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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "https://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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<div id="projectname">PISM, A Parallel Ice Sheet Model
 <span id="projectnumber">stable v2.1.1 committed by Constantine Khrulev on 2024-12-04 13:36:58 -0900</span>
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<li class="navelem"><a class="el" href="dir_68267d1309a1af8e8297ef4c3efbcdba.html">src</a></li><li class="navelem"><a class="el" href="dir_b7878ad5ecbf2506f4125b9d34c97e45.html">util</a></li><li class="navelem"><a class="el" href="dir_694baf79f0b9500ddbbf7bc0025b9d91.html">array</a></li> </ul>
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<a href="Array3D_8cc.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> <span class="comment">// Copyright (C) 2008--2018, 2020, 2021, 2022, 2023 Ed Bueler and Constantine Khroulev</span></div>
<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="comment">//</span></div>
<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="comment">// This file is part of PISM.</span></div>
<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="comment">//</span></div>
<div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="comment">// PISM is free software; you can redistribute it and/or modify it under the</span></div>
<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> <span class="comment">// terms of the GNU General Public License as published by the Free Software</span></div>
<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="comment">// Foundation; either version 3 of the License, or (at your option) any later</span></div>
<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="comment">// version.</span></div>
<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="comment">//</span></div>
<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="comment">// PISM is distributed in the hope that it will be useful, but WITHOUT ANY</span></div>
<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="comment">// WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS</span></div>
<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="comment">// FOR A PARTICULAR PURPOSE. See the GNU General Public License for more</span></div>
<div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="comment">// details.</span></div>
<div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="comment">//</span></div>
<div class="line"><a name="l00015"></a><span class="lineno"> 15</span> <span class="comment">// You should have received a copy of the GNU General Public License</span></div>
<div class="line"><a name="l00016"></a><span class="lineno"> 16</span> <span class="comment">// along with PISM; if not, write to the Free Software</span></div>
<div class="line"><a name="l00017"></a><span class="lineno"> 17</span> <span class="comment">// Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA</span></div>
<div class="line"><a name="l00018"></a><span class="lineno"> 18</span>  </div>
<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="preprocessor">#include <cstring></span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="preprocessor">#include <cstdlib></span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span> <span class="preprocessor">#include <cassert></span></div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="preprocessor">#include <memory></span></div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> <span class="preprocessor">#include <petscvec.h></span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span>  </div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="preprocessor">#include "pism/util/array/Array3D.hh"</span></div>
<div class="line"><a name="l00026"></a><span class="lineno"> 26</span>  </div>
<div class="line"><a name="l00027"></a><span class="lineno"> 27</span> <span class="preprocessor">#include "pism/util/ConfigInterface.hh"</span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span> <span class="preprocessor">#include "pism/util/Context.hh"</span></div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="preprocessor">#include "pism/util/Grid.hh"</span></div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span> <span class="preprocessor">#include "pism/util/VariableMetadata.hh"</span></div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="preprocessor">#include "pism/util/array/Array_impl.hh"</span></div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span> <span class="preprocessor">#include "pism/util/array/Scalar.hh"</span></div>
<div class="line"><a name="l00033"></a><span class="lineno"> 33</span> <span class="preprocessor">#include "pism/util/error_handling.hh"</span></div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> <span class="preprocessor">#include "pism/util/io/IO_Flags.hh"</span></div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> <span class="preprocessor">#include "pism/util/io/io_helpers.hh"</span></div>
<div class="line"><a name="l00036"></a><span class="lineno"> 36</span>  </div>
<div class="line"><a name="l00037"></a><span class="lineno"> 37</span> <span class="keyword">namespace </span><a class="code" href="namespacepism.html">pism</a> {</div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="keyword">namespace </span>array {</div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span>  </div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="comment">// this file contains method for derived class array::Array3D</span></div>
<div class="line"><a name="l00041"></a><span class="lineno"> 41</span>  </div>
