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<a href="REMORA__Checkpoint_8cpp.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a id="l00001" name="l00001"></a><span class="lineno"> 1</span><span class="preprocessor">#include <<a class="code" href="REMORA_8H.html">REMORA.H</a>></span></div>
<div class="line"><a id="l00002" name="l00002"></a><span class="lineno"> 2</span><span class="preprocessor">#include "AMReX_PlotFileUtil.H"</span></div>
<div class="line"><a id="l00003" name="l00003"></a><span class="lineno"> 3</span> </div>
<div class="line"><a id="l00004" name="l00004"></a><span class="lineno"> 4</span><span class="keyword">using namespace </span><a class="code hl_namespace" href="namespaceamrex.html">amrex</a>;</div>
<div class="line"><a id="l00005" name="l00005"></a><span class="lineno"> 5</span> </div>
<div class="line"><a id="l00006" name="l00006"></a><span class="lineno"> 6</span><span class="comment">// utility to skip to next line in Header</span></div>
<div class="line"><a id="l00007" name="l00007"></a><span class="lineno"> 7</span><span class="keywordtype">void</span></div>
<div class="foldopen" id="foldopen00008" data-start="{" data-end="}">
<div class="line"><a id="l00008" name="l00008"></a><span class="lineno"><a class="line" href="classREMORA.html#a03e3346471b528f47454cd969393786d"> 8</a></span><a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">REMORA::GotoNextLine</a> (std::istream& <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>)</div>
<div class="line"><a id="l00009" name="l00009"></a><span class="lineno"> 9</span>{</div>
<div class="line"><a id="l00010" name="l00010"></a><span class="lineno"> 10</span> <span class="keyword">constexpr</span> std::streamsize <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl_ignore_max</a> { 100000 };</div>
<div class="line"><a id="l00011" name="l00011"></a><span class="lineno"> 11</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>.ignore(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl_ignore_max</a>, <span class="charliteral">'\n'</span>);</div>
<div class="line"><a id="l00012" name="l00012"></a><span class="lineno"> 12</span>}</div>
</div>
<div class="line"><a id="l00013" name="l00013"></a><span class="lineno"> 13</span> </div>
<div class="line"><a id="l00014" name="l00014"></a><span class="lineno"> 14</span><span class="keywordtype">void</span></div>
<div class="foldopen" id="foldopen00015" data-start="{" data-end="}">
<div class="line"><a id="l00015" name="l00015"></a><span class="lineno"><a class="line" href="classREMORA.html#a7caca09160ec6dadae1485327a5ae4cc"> 15</a></span><a class="code hl_function" href="classREMORA.html#a7caca09160ec6dadae1485327a5ae4cc">REMORA::WriteCheckpointFile</a> ()</div>
<div class="line"><a id="l00016" name="l00016"></a><span class="lineno"> 16</span>{</div>
<div class="line"><a id="l00017" name="l00017"></a><span class="lineno"> 17</span> </div>
<div class="line"><a id="l00018" name="l00018"></a><span class="lineno"> 18</span> <span class="comment">// chk00010 write a checkpoint file with this root directory</span></div>
<div class="line"><a id="l00019" name="l00019"></a><span class="lineno"> 19</span> <span class="comment">// chk00010/Header this contains information you need to save (e.g., finest_level, t_new, etc.) and also</span></div>
<div class="line"><a id="l00020" name="l00020"></a><span class="lineno"> 20</span> <span class="comment">// the BoxArrays at each level</span></div>
<div class="line"><a id="l00021" name="l00021"></a><span class="lineno"> 21</span> <span class="comment">// chk00010/Level_0/</span></div>
<div class="line"><a id="l00022" name="l00022"></a><span class="lineno"> 22</span> <span class="comment">// chk00010/Level_1/</span></div>
<div class="line"><a id="l00023" name="l00023"></a><span class="lineno"> 23</span> <span class="comment">// etc. these subdirectories will hold the MultiFab data at each level of refinement</span></div>
<div class="line"><a id="l00024" name="l00024"></a><span class="lineno"> 24</span> </div>
<div class="line"><a id="l00025" name="l00025"></a><span class="lineno"> 25</span> <span class="comment">// checkpoint file name, e.g., chk00010</span></div>
<div class="line"><a id="l00026" name="l00026"></a><span class="lineno"> 26</span> <span class="keyword">const</span> std::string& <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a> = amrex::Concatenate(<a class="code hl_variable" href="classREMORA.html#a4ca794481e17552667b3824252497b6a">check_file</a>,<a class="code hl_variable" href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">istep</a>[0],<a class="code hl_variable" href="classREMORA.html#a84df70f21edd11cb1df1d3e5b96ba754">file_min_digits</a>);</div>
<div class="line"><a id="l00027" name="l00027"></a><span class="lineno"> 27</span> </div>
<div class="line"><a id="l00028" name="l00028"></a><span class="lineno"> 28</span> amrex::Print() << <span class="stringliteral">"Writing checkpoint "</span> << <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00029" name="l00029"></a><span class="lineno"> 29</span> </div>
<div class="line"><a id="l00030" name="l00030"></a><span class="lineno"> 30</span> <span class="keyword">const</span> <span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nlevels</a> = <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>+1;</div>
<div class="line"><a id="l00031" name="l00031"></a><span class="lineno"> 31</span> </div>
<div class="line"><a id="l00032" name="l00032"></a><span class="lineno"> 32</span> <span class="comment">// ---- prebuild a hierarchy of directories</span></div>
<div class="line"><a id="l00033" name="l00033"></a><span class="lineno"> 33</span> <span class="comment">// ---- dirName is built first. if dirName exists, it is renamed. then build</span></div>
<div class="line"><a id="l00034" name="l00034"></a><span class="lineno"> 34</span> <span class="comment">// ---- dirName/subDirPrefix_0 .. dirName/subDirPrefix_nlevels-1</span></div>
<div class="line"><a id="l00035" name="l00035"></a><span class="lineno"> 35</span> <span class="comment">// ---- if callBarrier is true, call ParallelDescriptor::Barrier()</span></div>
<div class="line"><a id="l00036" name="l00036"></a><span class="lineno"> 36</span> <span class="comment">// ---- after all directories are built</span></div>
<div class="line"><a id="l00037" name="l00037"></a><span class="lineno"> 37</span> <span class="comment">// ---- ParallelDescriptor::IOProcessor() creates the directories</span></div>
<div class="line"><a id="l00038" name="l00038"></a><span class="lineno"> 38</span> amrex::PreBuildDirectorHierarchy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nlevels</a>, <span class="keyword">true</span>);</div>
<div class="line"><a id="l00039" name="l00039"></a><span class="lineno"> 39</span> </div>
<div class="line"><a id="l00040" name="l00040"></a><span class="lineno"> 40</span> <span class="comment">// write Header file</span></div>
<div class="line"><a id="l00041" name="l00041"></a><span class="lineno"> 41</span> <span class="keywordflow">if</span> (ParallelDescriptor::IOProcessor()) {</div>
<div class="line"><a id="l00042" name="l00042"></a><span class="lineno"> 42</span> </div>
<div class="line"><a id="l00043" name="l00043"></a><span class="lineno"> 43</span> std::string <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFileName</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a> + <span class="stringliteral">"/Header"</span>);</div>
<div class="line"><a id="l00044" name="l00044"></a><span class="lineno"> 44</span> VisMF::IO_Buffer <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">io_buffer</a>(VisMF::IO_Buffer_Size);</div>
<div class="line"><a id="l00045" name="l00045"></a><span class="lineno"> 45</span> std::ofstream <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>;</div>
<div class="line"><a id="l00046" name="l00046"></a><span class="lineno"> 46</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>.rdbuf()->pubsetbuf(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">io_buffer</a>.dataPtr(), <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">io_buffer</a>.size());</div>
<div class="line"><a id="l00047" name="l00047"></a><span class="lineno"> 47</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>.open(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFileName</a>.c_str(), std::ofstream::out |</div>
<div class="line"><a id="l00048" name="l00048"></a><span class="lineno"> 48</span> std::ofstream::trunc |</div>
<div class="line"><a id="l00049" name="l00049"></a><span class="lineno"> 49</span> std::ofstream::binary);</div>
<div class="line"><a id="l00050" name="l00050"></a><span class="lineno"> 50</span> <span class="keywordflow">if</span>( ! <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>.good()) {</div>
<div class="line"><a id="l00051" name="l00051"></a><span class="lineno"> 51</span> amrex::FileOpenFailed(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFileName</a>);</div>
<div class="line"><a id="l00052" name="l00052"></a><span class="lineno"> 52</span> }</div>
<div class="line"><a id="l00053" name="l00053"></a><span class="lineno"> 53</span> </div>
<div class="line"><a id="l00054" name="l00054"></a><span class="lineno"> 54</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>.precision(17);</div>
<div class="line"><a id="l00055" name="l00055"></a><span class="lineno"> 55</span> </div>
<div class="line"><a id="l00056" name="l00056"></a><span class="lineno"> 56</span> <span class="comment">// write out title line</span></div>
<div class="line"><a id="l00057" name="l00057"></a><span class="lineno"> 57</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <span class="stringliteral">"Checkpoint file for REMORA\n"</span>;</div>
<div class="line"><a id="l00058" name="l00058"></a><span class="lineno"> 58</span> </div>
<div class="line"><a id="l00059" name="l00059"></a><span class="lineno"> 59</span> <span class="comment">// write out finest_level</span></div>
<div class="line"><a id="l00060" name="l00060"></a><span class="lineno"> 60</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00061" name="l00061"></a><span class="lineno"> 61</span> </div>
<div class="line"><a id="l00062" name="l00062"></a><span class="lineno"> 62</span> <span class="comment">// write the number of components</span></div>
<div class="line"><a id="l00063" name="l00063"></a><span class="lineno"> 63</span> <span class="comment">// for each variable we store</span></div>
<div class="line"><a id="l00064" name="l00064"></a><span class="lineno"> 64</span> </div>
<div class="line"><a id="l00065" name="l00065"></a><span class="lineno"> 65</span> <span class="comment">// conservative, cell-centered vars</span></div>
<div class="line"><a id="l00066" name="l00066"></a><span class="lineno"> 66</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00067" name="l00067"></a><span class="lineno"> 67</span> </div>
<div class="line"><a id="l00068" name="l00068"></a><span class="lineno"> 68</span> <span class="comment">// x-velocity on faces</span></div>
<div class="line"><a id="l00069" name="l00069"></a><span class="lineno"> 69</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 1 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00070" name="l00070"></a><span class="lineno"> 70</span> </div>
<div class="line"><a id="l00071" name="l00071"></a><span class="lineno"> 71</span> <span class="comment">// y-velocity on faces</span></div>
<div class="line"><a id="l00072" name="l00072"></a><span class="lineno"> 72</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 1 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00073" name="l00073"></a><span class="lineno"> 73</span> </div>
<div class="line"><a id="l00074" name="l00074"></a><span class="lineno"> 74</span> <span class="comment">// z-velocity on faces</span></div>
<div class="line"><a id="l00075" name="l00075"></a><span class="lineno"> 75</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 1 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00076" name="l00076"></a><span class="lineno"> 76</span> </div>
