcdbbf048551"> 865</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a83473e4b18de294a8b97dcdbbf048551">Lwave_onegrid</a>;</div>
<div class="line"><a name="l00866"></a><span class="lineno"><a class="line" href="classERF.html#af282e3bdfdad38a0b898ed567ea446ee"> 866</a></span>  <span class="keywordtype">bool</span> <a class="code" href="classERF.html#af282e3bdfdad38a0b898ed567ea446ee">finished_wave</a> = <span class="keyword">false</span>;</div>
<div class="line"><a name="l00867"></a><span class="lineno"> 867</span>  </div>
<div class="line"><a name="l00868"></a><span class="lineno"> 868</span>  <span class="comment">// array of flux registers</span></div>
<div class="line"><a name="l00869"></a><span class="lineno"><a class="line" href="classERF.html#a86a0bc8e41668411ee0ab5801d4688a7"> 869</a></span>  amrex::Vector<amrex::YAFluxRegister*> <a class="code" href="classERF.html#a86a0bc8e41668411ee0ab5801d4688a7">advflux_reg</a>;</div>
<div class="line"><a name="l00870"></a><span class="lineno"> 870</span>  </div>
<div class="line"><a name="l00871"></a><span class="lineno"> 871</span>  <span class="comment">// A BCRec is essentially a 2*DIM integer array storing the boundary</span></div>
<div class="line"><a name="l00872"></a><span class="lineno"> 872</span>  <span class="comment">// condition type at each lo/hi walls in each direction. We have one BCRec</span></div>
<div class="line"><a name="l00873"></a><span class="lineno"> 873</span>  <span class="comment">// for each component of the cell-centered variables and each velocity component.</span></div>
<div class="line"><a name="l00874"></a><span class="lineno"><a class="line" href="classERF.html#a574521986a6e403159f83c8b8123ba90"> 874</a></span>  amrex::Vector <amrex::BCRec> <a class="code" href="classERF.html#a574521986a6e403159f83c8b8123ba90">domain_bcs_type</a>;</div>
<div class="line"><a name="l00875"></a><span class="lineno"><a class="line" href="classERF.html#a8a99e22b1111c803e31b4afd5fcdea60"> 875</a></span>  amrex::Gpu::DeviceVector<amrex::BCRec> <a class="code" href="classERF.html#a8a99e22b1111c803e31b4afd5fcdea60">domain_bcs_type_d</a>;</div>
<div class="line"><a name="l00876"></a><span class="lineno"> 876</span>  </div>
<div class="line"><a name="l00877"></a><span class="lineno"> 877</span>  <span class="comment">// We store these so that we can print them out in the job_info file</span></div>
<div class="line"><a name="l00878"></a><span class="lineno"><a class="line" href="classERF.html#ae5968f1bed602fa87cdd5cb7905b7e5e"> 878</a></span>  amrex::Array<std::string,2*AMREX_SPACEDIM> <a class="code" href="classERF.html#ae5968f1bed602fa87cdd5cb7905b7e5e">domain_bc_type</a>;</div>
<div class="line"><a name="l00879"></a><span class="lineno"> 879</span>  </div>
<div class="line"><a name="l00880"></a><span class="lineno"> 880</span>  <span class="comment">// These hold the Dirichlet values at walls which need them ...</span></div>
<div class="line"><a name="l00881"></a><span class="lineno"><a class="line" href="classERF.html#a27261ba76aa71f1ddbf87bca0ede579f"> 881</a></span>  amrex::Array<amrex::Array<amrex::Real, AMREX_SPACEDIM*2>, AMREX_SPACEDIM+<a class="code" href="ERF__IndexDefines_8H.html#a536619efb901de654431f987753ac67c">NBCVAR_max</a>> <a class="code" href="classERF.html#a27261ba76aa71f1ddbf87bca0ede579f">m_bc_extdir_vals</a>;</div>
<div class="line"><a name="l00882"></a><span class="lineno"> 882</span>  </div>
<div class="line"><a name="l00883"></a><span class="lineno"> 883</span>  <span class="comment">// These hold the Neumann values at walls which need them ...</span></div>
<div class="line"><a name="l00884"></a><span class="lineno"><a class="line" href="classERF.html#af783df8719de2e72e347de5860f71528"> 884</a></span>  amrex::Array<amrex::Array<amrex::Real, AMREX_SPACEDIM*2>, AMREX_SPACEDIM+<a class="code" href="ERF__IndexDefines_8H.html#a536619efb901de654431f987753ac67c">NBCVAR_max</a>> <a class="code" href="classERF.html#af783df8719de2e72e347de5860f71528">m_bc_neumann_vals</a>;</div>
<div class="line"><a name="l00885"></a><span class="lineno"> 885</span>  </div>
<div class="line"><a name="l00886"></a><span class="lineno"> 886</span>  <span class="comment">// These are the "physical" boundary condition types (e.g. "inflow")</span></div>
<div class="line"><a name="l00887"></a><span class="lineno"><a class="line" href="classERF.html#ae6df94c25ac21bf6a2e856a9901e3a15"> 887</a></span>  amrex::GpuArray<ERF_BC, AMREX_SPACEDIM*2> <a class="code" href="classERF.html#ae6df94c25ac21bf6a2e856a9901e3a15">phys_bc_type</a>;</div>
<div class="line"><a name="l00888"></a><span class="lineno"> 888</span>  </div>
<div class="line"><a name="l00889"></a><span class="lineno"> 889</span>  <span class="comment">// These are the masks for the thin immersed body</span></div>
<div class="line"><a name="l00890"></a><span class="lineno"><a class="line" href="classERF.html#af044f075df34caa2a530aa13e1801a5b"> 890</a></span>  amrex::Vector<std::unique_ptr<amrex::iMultiFab>> <a class="code" href="classERF.html#af044f075df34caa2a530aa13e1801a5b">xflux_imask</a>;</div>