<div class="line"><a name="l00042"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_aa6c8dbf58dff709e5bbbefb7f9e56e30.html#aa6c8dbf58dff709e5bbbefb7f9e56e30"> 42</a></span> <a class="code" href="classpism_1_1array_1_1Array3D_aa6c8dbf58dff709e5bbbefb7f9e56e30.html#aa6c8dbf58dff709e5bbbefb7f9e56e30">Array3D::Array3D</a>(std::shared_ptr<const Grid> grid, <span class="keyword">const</span> std::string &name, <a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3">Kind</a> ghostedp,</div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span>  <span class="keyword">const</span> std::vector<double> &levels, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> stencil_width)</div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  : <a class="code" href="classpism_1_1array_1_1Array.html">Array</a>(grid, name, ghostedp, 1, stencil_width, levels) {</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  <a class="code" href="classpism_1_1array_1_1Array_acdf6a6df6f0b82ee5bf8de3472c36835.html#acdf6a6df6f0b82ee5bf8de3472c36835">set_begin_access_use_dof</a>(<span class="keyword">true</span>);</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> }</div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span> <span class="comment"></span> </div>
<div class="line"><a name="l00048"></a><span class="lineno"> 48</span> <span class="comment">//! Set all values of scalar quantity to given a single value in a particular column.</span></div>
<div class="line"><a name="l00049"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_a57f6842686575847d4662ebe9a69bca6.html#a57f6842686575847d4662ebe9a69bca6"> 49</a></span> <span class="comment"></span><span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array3D_a57f6842686575847d4662ebe9a69bca6.html#a57f6842686575847d4662ebe9a69bca6">Array3D::set_column</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j, <span class="keywordtype">double</span> c) {</div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span>  PetscErrorCode ierr;</div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  assert(<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a> != NULL);</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(i, j, 0);</div>
<div class="line"><a name="l00054"></a><span class="lineno"> 54</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00055"></a><span class="lineno"> 55</span>  </div>
<div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  <span class="keywordtype">double</span> ***arr = (<span class="keywordtype">double</span> ***)<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a>;</div>
<div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  </div>
<div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  <span class="keywordflow">if</span> (c == 0.0) {</div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  ierr = PetscMemzero(arr[j][i], <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>().<a class="code" href="classpism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5.html#a47a8eb9b88993e033cce116e499b2ff5">size</a>() * <span class="keyword">sizeof</span>(<span class="keywordtype">double</span>));</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  <a class="code" href="error__handling_8hh_a970ec877c0e54c6e16c039bfa1b88bad.html#a970ec877c0e54c6e16c039bfa1b88bad">PISM_CHK</a>(ierr, <span class="stringliteral">"PetscMemzero"</span>);</div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span>  } <span class="keywordflow">else</span> {</div>
<div class="line"><a name="l00062"></a><span class="lineno"> 62</span>  <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> nlevels = <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>().size();</div>
<div class="line"><a name="l00063"></a><span class="lineno"> 63</span>  <span class="keywordflow">for</span> (<span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a> = 0; <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a> < nlevels; <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a>++) {</div>
<div class="line"><a name="l00064"></a><span class="lineno"> 64</span>  arr[j][i][<a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a>] = c;</div>
<div class="line"><a name="l00065"></a><span class="lineno"> 65</span>  }</div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span>  }</div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span> }</div>
<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  </div>
<div class="line"><a name="l00069"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_aa19e52c983d3f2ab7af86833a7ce0243.html#aa19e52c983d3f2ab7af86833a7ce0243"> 69</a></span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array3D_a57f6842686575847d4662ebe9a69bca6.html#a57f6842686575847d4662ebe9a69bca6">Array3D::set_column</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j, <span class="keyword">const</span> <span class="keywordtype">double</span> *input) {</div>
<div class="line"><a name="l00070"></a><span class="lineno"> 70</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span>  <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(i, j, 0);</div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span>  <span class="keywordtype">double</span> ***arr = (<span class="keywordtype">double</span> ***)<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a>;</div>
<div class="line"><a name="l00074"></a><span class="lineno"> 74</span>  PetscErrorCode ierr = PetscMemcpy(arr[j][i], input, <a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_aec81354aaf53e5608f89116c340263da.html#aec81354aaf53e5608f89116c340263da">zlevels</a>.size() * <span class="keyword">sizeof</span>(<span class="keywordtype">double</span>));</div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span>  <a class="code" href="error__handling_8hh_a970ec877c0e54c6e16c039bfa1b88bad.html#a970ec877c0e54c6e16c039bfa1b88bad">PISM_CHK</a>(ierr, <span class="stringliteral">"PetscMemcpy"</span>);</div>