<div class="line"><a id="l00077" name="l00077"></a><span class="lineno"> 77</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 2 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00078" name="l00078"></a><span class="lineno"> 78</span> </div>
<div class="line"><a id="l00079" name="l00079"></a><span class="lineno"> 79</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 2 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00080" name="l00080"></a><span class="lineno"> 80</span> </div>
<div class="line"><a id="l00081" name="l00081"></a><span class="lineno"> 81</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 3 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00082" name="l00082"></a><span class="lineno"> 82</span> </div>
<div class="line"><a id="l00083" name="l00083"></a><span class="lineno"> 83</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << 3 << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00084" name="l00084"></a><span class="lineno"> 84</span> </div>
<div class="line"><a id="l00085" name="l00085"></a><span class="lineno"> 85</span> <span class="comment">// write out array of istep</span></div>
<div class="line"><a id="l00086" name="l00086"></a><span class="lineno"> 86</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">istep</a>.size(); ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>) {</div>
<div class="line"><a id="l00087" name="l00087"></a><span class="lineno"> 87</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <a class="code hl_variable" href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">istep</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>] << <span class="stringliteral">" "</span>;</div>
<div class="line"><a id="l00088" name="l00088"></a><span class="lineno"> 88</span> }</div>
<div class="line"><a id="l00089" name="l00089"></a><span class="lineno"> 89</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00090" name="l00090"></a><span class="lineno"> 90</span> </div>
<div class="line"><a id="l00091" name="l00091"></a><span class="lineno"> 91</span> <span class="comment">// write out array of dt</span></div>
<div class="line"><a id="l00092" name="l00092"></a><span class="lineno"> 92</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">dt</a>.size(); ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>) {</div>
<div class="line"><a id="l00093" name="l00093"></a><span class="lineno"> 93</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <a class="code hl_variable" href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">dt</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>] << <span class="stringliteral">" "</span>;</div>
<div class="line"><a id="l00094" name="l00094"></a><span class="lineno"> 94</span> }</div>
<div class="line"><a id="l00095" name="l00095"></a><span class="lineno"> 95</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00096" name="l00096"></a><span class="lineno"> 96</span> </div>
<div class="line"><a id="l00097" name="l00097"></a><span class="lineno"> 97</span> <span class="comment">// write out array of t_new</span></div>
<div class="line"><a id="l00098" name="l00098"></a><span class="lineno"> 98</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>.size(); ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>) {</div>
<div class="line"><a id="l00099" name="l00099"></a><span class="lineno"> 99</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>] << <span class="stringliteral">" "</span>;</div>
<div class="line"><a id="l00100" name="l00100"></a><span class="lineno"> 100</span> }</div>
<div class="line"><a id="l00101" name="l00101"></a><span class="lineno"> 101</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00102" name="l00102"></a><span class="lineno"> 102</span> </div>
<div class="line"><a id="l00103" name="l00103"></a><span class="lineno"> 103</span> <span class="comment">// write the BoxArray at each level</span></div>
<div class="line"><a id="l00104" name="l00104"></a><span class="lineno"> 104</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> <= <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>; ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>) {</div>
<div class="line"><a id="l00105" name="l00105"></a><span class="lineno"> 105</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">boxArray</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>).writeOn(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a>);</div>
<div class="line"><a id="l00106" name="l00106"></a><span class="lineno"> 106</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">HeaderFile</a> << <span class="charliteral">'\n'</span>;</div>
<div class="line"><a id="l00107" name="l00107"></a><span class="lineno"> 107</span> }</div>
<div class="line"><a id="l00108" name="l00108"></a><span class="lineno"> 108</span> }</div>
<div class="line"><a id="l00109" name="l00109"></a><span class="lineno"> 109</span> </div>
<div class="line"><a id="l00110" name="l00110"></a><span class="lineno"> 110</span> <span class="comment">// write the MultiFab data to, e.g., chk00010/Level_0/</span></div>
<div class="line"><a id="l00111" name="l00111"></a><span class="lineno"> 111</span> <span class="comment">// Here we make copies of the MultiFab with no ghost cells</span></div>
<div class="line"><a id="l00112" name="l00112"></a><span class="lineno"> 112</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> <= <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>; ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>)</div>
<div class="line"><a id="l00113" name="l00113"></a><span class="lineno"> 113</span> {</div>
<div class="line"><a id="l00114" name="l00114"></a><span class="lineno"> 114</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">BoxList</a> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a> = <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>].boxList();</div>
<div class="line"><a id="l00115" name="l00115"></a><span class="lineno"> 115</span> <span class="keywordflow">for</span> (<span class="keyword">auto</span>& <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">b</a> : <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a>) {</div>
<div class="line"><a id="l00116" name="l00116"></a><span class="lineno"> 116</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">b</a>.setRange(2,0);</div>
<div class="line"><a id="l00117" name="l00117"></a><span class="lineno"> 117</span> }</div>
<div class="line"><a id="l00118" name="l00118"></a><span class="lineno"> 118</span> BoxArray <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>(std::move(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a>));</div>
<div class="line"><a id="l00119" name="l00119"></a><span class="lineno"> 119</span> </div>
<div class="line"><a id="l00120" name="l00120"></a><span class="lineno"> 120</span> MultiFab cons(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00121" name="l00121"></a><span class="lineno"> 121</span> MultiFab::Copy(cons,*<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00122" name="l00122"></a><span class="lineno"> 122</span> VisMF::Write(cons, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Cell"</span>));</div>
<div class="line"><a id="l00123" name="l00123"></a><span class="lineno"> 123</span> </div>
<div class="line"><a id="l00124" name="l00124"></a><span class="lineno"> 124</span> MultiFab::Copy(cons,*<a class="code hl_variable" href="classREMORA.html#abc6ebdcc84239b993b12b3c95425fa88">cons_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#abc6ebdcc84239b993b12b3c95425fa88">cons_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00125" name="l00125"></a><span class="lineno"> 125</span> VisMF::Write(cons, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Cell_old"</span>));</div>
<div class="line"><a id="l00126" name="l00126"></a><span class="lineno"> 126</span> </div>
<div class="line"><a id="l00127" name="l00127"></a><span class="lineno"> 127</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00128" name="l00128"></a><span class="lineno"> 128</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>,*<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00129" name="l00129"></a><span class="lineno"> 129</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XFace"</span>));</div>
<div class="line"><a id="l00130" name="l00130"></a><span class="lineno"> 130</span> </div>
<div class="line"><a id="l00131" name="l00131"></a><span class="lineno"> 131</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>,*<a class="code hl_variable" href="classREMORA.html#a51594dd103a7eee0f4e0c6e366d9f0ce">xvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a51594dd103a7eee0f4e0c6e366d9f0ce">xvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00132" name="l00132"></a><span class="lineno"> 132</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XFace_old"</span>));</div>
<div class="line"><a id="l00133" name="l00133"></a><span class="lineno"> 133</span> </div>
<div class="line"><a id="l00134" name="l00134"></a><span class="lineno"> 134</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00135" name="l00135"></a><span class="lineno"> 135</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>,*<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00136" name="l00136"></a><span class="lineno"> 136</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YFace"</span>));</div>
<div class="line"><a id="l00137" name="l00137"></a><span class="lineno"> 137</span> </div>
<div class="line"><a id="l00138" name="l00138"></a><span class="lineno"> 138</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>,*<a class="code hl_variable" href="classREMORA.html#a9861cf91ee53fb2125f5f49c5cf73155">yvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a9861cf91ee53fb2125f5f49c5cf73155">yvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00139" name="l00139"></a><span class="lineno"> 139</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YFace_old"</span>));</div>
<div class="line"><a id="l00140" name="l00140"></a><span class="lineno"> 140</span> </div>
<div class="line"><a id="l00141" name="l00141"></a><span class="lineno"> 141</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,0,1)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00142" name="l00142"></a><span class="lineno"> 142</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>,*<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00143" name="l00143"></a><span class="lineno"> 143</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZFace"</span>));</div>
<div class="line"><a id="l00144" name="l00144"></a><span class="lineno"> 144</span> </div>
<div class="line"><a id="l00145" name="l00145"></a><span class="lineno"> 145</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>,*<a class="code hl_variable" href="classREMORA.html#a6a980b1cd1d4d0e1253a641bee00de75">zvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,1,<a class="code hl_variable" href="classREMORA.html#a6a980b1cd1d4d0e1253a641bee00de75">zvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00146" name="l00146"></a><span class="lineno"> 146</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZFace_old"</span>));</div>
<div class="line"><a id="l00147" name="l00147"></a><span class="lineno"> 147</span> </div>
<div class="line"><a id="l00148" name="l00148"></a><span class="lineno"> 148</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00149" name="l00149"></a><span class="lineno"> 149</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>,*<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,2,(<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00150" name="l00150"></a><span class="lineno"> 150</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XRHS"</span>));</div>
<div class="line"><a id="l00151" name="l00151"></a><span class="lineno"> 151</span> </div>
<div class="line"><a id="l00152" name="l00152"></a><span class="lineno"> 152</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00153" name="l00153"></a><span class="lineno"> 153</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>,*<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],0,0,2,(<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00154" name="l00154"></a><span class="lineno"> 154</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YRHS"</span>));</div>