<div class="line"><a name="l00891"></a><span class="lineno"><a class="line" href="classERF.html#aa4448d06a3e4fe9740927a636030939d"> 891</a></span>  amrex::Vector<std::unique_ptr<amrex::iMultiFab>> <a class="code" href="classERF.html#aa4448d06a3e4fe9740927a636030939d">yflux_imask</a>;</div>
<div class="line"><a name="l00892"></a><span class="lineno"><a class="line" href="classERF.html#ada098767690d194f89717b0deb3adeac"> 892</a></span>  amrex::Vector<std::unique_ptr<amrex::iMultiFab>> <a class="code" href="classERF.html#ada098767690d194f89717b0deb3adeac">zflux_imask</a>;</div>
<div class="line"><a name="l00893"></a><span class="lineno"> 893</span>  <span class="comment">//amrex::Vector<std::unique_ptr<amrex::iMultiFab>> overset_imask;</span></div>
<div class="line"><a name="l00894"></a><span class="lineno"> 894</span>  </div>
<div class="line"><a name="l00895"></a><span class="lineno"> 895</span>  <span class="comment">// These are the body forces that result from the thin immersed body</span></div>
<div class="line"><a name="l00896"></a><span class="lineno"><a class="line" href="classERF.html#a5b9b8d719a87a6940f611c6a30e8ccf5"> 896</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a5b9b8d719a87a6940f611c6a30e8ccf5">thin_xforce</a>;</div>
<div class="line"><a name="l00897"></a><span class="lineno"><a class="line" href="classERF.html#a18c1142552120bbd22987f34995ee939"> 897</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a18c1142552120bbd22987f34995ee939">thin_yforce</a>;</div>
<div class="line"><a name="l00898"></a><span class="lineno"><a class="line" href="classERF.html#a56a23d298bc66218bf257d0e793e341f"> 898</a></span>  amrex::Vector<std::unique_ptr<amrex::MultiFab>> <a class="code" href="classERF.html#a56a23d298bc66218bf257d0e793e341f">thin_zforce</a>;</div>
<div class="line"><a name="l00899"></a><span class="lineno"> 899</span>  </div>
<div class="line"><a name="l00900"></a><span class="lineno"><a class="line" href="classERF.html#a7d54d3f2317d06a8dfcde4f65cfc3e92"> 900</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#a7d54d3f2317d06a8dfcde4f65cfc3e92">last_plot_file_step_1</a>;</div>
<div class="line"><a name="l00901"></a><span class="lineno"><a class="line" href="classERF.html#a09017292c9943ac2ed20ce7ed5c3c767"> 901</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#a09017292c9943ac2ed20ce7ed5c3c767">last_plot_file_step_2</a>;</div>
<div class="line"><a name="l00902"></a><span class="lineno"><a class="line" href="classERF.html#a8536c38a2a5f44a5719cad3c44d0d438"> 902</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#a8536c38a2a5f44a5719cad3c44d0d438">last_subvol</a>;</div>
<div class="line"><a name="l00903"></a><span class="lineno"> 903</span>  </div>
<div class="line"><a name="l00904"></a><span class="lineno"><a class="line" href="classERF.html#a02722d16f3c26efe590702200f1296d7"> 904</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#a02722d16f3c26efe590702200f1296d7">last_check_file_step</a>;</div>
<div class="line"><a name="l00905"></a><span class="lineno"><a class="line" href="classERF.html#adc00038dfe4c332e5d15f621184c69e8"> 905</a></span>  <span class="keywordtype">int</span> <a class="code" href="classERF.html#adc00038dfe4c332e5d15f621184c69e8">plot_file_on_restart</a> = 1;</div>
<div class="line"><a name="l00906"></a><span class="lineno"> 906</span>  </div>
<div class="line"><a name="l00907"></a><span class="lineno"> 907</span>  <span class="comment">// Output control</span></div>
<div class="line"><a name="l00908"></a><span class="lineno"><a class="line" href="classERF.html#a8b1cdf332a93c6b0889fd309e43f9a91"> 908</a></span>  <span class="keyword">const</span> <span class="keywordtype">int</span> <a class="code" href="classERF.html#a8b1cdf332a93c6b0889fd309e43f9a91">datwidth</a> = 14;</div>
<div class="line"><a name="l00909"></a><span class="lineno"><a class="line" href="classERF.html#aefeb0bde962c9f53aba32e4ab59b4958"> 909</a></span>  <span class="keyword">const</span> <span class="keywordtype">int</span> <a class="code" href="classERF.html#aefeb0bde962c9f53aba32e4ab59b4958">datprecision</a> = 6;</div>
<div class="line"><a name="l00910"></a><span class="lineno"><a class="line" href="classERF.html#a2307b817178b00e5cc38c0e163da0a39"> 910</a></span>  <span class="keyword">const</span> <span class="keywordtype">int</span> <a class="code" href="classERF.html#a2307b817178b00e5cc38c0e163da0a39">timeprecision</a> = 13; <span class="comment">// e.g., 1-yr LES: 31,536,000 s with dt ~ 0.01 ==> min prec = 10</span></div>
<div class="line"><a name="l00911"></a><span class="lineno"> 911</span>  <span class="comment">// epoch time for 2030-01-01 00:00:00 is 1,893,456,000 s with dt ~ 0.01 ==> min prec = 12</span></div>
<div class="line"><a name="l00912"></a><span class="lineno"> 912</span> <span class="comment"></span> </div>