<div class="line"><a name="l00076"></a><span class="lineno"> 76</span> }</div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span>  </div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> <span class="keyword">static</span> <span class="keywordtype">bool</span> legal_level(<span class="keyword">const</span> std::vector<double> &levels, <span class="keywordtype">double</span> z) {</div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span>  <span class="keywordtype">double</span> z_min = levels.front();</div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span>  <span class="keywordtype">double</span> z_max = levels.back();</div>
<div class="line"><a name="l00082"></a><span class="lineno"> 82</span>  <span class="keyword">const</span> <span class="keywordtype">double</span> eps = 1.0e-6;</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  <span class="keywordflow">return</span> not(z < z_min - eps || z > z_max + eps);</div>
<div class="line"><a name="l00084"></a><span class="lineno"> 84</span> }</div>
<div class="line"><a name="l00085"></a><span class="lineno"> 85</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00086"></a><span class="lineno"> 86</span> <span class="comment"></span> </div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span> <span class="comment">//! Return value of scalar quantity at level z (m) above base of ice (by linear interpolation).</span></div>
<div class="line"><a name="l00088"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb.html#a4baf48fbb0f675a23093d4d4cc1ab6cb"> 88</a></span> <span class="comment"></span><span class="keywordtype">double</span> <a class="code" href="classpism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb.html#a4baf48fbb0f675a23093d4d4cc1ab6cb">Array3D::interpolate</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j, <span class="keywordtype">double</span> z)<span class="keyword"> const </span>{</div>
<div class="line"><a name="l00089"></a><span class="lineno"> 89</span>  <span class="keyword">const</span> <span class="keyword">auto</span> &zs = <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>();</div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <span class="keyword">auto</span> N = zs.size();</div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span>  </div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  assert(<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a> != NULL);</div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(i, j, 0);</div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  </div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  <span class="keywordflow">if</span> (not legal_level(zs, z)) {</div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <span class="keywordflow">throw</span> <a class="code" href="classpism_1_1RuntimeError_ad0ed5f05a9a4e3e403a1d62f8d1e4e7d.html#ad0ed5f05a9a4e3e403a1d62f8d1e4e7d">RuntimeError::formatted</a>(<a class="code" href="error__handling_8hh_aa0c260bffe8a4dbd77d48e8feee7c526.html#aa0c260bffe8a4dbd77d48e8feee7c526">PISM_ERROR_LOCATION</a>,</div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  <span class="stringliteral">"Array3D interpolate(): level %f is not legal; name = %s"</span>, z,</div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  <a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_ad071bf93059f137225d182dfdd6a7e2f.html#ad071bf93059f137225d182dfdd6a7e2f">name</a>.c_str());</div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  }</div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  </div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  <span class="keyword">const</span> <span class="keyword">auto</span> *<a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a> = <a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j);</div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  </div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  <span class="keywordflow">if</span> (z >= zs[N - 1]) {</div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  <span class="keywordflow">return</span> <a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a>[N - 1];</div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  }</div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  </div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  <span class="keywordflow">if</span> (z <= zs[0]) {</div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  <span class="keywordflow">return</span> <a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a>[0];</div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  }</div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  </div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span>  <span class="keyword">auto</span> mcurr = gsl_interp_accel_find(<a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_a90edba9f54e9a08982973dd017941662.html#a90edba9f54e9a08982973dd017941662">bsearch_accel</a>, zs.data(), N, z);</div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  </div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  <span class="keyword">const</span> <span class="keywordtype">double</span> incr = (z - zs[mcurr]) / (zs[mcurr + 1] - zs[mcurr]);</div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  <span class="keyword">const</span> <span class="keywordtype">double</span> valm = <a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a>[mcurr];</div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span>  <span class="keywordflow">return</span> valm + incr * (<a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a>[mcurr + 1] - valm);</div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span> }</div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span>  </div>
<div class="line"><a name="l00120"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791"> 120</a></span> <span class="keywordtype">double</span> *<a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">Array3D::get_column</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j) {</div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span>  <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(i, j, 0);</div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  <span class="keywordflow">return</span> ((<span class="keywordtype">double</span> ***)<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a>)[j][i];</div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span> }</div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  </div>