<div class="line"><a id="l00155" name="l00155"></a><span class="lineno"> 155</span> </div>
<div class="line"><a id="l00156" name="l00156"></a><span class="lineno"> 156</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],3,(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00157" name="l00157"></a><span class="lineno"> 157</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>,*(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,3,(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00158" name="l00158"></a><span class="lineno"> 158</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XBar"</span>));</div>
<div class="line"><a id="l00159" name="l00159"></a><span class="lineno"> 159</span> </div>
<div class="line"><a id="l00160" name="l00160"></a><span class="lineno"> 160</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],3,(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00161" name="l00161"></a><span class="lineno"> 161</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>,*(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,3,(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00162" name="l00162"></a><span class="lineno"> 162</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YBar"</span>));</div>
<div class="line"><a id="l00163" name="l00163"></a><span class="lineno"> 163</span> </div>
<div class="line"><a id="l00164" name="l00164"></a><span class="lineno"> 164</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00165" name="l00165"></a><span class="lineno"> 165</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>,*(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,2,(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00166" name="l00166"></a><span class="lineno"> 166</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XRHS2d"</span>));</div>
<div class="line"><a id="l00167" name="l00167"></a><span class="lineno"> 167</span> </div>
<div class="line"><a id="l00168" name="l00168"></a><span class="lineno"> 168</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00169" name="l00169"></a><span class="lineno"> 169</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>,*(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,2,(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00170" name="l00170"></a><span class="lineno"> 170</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YRHS2d"</span>));</div>
<div class="line"><a id="l00171" name="l00171"></a><span class="lineno"> 171</span> </div>
<div class="line"><a id="l00172" name="l00172"></a><span class="lineno"> 172</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00173" name="l00173"></a><span class="lineno"> 173</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>,*(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,1,(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00174" name="l00174"></a><span class="lineno"> 174</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Mskr"</span>));</div>
<div class="line"><a id="l00175" name="l00175"></a><span class="lineno"> 175</span> </div>
<div class="line"><a id="l00176" name="l00176"></a><span class="lineno"> 176</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00177" name="l00177"></a><span class="lineno"> 177</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>,*(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,1,(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00178" name="l00178"></a><span class="lineno"> 178</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Msku"</span>));</div>
<div class="line"><a id="l00179" name="l00179"></a><span class="lineno"> 179</span> </div>
<div class="line"><a id="l00180" name="l00180"></a><span class="lineno"> 180</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00181" name="l00181"></a><span class="lineno"> 181</span> MultiFab::Copy(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>,*(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),0,0,1,(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00182" name="l00182"></a><span class="lineno"> 182</span> VisMF::Write(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Mskv"</span>));</div>
<div class="line"><a id="l00183" name="l00183"></a><span class="lineno"> 183</span> </div>
<div class="line"><a id="l00184" name="l00184"></a><span class="lineno"> 184</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a9a932b3cb396238423eb2f33ec17d6aa">BottomStressType::linear</a>) {</div>
<div class="line"><a id="l00185" name="l00185"></a><span class="lineno"> 185</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#adba780a7c66c2158c914bff64964df60">vec_rdrag</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"rdrag"</span>));</div>
<div class="line"><a id="l00186" name="l00186"></a><span class="lineno"> 186</span> } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4ad2ac8798d82192d415e5a4d797dda30a">BottomStressType::quadratic</a>) {</div>
<div class="line"><a id="l00187" name="l00187"></a><span class="lineno"> 187</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#aa9af5e4ff3ad47cb8e9b2a9b109ac884">vec_rdrag2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"rdrag2"</span>));</div>
<div class="line"><a id="l00188" name="l00188"></a><span class="lineno"> 188</span> }</div>
<div class="line"><a id="l00189" name="l00189"></a><span class="lineno"> 189</span> </div>
<div class="line"><a id="l00190" name="l00190"></a><span class="lineno"> 190</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a7304832fd4fb6edc031f981f8ff12a47">BottomStressType::logarithmic</a> ||</div>
<div class="line"><a id="l00191" name="l00191"></a><span class="lineno"> 191</span> <a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#ab7a9f7f152b29002c3cb2331447dc30e">vert_mixing_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#ae051a5657a30b61eb6fe9bab09127856a07351bfe713bfebc506f0660ff44b7bf">VertMixingType::GLS</a>) {</div>
<div class="line"><a id="l00192" name="l00192"></a><span class="lineno"> 192</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a18ff6d97c0e15c441ba20bb9b9ab34cf">vec_ZoBot</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZoBot"</span>));</div>
<div class="line"><a id="l00193" name="l00193"></a><span class="lineno"> 193</span> }</div>
<div class="line"><a id="l00194" name="l00194"></a><span class="lineno"> 194</span> </div>
<div class="line"><a id="l00195" name="l00195"></a><span class="lineno"> 195</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#ab8e2ff918dcaf20a807b37e88f9fdbb0">vec_DU_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DU_avg1"</span>));</div>
<div class="line"><a id="l00196" name="l00196"></a><span class="lineno"> 196</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a1b2cc0f2f617e846c6261df12aefd110">vec_DU_avg2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DU_avg2"</span>));</div>
<div class="line"><a id="l00197" name="l00197"></a><span class="lineno"> 197</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a9e0560b2f68b9c541583c9c1ff6c87ec">vec_DV_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DV_avg1"</span>));</div>
<div class="line"><a id="l00198" name="l00198"></a><span class="lineno"> 198</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#ac5ba663380c2e7b3857e21fd0d4286f9">vec_DV_avg2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DV_avg2"</span>));</div>
<div class="line"><a id="l00199" name="l00199"></a><span class="lineno"> 199</span> </div>
<div class="line"><a id="l00200" name="l00200"></a><span class="lineno"> 200</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#ab60f476961622f8e7f27221595e84956">vec_zeta</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"zeta"</span>));</div>
<div class="line"><a id="l00201" name="l00201"></a><span class="lineno"> 201</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#adeb60c66ba4665f07c57fbf3b3b8909a">vec_Zt_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Zt_avg1"</span>));</div>
<div class="line"><a id="l00202" name="l00202"></a><span class="lineno"> 202</span> </div>
<div class="line"><a id="l00203" name="l00203"></a><span class="lineno"> 203</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a16c0ecb29fa9848bdf12fa014753907e">vec_h</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"h"</span>));</div>
<div class="line"><a id="l00204" name="l00204"></a><span class="lineno"> 204</span> </div>
<div class="line"><a id="l00205" name="l00205"></a><span class="lineno"> 205</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a2b46a5c2d4de4ac0dff97029b6f6dd21">vec_tke</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"tke"</span>));</div>
<div class="line"><a id="l00206" name="l00206"></a><span class="lineno"> 206</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a3199f163918597f4654c2a73d4bf9d08">vec_gls</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"gls"</span>));</div>
<div class="line"><a id="l00207" name="l00207"></a><span class="lineno"> 207</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a443952ed65d7042dfbc471bb405f8d90">vec_Lscale</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Lscale"</span>));</div>
<div class="line"><a id="l00208" name="l00208"></a><span class="lineno"> 208</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#aa92c3cc0ffe40ed6213a6b2dfb499ff2">vec_Akk</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akk"</span>));</div>
<div class="line"><a id="l00209" name="l00209"></a><span class="lineno"> 209</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#afdc5b98bf397fe9dc4bc530e27b10c11">vec_Akp</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akp"</span>));</div>
<div class="line"><a id="l00210" name="l00210"></a><span class="lineno"> 210</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#ad36ee94716ca0cde00d8cad5fe5cce94">vec_Akv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akv"</span>));</div>
<div class="line"><a id="l00211" name="l00211"></a><span class="lineno"> 211</span> VisMF::Write(*(<a class="code hl_variable" href="classREMORA.html#a48c1bf42530780ce02b3655d7cefe592">vec_Akt</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akt"</span>));</div>
<div class="line"><a id="l00212" name="l00212"></a><span class="lineno"> 212</span> }</div>
<div class="line"><a id="l00213" name="l00213"></a><span class="lineno"> 213</span> </div>
<div class="line"><a id="l00214" name="l00214"></a><span class="lineno"> 214</span><span class="preprocessor">#ifdef REMORA_USE_PARTICLES</span></div>
<div class="line"><a id="l00215" name="l00215"></a><span class="lineno"> 215</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">particleData</a>.Checkpoint(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">checkpointname</a>);</div>
<div class="line"><a id="l00216" name="l00216"></a><span class="lineno"> 216</span><span class="preprocessor">#endif</span></div>
<div class="line"><a id="l00217" name="l00217"></a><span class="lineno"> 217</span>}</div>
</div>
<div class="line"><a id="l00218" name="l00218"></a><span class="lineno"> 218</span> </div>
<div class="line"><a id="l00219" name="l00219"></a><span class="lineno"> 219</span><span class="keywordtype">void</span></div>
<div class="foldopen" id="foldopen00220" data-start="{" data-end="}">
<div class="line"><a id="l00220" name="l00220"></a><span class="lineno"><a class="line" href="classREMORA.html#a316a6db4c0b9a218e834c054d8c8f437"> 220</a></span><a class="code hl_function" href="classREMORA.html#a316a6db4c0b9a218e834c054d8c8f437">REMORA::ReadCheckpointFile</a> ()</div>
<div class="line"><a id="l00221" name="l00221"></a><span class="lineno"> 221</span>{</div>
<div class="line"><a id="l00222" name="l00222"></a><span class="lineno"> 222</span> amrex::Print() << <span class="stringliteral">"Restart from checkpoint "</span> << <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a> << <span class="stringliteral">"\n"</span>;</div>
<div class="line"><a id="l00223" name="l00223"></a><span class="lineno"> 223</span> </div>
<div class="line"><a id="l00224" name="l00224"></a><span class="lineno"> 224</span> <span class="comment">// Header</span></div>