<div class="line"><a name="l00127"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_af897882c774a3ca3e82775688cf8a474.html#af897882c774a3ca3e82775688cf8a474"> 127</a></span> <span class="keyword">const</span> <span class="keywordtype">double</span> *<a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">Array3D::get_column</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j)<span class="keyword"> const </span>{</div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span> <span class="preprocessor">#if (Pism_DEBUG == 1)</span></div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(i, j, 0);</div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  <span class="keywordflow">return</span> ((<span class="keywordtype">double</span> ***)<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a>)[j][i];</div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span> }</div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span> <span class="comment"></span> </div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span> <span class="comment">//! Copies a horizontal slice at level z of an Array3D into `output`.</span></div>
<div class="line"><a name="l00135"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_a0ce70fa345951f83ae207a765c5273e4.html#a0ce70fa345951f83ae207a765c5273e4"> 135</a></span> <span class="comment"></span><span class="keywordtype">void</span> <a class="code" href="namespacepism_1_1array_a0ce70fa345951f83ae207a765c5273e4.html#a0ce70fa345951f83ae207a765c5273e4">extract_surface</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array3D.html">Array3D</a> &data, <span class="keywordtype">double</span> z, <a class="code" href="classpism_1_1array_1_1Scalar.html">Scalar</a> &output) {</div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  <a class="code" href="classpism_1_1array_1_1AccessScope.html">array::AccessScope</a> list{ &data, &output };</div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span>  </div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  <a class="code" href="classpism_1_1ParallelSection.html">ParallelSection</a> loop(output.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->com);</div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  <span class="keywordflow">for</span> (<span class="keyword">auto</span> p = output.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->points(); p; p.next()) {</div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> i = p.i(), j = p.j();</div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  output(i, j) = data.<a class="code" href="classpism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb.html#a4baf48fbb0f675a23093d4d4cc1ab6cb">interpolate</a>(i, j, z);</div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span>  }</div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  } <span class="keywordflow">catch</span> (...) {</div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  loop.<a class="code" href="classpism_1_1ParallelSection_a6b0a6e5e64970af7eadabfebe2b20bd2.html#a6b0a6e5e64970af7eadabfebe2b20bd2">failed</a>();</div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  }</div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  loop.<a class="code" href="classpism_1_1ParallelSection_ac23296abee1cbcb3c3fd68c7f5ce0835.html#ac23296abee1cbcb3c3fd68c7f5ce0835">check</a>();</div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span> }</div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  </div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span> <span class="comment"></span> </div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span> <span class="comment">//! Copies the values of an Array3D at the ice surface (specified by the level `z`) into</span></div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span> <span class="comment">//! `output`.</span></div>
<div class="line"><a name="l00153"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_acee0d4b2115002ad95b6f39c1420576e.html#acee0d4b2115002ad95b6f39c1420576e"> 153</a></span> <span class="comment"></span><span class="keywordtype">void</span> <a class="code" href="namespacepism_1_1array_a0ce70fa345951f83ae207a765c5273e4.html#a0ce70fa345951f83ae207a765c5273e4">extract_surface</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array3D.html">Array3D</a> &data, <span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Scalar.html">Scalar</a> &z, <a class="code" href="classpism_1_1array_1_1Scalar.html">Scalar</a> &output) {</div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  <a class="code" href="classpism_1_1array_1_1AccessScope.html">array::AccessScope</a> list{ &data, &output, &z };</div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  </div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  <a class="code" href="classpism_1_1ParallelSection.html">ParallelSection</a> loop(output.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->com);</div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  <span class="keywordflow">for</span> (<span class="keyword">auto</span> p = output.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->points(); p; p.next()) {</div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> i = p.i(), j = p.j();</div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  output(i, j) = data.<a class="code" href="classpism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb.html#a4baf48fbb0f675a23093d4d4cc1ab6cb">interpolate</a>(i, j, z(i, j));</div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  }</div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  } <span class="keywordflow">catch</span> (...) {</div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  loop.<a class="code" href="classpism_1_1ParallelSection_a6b0a6e5e64970af7eadabfebe2b20bd2.html#a6b0a6e5e64970af7eadabfebe2b20bd2">failed</a>();</div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  }</div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  loop.<a class="code" href="classpism_1_1ParallelSection_ac23296abee1cbcb3c3fd68c7f5ce0835.html#ac23296abee1cbcb3c3fd68c7f5ce0835">check</a>();</div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span> }</div>