<div class="line"><a id="l00225" name="l00225"></a><span class="lineno"> 225</span> std::string <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">File</a>(<a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a> + <span class="stringliteral">"/Header"</span>);</div>
<div class="line"><a id="l00226" name="l00226"></a><span class="lineno"> 226</span> </div>
<div class="line"><a id="l00227" name="l00227"></a><span class="lineno"> 227</span> VisMF::IO_Buffer <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">io_buffer</a>(VisMF::GetIOBufferSize());</div>
<div class="line"><a id="l00228" name="l00228"></a><span class="lineno"> 228</span> </div>
<div class="line"><a id="l00229" name="l00229"></a><span class="lineno"> 229</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">Vector<char></a> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">fileCharPtr</a>;</div>
<div class="line"><a id="l00230" name="l00230"></a><span class="lineno"> 230</span> ParallelDescriptor::ReadAndBcastFile(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">File</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">fileCharPtr</a>);</div>
<div class="line"><a id="l00231" name="l00231"></a><span class="lineno"> 231</span> std::string <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">fileCharPtrString</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">fileCharPtr</a>.dataPtr());</div>
<div class="line"><a id="l00232" name="l00232"></a><span class="lineno"> 232</span> std::istringstream <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">fileCharPtrString</a>, std::istringstream::in);</div>
<div class="line"><a id="l00233" name="l00233"></a><span class="lineno"> 233</span> </div>
<div class="line"><a id="l00234" name="l00234"></a><span class="lineno"> 234</span> std::string <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>;</div>
<div class="line"><a id="l00235" name="l00235"></a><span class="lineno"> 235</span> </div>
<div class="line"><a id="l00236" name="l00236"></a><span class="lineno"> 236</span> <span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00237" name="l00237"></a><span class="lineno"> 237</span> </div>
<div class="line"><a id="l00238" name="l00238"></a><span class="lineno"> 238</span> <span class="comment">// read in title line</span></div>
<div class="line"><a id="l00239" name="l00239"></a><span class="lineno"> 239</span> std::getline(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00240" name="l00240"></a><span class="lineno"> 240</span> </div>
<div class="line"><a id="l00241" name="l00241"></a><span class="lineno"> 241</span> <span class="comment">// read in finest_level</span></div>
<div class="line"><a id="l00242" name="l00242"></a><span class="lineno"> 242</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>;</div>
<div class="line"><a id="l00243" name="l00243"></a><span class="lineno"> 243</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00244" name="l00244"></a><span class="lineno"> 244</span> </div>
<div class="line"><a id="l00245" name="l00245"></a><span class="lineno"> 245</span> <span class="keywordflow">if</span> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a> > <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">max_level</a>) {</div>
<div class="line"><a id="l00246" name="l00246"></a><span class="lineno"> 246</span> amrex::Abort(<span class="stringliteral">"Checkpoint file has more levels than amr.max_level"</span>);</div>
<div class="line"><a id="l00247" name="l00247"></a><span class="lineno"> 247</span> }</div>
<div class="line"><a id="l00248" name="l00248"></a><span class="lineno"> 248</span> </div>
<div class="line"><a id="l00249" name="l00249"></a><span class="lineno"> 249</span> <span class="comment">// read the number of components</span></div>
<div class="line"><a id="l00250" name="l00250"></a><span class="lineno"> 250</span> <span class="comment">// for each variable we store</span></div>
<div class="line"><a id="l00251" name="l00251"></a><span class="lineno"> 251</span> </div>
<div class="line"><a id="l00252" name="l00252"></a><span class="lineno"> 252</span> <span class="comment">// conservative, cell-centered vars</span></div>
<div class="line"><a id="l00253" name="l00253"></a><span class="lineno"> 253</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00254" name="l00254"></a><span class="lineno"> 254</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00255" name="l00255"></a><span class="lineno"> 255</span> <span class="keywordflow">if</span> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> != <a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>) {</div>
<div class="line"><a id="l00256" name="l00256"></a><span class="lineno"> 256</span> <span class="comment">// The tracer count comes from remora.nscalar or, when a biology model is</span></div>
<div class="line"><a id="l00257" name="l00257"></a><span class="lineno"> 257</span> <span class="comment">// active, from that model's tracer list, so name both rather than only the</span></div>
<div class="line"><a id="l00258" name="l00258"></a><span class="lineno"> 258</span> <span class="comment">// input a biology run never sets.</span></div>
<div class="line"><a id="l00259" name="l00259"></a><span class="lineno"> 259</span> amrex::Abort(<span class="stringliteral">"Checkpoint holds "</span> + std::to_string(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>) +</div>
<div class="line"><a id="l00260" name="l00260"></a><span class="lineno"> 260</span> <span class="stringliteral">" cell-centered components but this run has "</span> + std::to_string(<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>) +</div>
<div class="line"><a id="l00261" name="l00261"></a><span class="lineno"> 261</span> <span class="stringliteral">". The count is set by remora.nscalar and by remora.biology_model; "</span></div>
<div class="line"><a id="l00262" name="l00262"></a><span class="lineno"> 262</span> <span class="stringliteral">"both must match the run the checkpoint came from."</span>);</div>
<div class="line"><a id="l00263" name="l00263"></a><span class="lineno"> 263</span> }</div>
<div class="line"><a id="l00264" name="l00264"></a><span class="lineno"> 264</span> </div>
<div class="line"><a id="l00265" name="l00265"></a><span class="lineno"> 265</span> <span class="comment">// x-velocity on faces</span></div>
<div class="line"><a id="l00266" name="l00266"></a><span class="lineno"> 266</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00267" name="l00267"></a><span class="lineno"> 267</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00268" name="l00268"></a><span class="lineno"> 268</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 1);</div>
<div class="line"><a id="l00269" name="l00269"></a><span class="lineno"> 269</span> </div>
<div class="line"><a id="l00270" name="l00270"></a><span class="lineno"> 270</span> <span class="comment">// y-velocity on faces</span></div>
<div class="line"><a id="l00271" name="l00271"></a><span class="lineno"> 271</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00272" name="l00272"></a><span class="lineno"> 272</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00273" name="l00273"></a><span class="lineno"> 273</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 1);</div>
<div class="line"><a id="l00274" name="l00274"></a><span class="lineno"> 274</span> </div>
<div class="line"><a id="l00275" name="l00275"></a><span class="lineno"> 275</span> <span class="comment">// z-velocity on faces</span></div>
<div class="line"><a id="l00276" name="l00276"></a><span class="lineno"> 276</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00277" name="l00277"></a><span class="lineno"> 277</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00278" name="l00278"></a><span class="lineno"> 278</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 1);</div>
<div class="line"><a id="l00279" name="l00279"></a><span class="lineno"> 279</span> </div>
<div class="line"><a id="l00280" name="l00280"></a><span class="lineno"> 280</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00281" name="l00281"></a><span class="lineno"> 281</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00282" name="l00282"></a><span class="lineno"> 282</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 2);</div>
<div class="line"><a id="l00283" name="l00283"></a><span class="lineno"> 283</span> </div>
<div class="line"><a id="l00284" name="l00284"></a><span class="lineno"> 284</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00285" name="l00285"></a><span class="lineno"> 285</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00286" name="l00286"></a><span class="lineno"> 286</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 2);</div>
<div class="line"><a id="l00287" name="l00287"></a><span class="lineno"> 287</span> </div>
<div class="line"><a id="l00288" name="l00288"></a><span class="lineno"> 288</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00289" name="l00289"></a><span class="lineno"> 289</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00290" name="l00290"></a><span class="lineno"> 290</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 3);</div>
<div class="line"><a id="l00291" name="l00291"></a><span class="lineno"> 291</span> </div>
<div class="line"><a id="l00292" name="l00292"></a><span class="lineno"> 292</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a>;</div>
<div class="line"><a id="l00293" name="l00293"></a><span class="lineno"> 293</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00294" name="l00294"></a><span class="lineno"> 294</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">AMREX_ASSERT</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">chk_ncomp</a> == 3);</div>
<div class="line"><a id="l00295" name="l00295"></a><span class="lineno"> 295</span> </div>
<div class="line"><a id="l00296" name="l00296"></a><span class="lineno"> 296</span> <span class="comment">// read in array of istep</span></div>
<div class="line"><a id="l00297" name="l00297"></a><span class="lineno"> 297</span> std::getline(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00298" name="l00298"></a><span class="lineno"> 298</span> {</div>
<div class="line"><a id="l00299" name="l00299"></a><span class="lineno"> 299</span> std::istringstream <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00300" name="l00300"></a><span class="lineno"> 300</span> <span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0;</div>
<div class="line"><a id="l00301" name="l00301"></a><span class="lineno"> 301</span> <span class="keywordflow">while</span> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a> && <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">istep</a>.size()) {</div>
<div class="line"><a id="l00302" name="l00302"></a><span class="lineno"> 302</span> <a class="code hl_variable" href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">istep</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>++] = std::stoi(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>);</div>
<div class="line"><a id="l00303" name="l00303"></a><span class="lineno"> 303</span> }</div>
<div class="line"><a id="l00304" name="l00304"></a><span class="lineno"> 304</span> }</div>
<div class="line"><a id="l00305" name="l00305"></a><span class="lineno"> 305</span> </div>
<div class="line"><a id="l00306" name="l00306"></a><span class="lineno"> 306</span> <span class="comment">// read in array of dt</span></div>
<div class="line"><a id="l00307" name="l00307"></a><span class="lineno"> 307</span> std::getline(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00308" name="l00308"></a><span class="lineno"> 308</span> {</div>
<div class="line"><a id="l00309" name="l00309"></a><span class="lineno"> 309</span> std::istringstream <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00310" name="l00310"></a><span class="lineno"> 310</span> <span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0;</div>
<div class="line"><a id="l00311" name="l00311"></a><span class="lineno"> 311</span> <span class="keywordflow">while</span> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a> && <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">dt</a>.size()) {</div>
<div class="line"><a id="l00312" name="l00312"></a><span class="lineno"> 312</span><span class="preprocessor">#ifdef AMREX_USE_FLOAT</span></div>
<div class="line"><a id="l00313" name="l00313"></a><span class="lineno"> 313</span> <a class="code hl_variable" href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">dt</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>++] = std::stof(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>);</div>
<div class="line"><a id="l00314" name="l00314"></a><span class="lineno"> 314</span><span class="preprocessor">#else</span></div>
<div class="line"><a id="l00315" name="l00315"></a><span class="lineno"> 315</span> <a class="code hl_variable" href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">dt</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>++] = std::stod(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>);</div>
<div class="line"><a id="l00316" name="l00316"></a><span class="lineno"> 316</span><span class="preprocessor">#endif</span></div>
<div class="line"><a id="l00317" name="l00317"></a><span class="lineno"> 317</span> }</div>
<div class="line"><a id="l00318" name="l00318"></a><span class="lineno"> 318</span> }</div>
<div class="line"><a id="l00319" name="l00319"></a><span class="lineno"> 319</span> </div>
<div class="line"><a id="l00320" name="l00320"></a><span class="lineno"> 320</span> <span class="comment">// read in array of t_new</span></div>
<div class="line"><a id="l00321" name="l00321"></a><span class="lineno"> 321</span> std::getline(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00322" name="l00322"></a><span class="lineno"> 322</span> {</div>
<div class="line"><a id="l00323" name="l00323"></a><span class="lineno"> 323</span> std::istringstream <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">line</a>);</div>
<div class="line"><a id="l00324" name="l00324"></a><span class="lineno"> 324</span> <span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> = 0;</div>
<div class="line"><a id="l00325" name="l00325"></a><span class="lineno"> 325</span> <span class="keywordflow">while</span> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lis</a> >> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a> && <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a> < <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>.size()) {</div>
<div class="line"><a id="l00326" name="l00326"></a><span class="lineno"> 326</span><span class="preprocessor">#ifdef AMREX_USE_FLOAT</span></div>
<div class="line"><a id="l00327" name="l00327"></a><span class="lineno"> 327</span> <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>++] = std::stof(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>);</div>
<div class="line"><a id="l00328" name="l00328"></a><span class="lineno"> 328</span><span class="preprocessor">#else</span></div>
<div class="line"><a id="l00329" name="l00329"></a><span class="lineno"> 329</span> <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">i</a>++] = std::stod(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">word</a>);</div>
<div class="line"><a id="l00330" name="l00330"></a><span class="lineno"> 330</span><span class="preprocessor">#endif</span></div>
<div class="line"><a id="l00331" name="l00331"></a><span class="lineno"> 331</span> }</div>
<div class="line"><a id="l00332" name="l00332"></a><span class="lineno"> 332</span> }</div>
<div class="line"><a id="l00333" name="l00333"></a><span class="lineno"> 333</span> </div>
<div class="line"><a id="l00334" name="l00334"></a><span class="lineno"> 334</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> <= <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>; ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>) {</div>
<div class="line"><a id="l00335" name="l00335"></a><span class="lineno"> 335</span> </div>
<div class="line"><a id="l00336" name="l00336"></a><span class="lineno"> 336</span> <span class="comment">// read in level 'lev' BoxArray from Header</span></div>
<div class="line"><a id="l00337" name="l00337"></a><span class="lineno"> 337</span> BoxArray <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba</a>;</div>
<div class="line"><a id="l00338" name="l00338"></a><span class="lineno"> 338</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba</a>.readFrom(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00339" name="l00339"></a><span class="lineno"> 339</span> <a class="code hl_function" href="classREMORA.html#a03e3346471b528f47454cd969393786d">GotoNextLine</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">is</a>);</div>
<div class="line"><a id="l00340" name="l00340"></a><span class="lineno"> 340</span> </div>
<div class="line"><a id="l00341" name="l00341"></a><span class="lineno"> 341</span> <span class="comment">// create a distribution mapping</span></div>
<div class="line"><a id="l00342" name="l00342"></a><span class="lineno"> 342</span> DistributionMapping <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dm</a> { <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba</a>, ParallelDescriptor::NProcs() };</div>
<div class="line"><a id="l00343" name="l00343"></a><span class="lineno"> 343</span> </div>
<div class="line"><a id="l00344" name="l00344"></a><span class="lineno"> 344</span> <a class="code hl_function" href="classREMORA.html#ad64e9b244603ae920ed761821753a71f">MakeNewLevelFromScratch</a> (<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">t_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>], <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba</a>, <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dm</a>);</div>
<div class="line"><a id="l00345" name="l00345"></a><span class="lineno"> 345</span> }</div>
<div class="line"><a id="l00346" name="l00346"></a><span class="lineno"> 346</span> </div>
<div class="line"><a id="l00347" name="l00347"></a><span class="lineno"> 347</span> <span class="comment">// read in the MultiFab data</span></div>
<div class="line"><a id="l00348" name="l00348"></a><span class="lineno"> 348</span> <span class="keywordflow">for</span> (<span class="keywordtype">int</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> = 0; <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a> <= <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">finest_level</a>; ++<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>)</div>
<div class="line"><a id="l00349" name="l00349"></a><span class="lineno"> 349</span> {</div>
<div class="line"><a id="l00350" name="l00350"></a><span class="lineno"> 350</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">BoxList</a> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a> = <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>].boxList();</div>
<div class="line"><a id="l00351" name="l00351"></a><span class="lineno"> 351</span> <span class="keywordflow">for</span> (<span class="keyword">auto</span>& <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">b</a> : <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a>) {</div>
<div class="line"><a id="l00352" name="l00352"></a><span class="lineno"> 352</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">b</a>.setRange(2,0);</div>
<div class="line"><a id="l00353" name="l00353"></a><span class="lineno"> 353</span> }</div>
<div class="line"><a id="l00354" name="l00354"></a><span class="lineno"> 354</span> BoxArray <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>(std::move(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">bl2d</a>));</div>
<div class="line"><a id="l00355" name="l00355"></a><span class="lineno"> 355</span> </div>
<div class="line"><a id="l00356" name="l00356"></a><span class="lineno"> 356</span> MultiFab cons(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00357" name="l00357"></a><span class="lineno"> 357</span> VisMF::Read(cons, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Cell"</span>));</div>
<div class="line"><a id="l00358" name="l00358"></a><span class="lineno"> 358</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],cons,0,0,<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">cons_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00359" name="l00359"></a><span class="lineno"> 359</span> </div>
<div class="line"><a id="l00360" name="l00360"></a><span class="lineno"> 360</span> VisMF::Read(cons, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Cell_old"</span>));</div>
<div class="line"><a id="l00361" name="l00361"></a><span class="lineno"> 361</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#abc6ebdcc84239b993b12b3c95425fa88">cons_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],cons,0,0,<a class="code hl_variable" href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">ncons</a>,<a class="code hl_variable" href="classREMORA.html#abc6ebdcc84239b993b12b3c95425fa88">cons_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00362" name="l00362"></a><span class="lineno"> 362</span> </div>
<div class="line"><a id="l00363" name="l00363"></a><span class="lineno"> 363</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00364" name="l00364"></a><span class="lineno"> 364</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XFace"</span>));</div>
<div class="line"><a id="l00365" name="l00365"></a><span class="lineno"> 365</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">xvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00366" name="l00366"></a><span class="lineno"> 366</span> </div>
<div class="line"><a id="l00367" name="l00367"></a><span class="lineno"> 367</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XFace_old"</span>));</div>
<div class="line"><a id="l00368" name="l00368"></a><span class="lineno"> 368</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a51594dd103a7eee0f4e0c6e366d9f0ce">xvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">xvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a51594dd103a7eee0f4e0c6e366d9f0ce">xvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00369" name="l00369"></a><span class="lineno"> 369</span> </div>
<div class="line"><a id="l00370" name="l00370"></a><span class="lineno"> 370</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00371" name="l00371"></a><span class="lineno"> 371</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YFace"</span>));</div>
<div class="line"><a id="l00372" name="l00372"></a><span class="lineno"> 372</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">yvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00373" name="l00373"></a><span class="lineno"> 373</span> </div>
<div class="line"><a id="l00374" name="l00374"></a><span class="lineno"> 374</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YFace_old"</span>));</div>
<div class="line"><a id="l00375" name="l00375"></a><span class="lineno"> 375</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a9861cf91ee53fb2125f5f49c5cf73155">yvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">yvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a9861cf91ee53fb2125f5f49c5cf73155">yvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00376" name="l00376"></a><span class="lineno"> 376</span> </div>
<div class="line"><a id="l00377" name="l00377"></a><span class="lineno"> 377</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,0,1)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00378" name="l00378"></a><span class="lineno"> 378</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZFace"</span>));</div>
<div class="line"><a id="l00379" name="l00379"></a><span class="lineno"> 379</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">zvel_new</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00380" name="l00380"></a><span class="lineno"> 380</span> </div>
<div class="line"><a id="l00381" name="l00381"></a><span class="lineno"> 381</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZFace_old"</span>));</div>
<div class="line"><a id="l00382" name="l00382"></a><span class="lineno"> 382</span> MultiFab::Copy(*<a class="code hl_variable" href="classREMORA.html#a6a980b1cd1d4d0e1253a641bee00de75">zvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">zvel</a>,0,0,1,<a class="code hl_variable" href="classREMORA.html#a6a980b1cd1d4d0e1253a641bee00de75">zvel_old</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00383" name="l00383"></a><span class="lineno"> 383</span> </div>
<div class="line"><a id="l00384" name="l00384"></a><span class="lineno"> 384</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00385" name="l00385"></a><span class="lineno"> 385</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XRHS"</span>));</div>
<div class="line"><a id="l00386" name="l00386"></a><span class="lineno"> 386</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru</a>,0,0,2,(<a class="code hl_variable" href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">vec_ru</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00387" name="l00387"></a><span class="lineno"> 387</span> </div>
<div class="line"><a id="l00388" name="l00388"></a><span class="lineno"> 388</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">grids</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00389" name="l00389"></a><span class="lineno"> 389</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YRHS"</span>));</div>
<div class="line"><a id="l00390" name="l00390"></a><span class="lineno"> 390</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv</a>,0,0,2,(<a class="code hl_variable" href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">vec_rv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00391" name="l00391"></a><span class="lineno"> 391</span> </div>
<div class="line"><a id="l00392" name="l00392"></a><span class="lineno"> 392</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],3,(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00393" name="l00393"></a><span class="lineno"> 393</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XBar"</span>));</div>
<div class="line"><a id="l00394" name="l00394"></a><span class="lineno"> 394</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ubar</a>,0,0,3,(<a class="code hl_variable" href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">vec_ubar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00395" name="l00395"></a><span class="lineno"> 395</span> </div>
<div class="line"><a id="l00396" name="l00396"></a><span class="lineno"> 396</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],3,(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00397" name="l00397"></a><span class="lineno"> 397</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YBar"</span>));</div>
<div class="line"><a id="l00398" name="l00398"></a><span class="lineno"> 398</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_vbar</a>,0,0,3,(<a class="code hl_variable" href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">vec_vbar</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00399" name="l00399"></a><span class="lineno"> 399</span> </div>
<div class="line"><a id="l00400" name="l00400"></a><span class="lineno"> 400</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00401" name="l00401"></a><span class="lineno"> 401</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"XRHS2d"</span>));</div>
<div class="line"><a id="l00402" name="l00402"></a><span class="lineno"> 402</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_ru2d</a>,0,0,2,(<a class="code hl_variable" href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">vec_ru2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00403" name="l00403"></a><span class="lineno"> 403</span> </div>
<div class="line"><a id="l00404" name="l00404"></a><span class="lineno"> 404</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],2,(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00405" name="l00405"></a><span class="lineno"> 405</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"YRHS2d"</span>));</div>
<div class="line"><a id="l00406" name="l00406"></a><span class="lineno"> 406</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_rv2d</a>,0,0,2,(<a class="code hl_variable" href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">vec_rv2d</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00407" name="l00407"></a><span class="lineno"> 407</span> </div>
<div class="line"><a id="l00408" name="l00408"></a><span class="lineno"> 408</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00409" name="l00409"></a><span class="lineno"> 409</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Mskr"</span>));</div>
<div class="line"><a id="l00410" name="l00410"></a><span class="lineno"> 410</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskr</a>,0,0,1,(<a class="code hl_variable" href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">vec_mskr</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00411" name="l00411"></a><span class="lineno"> 411</span> </div>
<div class="line"><a id="l00412" name="l00412"></a><span class="lineno"> 412</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(1,0,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00413" name="l00413"></a><span class="lineno"> 413</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Msku"</span>));</div>
<div class="line"><a id="l00414" name="l00414"></a><span class="lineno"> 414</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_msku</a>,0,0,1,(<a class="code hl_variable" href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">vec_msku</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00415" name="l00415"></a><span class="lineno"> 415</span> </div>
<div class="line"><a id="l00416" name="l00416"></a><span class="lineno"> 416</span> MultiFab <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">convert</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">ba2d</a>,IntVect(0,1,0)),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">dmap</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>],1,(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00417" name="l00417"></a><span class="lineno"> 417</span> VisMF::Read(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>, amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Mskv"</span>));</div>
<div class="line"><a id="l00418" name="l00418"></a><span class="lineno"> 418</span> MultiFab::Copy(*(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]),<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">mf_mskv</a>,0,0,1,(<a class="code hl_variable" href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">vec_mskv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>])-><a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">nGrowVect</a>());</div>
<div class="line"><a id="l00419" name="l00419"></a><span class="lineno"> 419</span> </div>
<div class="line"><a id="l00420" name="l00420"></a><span class="lineno"> 420</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a9a932b3cb396238423eb2f33ec17d6aa">BottomStressType::linear</a>) {</div>
<div class="line"><a id="l00421" name="l00421"></a><span class="lineno"> 421</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#adba780a7c66c2158c914bff64964df60">vec_rdrag</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"rdrag"</span>));</div>
<div class="line"><a id="l00422" name="l00422"></a><span class="lineno"> 422</span> } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4ad2ac8798d82192d415e5a4d797dda30a">BottomStressType::quadratic</a>) {</div>
<div class="line"><a id="l00423" name="l00423"></a><span class="lineno"> 423</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#aa9af5e4ff3ad47cb8e9b2a9b109ac884">vec_rdrag2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"rdrag2"</span>));</div>
<div class="line"><a id="l00424" name="l00424"></a><span class="lineno"> 424</span> }</div>
<div class="line"><a id="l00425" name="l00425"></a><span class="lineno"> 425</span> </div>
<div class="line"><a id="l00426" name="l00426"></a><span class="lineno"> 426</span> <span class="keywordflow">if</span> (<a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">bottom_stress_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a7304832fd4fb6edc031f981f8ff12a47">BottomStressType::logarithmic</a> ||</div>
<div class="line"><a id="l00427" name="l00427"></a><span class="lineno"> 427</span> <a class="code hl_variable" href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">solverChoice</a>.<a class="code hl_variable" href="structSolverChoice.html#ab7a9f7f152b29002c3cb2331447dc30e">vert_mixing_type</a> == <a class="code hl_enumvalue" href="REMORA__DataStruct_8H.html#ae051a5657a30b61eb6fe9bab09127856a07351bfe713bfebc506f0660ff44b7bf">VertMixingType::GLS</a>) {</div>
<div class="line"><a id="l00428" name="l00428"></a><span class="lineno"> 428</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a18ff6d97c0e15c441ba20bb9b9ab34cf">vec_ZoBot</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"ZoBot"</span>));</div>
<div class="line"><a id="l00429" name="l00429"></a><span class="lineno"> 429</span> }</div>
<div class="line"><a id="l00430" name="l00430"></a><span class="lineno"> 430</span> </div>
<div class="line"><a id="l00431" name="l00431"></a><span class="lineno"> 431</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#ab8e2ff918dcaf20a807b37e88f9fdbb0">vec_DU_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DU_avg1"</span>));</div>
<div class="line"><a id="l00432" name="l00432"></a><span class="lineno"> 432</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a1b2cc0f2f617e846c6261df12aefd110">vec_DU_avg2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DU_avg2"</span>));</div>
<div class="line"><a id="l00433" name="l00433"></a><span class="lineno"> 433</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a9e0560b2f68b9c541583c9c1ff6c87ec">vec_DV_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DV_avg1"</span>));</div>
<div class="line"><a id="l00434" name="l00434"></a><span class="lineno"> 434</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#ac5ba663380c2e7b3857e21fd0d4286f9">vec_DV_avg2</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"DV_avg2"</span>));</div>
<div class="line"><a id="l00435" name="l00435"></a><span class="lineno"> 435</span> </div>
<div class="line"><a id="l00436" name="l00436"></a><span class="lineno"> 436</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#ab60f476961622f8e7f27221595e84956">vec_zeta</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"zeta"</span>));</div>
<div class="line"><a id="l00437" name="l00437"></a><span class="lineno"> 437</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#adeb60c66ba4665f07c57fbf3b3b8909a">vec_Zt_avg1</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Zt_avg1"</span>));</div>
<div class="line"><a id="l00438" name="l00438"></a><span class="lineno"> 438</span> </div>
<div class="line"><a id="l00439" name="l00439"></a><span class="lineno"> 439</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a16c0ecb29fa9848bdf12fa014753907e">vec_h</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"h"</span>));</div>
<div class="line"><a id="l00440" name="l00440"></a><span class="lineno"> 440</span> </div>
<div class="line"><a id="l00441" name="l00441"></a><span class="lineno"> 441</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a2b46a5c2d4de4ac0dff97029b6f6dd21">vec_tke</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"tke"</span>));</div>
<div class="line"><a id="l00442" name="l00442"></a><span class="lineno"> 442</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a3199f163918597f4654c2a73d4bf9d08">vec_gls</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"gls"</span>));</div>
<div class="line"><a id="l00443" name="l00443"></a><span class="lineno"> 443</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a443952ed65d7042dfbc471bb405f8d90">vec_Lscale</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Lscale"</span>));</div>
<div class="line"><a id="l00444" name="l00444"></a><span class="lineno"> 444</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#aa92c3cc0ffe40ed6213a6b2dfb499ff2">vec_Akk</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akk"</span>));</div>
<div class="line"><a id="l00445" name="l00445"></a><span class="lineno"> 445</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#afdc5b98bf397fe9dc4bc530e27b10c11">vec_Akp</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akp"</span>));</div>
<div class="line"><a id="l00446" name="l00446"></a><span class="lineno"> 446</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#a48c1bf42530780ce02b3655d7cefe592">vec_Akt</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akt"</span>));</div>
<div class="line"><a id="l00447" name="l00447"></a><span class="lineno"> 447</span> VisMF::Read(*(<a class="code hl_variable" href="classREMORA.html#ad36ee94716ca0cde00d8cad5fe5cce94">vec_Akv</a>[<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>]), amrex::MultiFabFileFullPrefix(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>, <a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>, <span class="stringliteral">"Level_"</span>, <span class="stringliteral">"Akv"</span>));</div>
<div class="line"><a id="l00448" name="l00448"></a><span class="lineno"> 448</span> </div>
<div class="line"><a id="l00449" name="l00449"></a><span class="lineno"> 449</span> <a class="code hl_function" href="classREMORA.html#a20f12090c7b81ca46d953ccf1319c0f5">stretch_transform</a>(<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">lev</a>);</div>
<div class="line"><a id="l00450" name="l00450"></a><span class="lineno"> 450</span> </div>
<div class="line"><a id="l00451" name="l00451"></a><span class="lineno"> 451</span> }</div>
<div class="line"><a id="l00452" name="l00452"></a><span class="lineno"> 452</span> </div>
<div class="line"><a id="l00453" name="l00453"></a><span class="lineno"> 453</span><span class="preprocessor">#ifdef REMORA_USE_PARTICLES</span></div>
<div class="line"><a id="l00454" name="l00454"></a><span class="lineno"> 454</span> <a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">particleData</a>.Restart((amrex::ParGDBBase*)<a class="code hl_function" href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">GetParGDB</a>(),<a class="code hl_variable" href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">restart_chkfile</a>);</div>
<div class="line"><a id="l00455" name="l00455"></a><span class="lineno"> 455</span><span class="preprocessor">#endif</span></div>
<div class="line"><a id="l00456" name="l00456"></a><span class="lineno"> 456</span>}</div>
</div>
<div class="ttc" id="aREMORA_8H_html"><div class="ttname"><a href="REMORA_8H.html">REMORA.H</a></div></div>
<div class="ttc" id="aREMORA__DataStruct_8H_html_a02f293b6823fb5306216d7de2d4a32c4a7304832fd4fb6edc031f981f8ff12a47"><div class="ttname"><a href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a7304832fd4fb6edc031f981f8ff12a47">BottomStressType::logarithmic</a></div><div class="ttdeci">@ logarithmic</div></div>
<div class="ttc" id="aREMORA__DataStruct_8H_html_a02f293b6823fb5306216d7de2d4a32c4a9a932b3cb396238423eb2f33ec17d6aa"><div class="ttname"><a href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4a9a932b3cb396238423eb2f33ec17d6aa">BottomStressType::linear</a></div><div class="ttdeci">@ linear</div></div>
<div class="ttc" id="aREMORA__DataStruct_8H_html_a02f293b6823fb5306216d7de2d4a32c4ad2ac8798d82192d415e5a4d797dda30a"><div class="ttname"><a href="REMORA__DataStruct_8H.html#a02f293b6823fb5306216d7de2d4a32c4ad2ac8798d82192d415e5a4d797dda30a">BottomStressType::quadratic</a></div><div class="ttdeci">@ quadratic</div></div>
<div class="ttc" id="aREMORA__DataStruct_8H_html_ae051a5657a30b61eb6fe9bab09127856a07351bfe713bfebc506f0660ff44b7bf"><div class="ttname"><a href="REMORA__DataStruct_8H.html#ae051a5657a30b61eb6fe9bab09127856a07351bfe713bfebc506f0660ff44b7bf">VertMixingType::GLS</a></div><div class="ttdeci">@ GLS</div></div>
<div class="ttc" id="aREMORA__InitAnalyticBathymetry__Advection_8H_html_a8a679062f388e820893598db05e40897"><div class="ttname"><a href="REMORA__InitAnalyticBathymetry__Advection_8H.html#a8a679062f388e820893598db05e40897">setVal</a></div><div class="ttdeci">mf_h setVal(geomdata.ProbHi(2))</div></div>
<div class="ttc" id="aclassREMORA_html_a03e3346471b528f47454cd969393786d"><div class="ttname"><a href="classREMORA.html#a03e3346471b528f47454cd969393786d">REMORA::GotoNextLine</a></div><div class="ttdeci">static void GotoNextLine(std::istream &is)</div><div class="ttdoc">utility to skip to next line in Header</div><div class="ttdef"><b>Definition</b> <a href="REMORA__Checkpoint_8cpp_source.html#l00008">REMORA_Checkpoint.cpp:8</a></div></div>
<div class="ttc" id="aclassREMORA_html_a0614aa1826c2b48b2ec5942acf522285"><div class="ttname"><a href="classREMORA.html#a0614aa1826c2b48b2ec5942acf522285">REMORA::ncons</a></div><div class="ttdeci">int ncons</div><div class="ttdoc">Number of conserved scalars in the state (temperature + salt + passive scalars + biology tracers)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01633">REMORA.H:1633</a></div></div>
<div class="ttc" id="aclassREMORA_html_a09a545500875aca215d8f2ca6bf57ff4"><div class="ttname"><a href="classREMORA.html#a09a545500875aca215d8f2ca6bf57ff4">REMORA::vec_rv2d</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_rv2d</div><div class="ttdoc">v velocity RHS (2D, includes horizontal and vertical advection)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00413">REMORA.H:413</a></div></div>
<div class="ttc" id="aclassREMORA_html_a16c0ecb29fa9848bdf12fa014753907e"><div class="ttname"><a href="classREMORA.html#a16c0ecb29fa9848bdf12fa014753907e">REMORA::vec_h</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_h</div><div class="ttdoc">multilevel data container for current step's z velocities (largely unused; W stored separately)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00395">REMORA.H:395</a></div></div>
<div class="ttc" id="aclassREMORA_html_a18ff6d97c0e15c441ba20bb9b9ab34cf"><div class="ttname"><a href="classREMORA.html#a18ff6d97c0e15c441ba20bb9b9ab34cf">REMORA::vec_ZoBot</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_ZoBot</div><div class="ttdoc">Bottom roughness length [m], defined at rho points.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00514">REMORA.H:514</a></div></div>
<div class="ttc" id="aclassREMORA_html_a1b2cc0f2f617e846c6261df12aefd110"><div class="ttname"><a href="classREMORA.html#a1b2cc0f2f617e846c6261df12aefd110">REMORA::vec_DU_avg2</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_DU_avg2</div><div class="ttdoc">correct time average of barotropic x velocity flux for coupling (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00524">REMORA.H:524</a></div></div>
<div class="ttc" id="aclassREMORA_html_a1e6bb5ba18bc44344e75066721820ed5"><div class="ttname"><a href="classREMORA.html#a1e6bb5ba18bc44344e75066721820ed5">REMORA::cons_new</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > cons_new</div><div class="ttdoc">multilevel data container for current step's scalar data: temperature, salinity, passive tracer</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00375">REMORA.H:375</a></div></div>
<div class="ttc" id="aclassREMORA_html_a20f12090c7b81ca46d953ccf1319c0f5"><div class="ttname"><a href="classREMORA.html#a20f12090c7b81ca46d953ccf1319c0f5">REMORA::stretch_transform</a></div><div class="ttdeci">void stretch_transform(int lev)</div><div class="ttdoc">Calculate vertical stretched coordinates.</div><div class="ttdef"><b>Definition</b> <a href="REMORA__DepthStretchTransform_8H_source.html#l00078">REMORA_DepthStretchTransform.H:78</a></div></div>
<div class="ttc" id="aclassREMORA_html_a271d86c1e20a76bd279fb2ae3411b17d"><div class="ttname"><a href="classREMORA.html#a271d86c1e20a76bd279fb2ae3411b17d">REMORA::vec_mskr</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_mskr</div><div class="ttdoc">land/sea mask at cell centers (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00546">REMORA.H:546</a></div></div>
<div class="ttc" id="aclassREMORA_html_a2b46a5c2d4de4ac0dff97029b6f6dd21"><div class="ttname"><a href="classREMORA.html#a2b46a5c2d4de4ac0dff97029b6f6dd21">REMORA::vec_tke</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_tke</div><div class="ttdoc">Turbulent kinetic energy.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00621">REMORA.H:621</a></div></div>
<div class="ttc" id="aclassREMORA_html_a316a6db4c0b9a218e834c054d8c8f437"><div class="ttname"><a href="classREMORA.html#a316a6db4c0b9a218e834c054d8c8f437">REMORA::ReadCheckpointFile</a></div><div class="ttdeci">void ReadCheckpointFile()</div><div class="ttdoc">read checkpoint file from disk</div><div class="ttdef"><b>Definition</b> <a href="REMORA__Checkpoint_8cpp_source.html#l00220">REMORA_Checkpoint.cpp:220</a></div></div>
<div class="ttc" id="aclassREMORA_html_a3199f163918597f4654c2a73d4bf9d08"><div class="ttname"><a href="classREMORA.html#a3199f163918597f4654c2a73d4bf9d08">REMORA::vec_gls</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_gls</div><div class="ttdoc">Turbulent generic length scale.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00623">REMORA.H:623</a></div></div>
<div class="ttc" id="aclassREMORA_html_a37e8ff0d6d779fee8faad696acaa4f0f"><div class="ttname"><a href="classREMORA.html#a37e8ff0d6d779fee8faad696acaa4f0f">REMORA::vec_ru2d</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_ru2d</div><div class="ttdoc">u velocity RHS (2D, includes horizontal and vertical advection)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00411">REMORA.H:411</a></div></div>
<div class="ttc" id="aclassREMORA_html_a3950916f4ed965bcd10f62e28e08fd76"><div class="ttname"><a href="classREMORA.html#a3950916f4ed965bcd10f62e28e08fd76">REMORA::zvel_new</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > zvel_new</div><div class="ttdoc">multilevel data container for current step's z velocities (largely unused; W stored separately)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00381">REMORA.H:381</a></div></div>
<div class="ttc" id="aclassREMORA_html_a443952ed65d7042dfbc471bb405f8d90"><div class="ttname"><a href="classREMORA.html#a443952ed65d7042dfbc471bb405f8d90">REMORA::vec_Lscale</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Lscale</div><div class="ttdoc">Vertical mixing turbulent length scale.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00625">REMORA.H:625</a></div></div>
<div class="ttc" id="aclassREMORA_html_a48c1bf42530780ce02b3655d7cefe592"><div class="ttname"><a href="classREMORA.html#a48c1bf42530780ce02b3655d7cefe592">REMORA::vec_Akt</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Akt</div><div class="ttdoc">Vertical diffusion coefficient (3D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00421">REMORA.H:421</a></div></div>
<div class="ttc" id="aclassREMORA_html_a495638b4cabe139ecdff6a3e8fb7317d"><div class="ttname"><a href="classREMORA.html#a495638b4cabe139ecdff6a3e8fb7317d">REMORA::vec_msku</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_msku</div><div class="ttdoc">land/sea mask at x-faces (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00548">REMORA.H:548</a></div></div>
<div class="ttc" id="aclassREMORA_html_a4ca794481e17552667b3824252497b6a"><div class="ttname"><a href="classREMORA.html#a4ca794481e17552667b3824252497b6a">REMORA::check_file</a></div><div class="ttdeci">std::string check_file</div><div class="ttdoc">Checkpoint file prefix.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01680">REMORA.H:1680</a></div></div>
<div class="ttc" id="aclassREMORA_html_a51594dd103a7eee0f4e0c6e366d9f0ce"><div class="ttname"><a href="classREMORA.html#a51594dd103a7eee0f4e0c6e366d9f0ce">REMORA::xvel_old</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > xvel_old</div><div class="ttdoc">multilevel data container for last step's x velocities (u in ROMS)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00368">REMORA.H:368</a></div></div>
<div class="ttc" id="aclassREMORA_html_a57327a8173b5dd09f9db6ce23f745dd5"><div class="ttname"><a href="classREMORA.html#a57327a8173b5dd09f9db6ce23f745dd5">REMORA::yvel_new</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > yvel_new</div><div class="ttdoc">multilevel data container for current step's y velocities (v in ROMS)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00379">REMORA.H:379</a></div></div>
<div class="ttc" id="aclassREMORA_html_a6a980b1cd1d4d0e1253a641bee00de75"><div class="ttname"><a href="classREMORA.html#a6a980b1cd1d4d0e1253a641bee00de75">REMORA::zvel_old</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > zvel_old</div><div class="ttdoc">multilevel data container for last step's z velocities (largely unused; W stored separately)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00372">REMORA.H:372</a></div></div>
<div class="ttc" id="aclassREMORA_html_a6d4e5271a8d00e497c4bce0a51dbe63c"><div class="ttname"><a href="classREMORA.html#a6d4e5271a8d00e497c4bce0a51dbe63c">REMORA::xvel_new</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > xvel_new</div><div class="ttdoc">multilevel data container for current step's x velocities (u in ROMS)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00377">REMORA.H:377</a></div></div>
<div class="ttc" id="aclassREMORA_html_a74a4e71cfbac3f7792e1ea70e29cff36"><div class="ttname"><a href="classREMORA.html#a74a4e71cfbac3f7792e1ea70e29cff36">REMORA::vec_mskv</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_mskv</div><div class="ttdoc">land/sea mask at y-faces (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00550">REMORA.H:550</a></div></div>
<div class="ttc" id="aclassREMORA_html_a7c44493fe1a5743c92f272c91c3aa558"><div class="ttname"><a href="classREMORA.html#a7c44493fe1a5743c92f272c91c3aa558">REMORA::istep</a></div><div class="ttdeci">amrex::Vector< int > istep</div><div class="ttdoc">which step?</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01541">REMORA.H:1541</a></div></div>
<div class="ttc" id="aclassREMORA_html_a7caca09160ec6dadae1485327a5ae4cc"><div class="ttname"><a href="classREMORA.html#a7caca09160ec6dadae1485327a5ae4cc">REMORA::WriteCheckpointFile</a></div><div class="ttdeci">void WriteCheckpointFile()</div><div class="ttdoc">write checkpoint file to disk</div><div class="ttdef"><b>Definition</b> <a href="REMORA__Checkpoint_8cpp_source.html#l00015">REMORA_Checkpoint.cpp:15</a></div></div>
<div class="ttc" id="aclassREMORA_html_a84df70f21edd11cb1df1d3e5b96ba754"><div class="ttname"><a href="classREMORA.html#a84df70f21edd11cb1df1d3e5b96ba754">REMORA::file_min_digits</a></div><div class="ttdeci">static int file_min_digits</div><div class="ttdoc">Minimum number of digits in plotfile name or chunked history file.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01750">REMORA.H:1750</a></div></div>
<div class="ttc" id="aclassREMORA_html_a9861cf91ee53fb2125f5f49c5cf73155"><div class="ttname"><a href="classREMORA.html#a9861cf91ee53fb2125f5f49c5cf73155">REMORA::yvel_old</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > yvel_old</div><div class="ttdoc">multilevel data container for last step's y velocities (v in ROMS)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00370">REMORA.H:370</a></div></div>
<div class="ttc" id="aclassREMORA_html_a9e0560b2f68b9c541583c9c1ff6c87ec"><div class="ttname"><a href="classREMORA.html#a9e0560b2f68b9c541583c9c1ff6c87ec">REMORA::vec_DV_avg1</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_DV_avg1</div><div class="ttdoc">time average of barotropic y velocity flux</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00526">REMORA.H:526</a></div></div>
<div class="ttc" id="aclassREMORA_html_aa726a41ea5c80773654850a9444bf7fe"><div class="ttname"><a href="classREMORA.html#aa726a41ea5c80773654850a9444bf7fe">REMORA::t_new</a></div><div class="ttdeci">amrex::Vector< amrex::Real > t_new</div><div class="ttdoc">new time at each level</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01545">REMORA.H:1545</a></div></div>
<div class="ttc" id="aclassREMORA_html_aa88bf20926ca017d05ebabe44f224443"><div class="ttname"><a href="classREMORA.html#aa88bf20926ca017d05ebabe44f224443">REMORA::solverChoice</a></div><div class="ttdeci">static SolverChoice solverChoice</div><div class="ttdoc">Container for algorithmic choices.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01706">REMORA.H:1706</a></div></div>
<div class="ttc" id="aclassREMORA_html_aa92c3cc0ffe40ed6213a6b2dfb499ff2"><div class="ttname"><a href="classREMORA.html#aa92c3cc0ffe40ed6213a6b2dfb499ff2">REMORA::vec_Akk</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Akk</div><div class="ttdoc">Turbulent kinetic energy vertical diffusion coefficient.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00627">REMORA.H:627</a></div></div>
<div class="ttc" id="aclassREMORA_html_aa9af5e4ff3ad47cb8e9b2a9b109ac884"><div class="ttname"><a href="classREMORA.html#aa9af5e4ff3ad47cb8e9b2a9b109ac884">REMORA::vec_rdrag2</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_rdrag2</div><div class="ttdoc">Quadratic drag coefficient [unitless], defined at rho points.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00512">REMORA.H:512</a></div></div>
<div class="ttc" id="aclassREMORA_html_aaf06acc3074f6a4dd322f9e1ca0c5244"><div class="ttname"><a href="classREMORA.html#aaf06acc3074f6a4dd322f9e1ca0c5244">REMORA::vec_ru</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_ru</div><div class="ttdoc">u velocity RHS (3D, includes horizontal and vertical advection)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00407">REMORA.H:407</a></div></div>
<div class="ttc" id="aclassREMORA_html_ab60f476961622f8e7f27221595e84956"><div class="ttname"><a href="classREMORA.html#ab60f476961622f8e7f27221595e84956">REMORA::vec_zeta</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_zeta</div><div class="ttdoc">free surface height (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00540">REMORA.H:540</a></div></div>
<div class="ttc" id="aclassREMORA_html_ab70c8d3ac0d8a5f7ac51365571905874"><div class="ttname"><a href="classREMORA.html#ab70c8d3ac0d8a5f7ac51365571905874">REMORA::vec_vbar</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_vbar</div><div class="ttdoc">barotropic y velocity (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00538">REMORA.H:538</a></div></div>
<div class="ttc" id="aclassREMORA_html_ab8e2ff918dcaf20a807b37e88f9fdbb0"><div class="ttname"><a href="classREMORA.html#ab8e2ff918dcaf20a807b37e88f9fdbb0">REMORA::vec_DU_avg1</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_DU_avg1</div><div class="ttdoc">time average of barotropic x velocity flux (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00522">REMORA.H:522</a></div></div>
<div class="ttc" id="aclassREMORA_html_abb214b8bab178b72c44907f5e2aeead8"><div class="ttname"><a href="classREMORA.html#abb214b8bab178b72c44907f5e2aeead8">REMORA::vec_ubar</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_ubar</div><div class="ttdoc">barotropic x velocity (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00536">REMORA.H:536</a></div></div>
<div class="ttc" id="aclassREMORA_html_abc6ebdcc84239b993b12b3c95425fa88"><div class="ttname"><a href="classREMORA.html#abc6ebdcc84239b993b12b3c95425fa88">REMORA::cons_old</a></div><div class="ttdeci">amrex::Vector< amrex::MultiFab * > cons_old</div><div class="ttdoc">multilevel data container for last step's scalar data: temperature, salinity, passive tracer</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00366">REMORA.H:366</a></div></div>
<div class="ttc" id="aclassREMORA_html_ac5ba663380c2e7b3857e21fd0d4286f9"><div class="ttname"><a href="classREMORA.html#ac5ba663380c2e7b3857e21fd0d4286f9">REMORA::vec_DV_avg2</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_DV_avg2</div><div class="ttdoc">correct time average of barotropic y velocity flux for coupling (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00528">REMORA.H:528</a></div></div>
<div class="ttc" id="aclassREMORA_html_ad36ee94716ca0cde00d8cad5fe5cce94"><div class="ttname"><a href="classREMORA.html#ad36ee94716ca0cde00d8cad5fe5cce94">REMORA::vec_Akv</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Akv</div><div class="ttdoc">Vertical viscosity coefficient (3D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00419">REMORA.H:419</a></div></div>
<div class="ttc" id="aclassREMORA_html_ad64e9b244603ae920ed761821753a71f"><div class="ttname"><a href="classREMORA.html#ad64e9b244603ae920ed761821753a71f">REMORA::MakeNewLevelFromScratch</a></div><div class="ttdeci">virtual void MakeNewLevelFromScratch(int lev, amrex::Real time, const amrex::BoxArray &ba, const amrex::DistributionMapping &dm) override</div><div class="ttdoc">Make a new level from scratch using provided BoxArray and DistributionMapping. Only used during initi...</div><div class="ttdef"><b>Definition</b> <a href="REMORA__make__new__level_8cpp_source.html#l00349">REMORA_make_new_level.cpp:349</a></div></div>
<div class="ttc" id="aclassREMORA_html_adba780a7c66c2158c914bff64964df60"><div class="ttname"><a href="classREMORA.html#adba780a7c66c2158c914bff64964df60">REMORA::vec_rdrag</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_rdrag</div><div class="ttdoc">Linear drag coefficient [m/s], defined at rho points.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00510">REMORA.H:510</a></div></div>
<div class="ttc" id="aclassREMORA_html_adeb60c66ba4665f07c57fbf3b3b8909a"><div class="ttname"><a href="classREMORA.html#adeb60c66ba4665f07c57fbf3b3b8909a">REMORA::vec_Zt_avg1</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Zt_avg1</div><div class="ttdoc">Average of the free surface, zeta (2D)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00453">REMORA.H:453</a></div></div>
<div class="ttc" id="aclassREMORA_html_ae376daabb97c474de25b283de6bd985d"><div class="ttname"><a href="classREMORA.html#ae376daabb97c474de25b283de6bd985d">REMORA::restart_chkfile</a></div><div class="ttdeci">std::string restart_chkfile</div><div class="ttdoc">If set, restart from this checkpoint file.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01619">REMORA.H:1619</a></div></div>
<div class="ttc" id="aclassREMORA_html_ae4e70f2661f28e3a3a2585540e804486"><div class="ttname"><a href="classREMORA.html#ae4e70f2661f28e3a3a2585540e804486">REMORA::vec_rv</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_rv</div><div class="ttdoc">v velocity RHS (3D, includes horizontal and vertical advection)</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00409">REMORA.H:409</a></div></div>
<div class="ttc" id="aclassREMORA_html_aedae6fd90cb13271f63ea80e59a2aacb"><div class="ttname"><a href="classREMORA.html#aedae6fd90cb13271f63ea80e59a2aacb">REMORA::dt</a></div><div class="ttdeci">amrex::Vector< amrex::Real > dt</div><div class="ttdoc">time step at each level</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l01549">REMORA.H:1549</a></div></div>
<div class="ttc" id="aclassREMORA_html_afdc5b98bf397fe9dc4bc530e27b10c11"><div class="ttname"><a href="classREMORA.html#afdc5b98bf397fe9dc4bc530e27b10c11">REMORA::vec_Akp</a></div><div class="ttdeci">amrex::Vector< std::unique_ptr< amrex::MultiFab > > vec_Akp</div><div class="ttdoc">Turbulent length scale vertical diffusion coefficient.</div><div class="ttdef"><b>Definition</b> <a href="REMORA_8H_source.html#l00629">REMORA.H:629</a></div></div>
<div class="ttc" id="anamespaceamrex_html"><div class="ttname"><a href="namespaceamrex.html">amrex</a></div><div class="ttdef"><b>Definition</b> <a href="REMORA__console__io_8cpp_source.html#l00011">REMORA_console_io.cpp:11</a></div></div>
<div class="ttc" id="astructSolverChoice_html_a87953245714a80185fceae6fe421a81e"><div class="ttname"><a href="structSolverChoice.html#a87953245714a80185fceae6fe421a81e">SolverChoice::bottom_stress_type</a></div><div class="ttdeci">BottomStressType bottom_stress_type</div><div class="ttdef"><b>Definition</b> <a href="REMORA__DataStruct_8H_source.html#l00906">REMORA_DataStruct.H:906</a></div></div>
<div class="ttc" id="astructSolverChoice_html_ab7a9f7f152b29002c3cb2331447dc30e"><div class="ttname"><a href="structSolverChoice.html#ab7a9f7f152b29002c3cb2331447dc30e">SolverChoice::vert_mixing_type</a></div><div class="ttdeci">VertMixingType vert_mixing_type</div><div class="ttdef"><b>Definition</b> <a href="REMORA__DataStruct_8H_source.html#l00912">REMORA_DataStruct.H:912</a></div></div>
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