<div class="line"><a name="l00167"></a><span class="lineno"> 167</span> <span class="comment"></span> </div>
<div class="line"><a name="l00168"></a><span class="lineno"> 168</span> <span class="comment">/** Sum a 3-D vector in the Z direction to create a 2-D vector.</span></div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span> <span class="comment"></span> </div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span> <span class="comment">Note that this sums up all the values in a column, including ones</span></div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span> <span class="comment">above the ice. This may or may not be what you need. Also, take a look</span></div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span> <span class="comment">at IceModel::compute_ice_enthalpy(PetscScalar &result) in iMreport.cc.</span></div>
<div class="line"><a name="l00173"></a><span class="lineno"> 173</span> <span class="comment"></span> </div>
<div class="line"><a name="l00174"></a><span class="lineno"> 174</span> <span class="comment">As for the difference between array::Array2D and array::Scalar, the</span></div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span> <span class="comment">former can store fields with more than 1 "degree of freedom" per grid</span></div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span> <span class="comment">point (such as 2D fields on the "staggered" grid, with the first</span></div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span> <span class="comment">degree of freedom corresponding to the i-offset and second to</span></div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span> <span class="comment">j-offset).</span></div>
<div class="line"><a name="l00179"></a><span class="lineno"> 179</span> <span class="comment"></span> </div>
<div class="line"><a name="l00180"></a><span class="lineno"> 180</span> <span class="comment">array::Scalar is just array::Array2D with "dof == 1", and</span></div>
<div class="line"><a name="l00181"></a><span class="lineno"> 181</span> <span class="comment">array::Vector is array::Array2D with "dof == 2". (Plus some extra</span></div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span> <span class="comment">methods, of course.)</span></div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span> <span class="comment"></span> </div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span> <span class="comment">Either one of array::Array2D and array::Scalar would work in this</span></div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span> <span class="comment">case.</span></div>
<div class="line"><a name="l00186"></a><span class="lineno"> 186</span> <span class="comment"></span> </div>
<div class="line"><a name="l00187"></a><span class="lineno"> 187</span> <span class="comment">Computes output = A*output + B*sum_columns(input) + C</span></div>
<div class="line"><a name="l00188"></a><span class="lineno"> 188</span> <span class="comment"></span> </div>
<div class="line"><a name="l00189"></a><span class="lineno"> 189</span> <span class="comment">@see https://github.com/pism/pism/issues/229 */</span></div>
<div class="line"><a name="l00190"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_a1b1be958c985d6b95f0f529d90bc87d7.html#a1b1be958c985d6b95f0f529d90bc87d7"> 190</a></span> <span class="keywordtype">void</span> <a class="code" href="namespacepism_1_1array_a1b1be958c985d6b95f0f529d90bc87d7.html#a1b1be958c985d6b95f0f529d90bc87d7">sum_columns</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array3D.html">Array3D</a> &data, <span class="keywordtype">double</span> A, <span class="keywordtype">double</span> B, <a class="code" href="classpism_1_1array_1_1Scalar.html">Scalar</a> &output) {</div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span>  <span class="keyword">const</span> <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> Mz = data.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->Mz();</div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span>  </div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  <a class="code" href="classpism_1_1array_1_1AccessScope.html">AccessScope</a> access{ &data, &output };</div>
<div class="line"><a name="l00194"></a><span class="lineno"> 194</span>  </div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span>  <span class="keywordflow">for</span> (<span class="keyword">auto</span> p = data.<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->points(); p; p.next()) {</div>
<div class="line"><a name="l00196"></a><span class="lineno"> 196</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> i = p.i(), j = p.j();</div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span>  </div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span>  <span class="keyword">const</span> <span class="keywordtype">double</span> *<a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a> = data.<a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j);</div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  </div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  <span class="keywordtype">double</span> scalar_sum = 0.0;</div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  <span class="keywordflow">for</span> (<span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a> = 0; <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a> < Mz; ++<a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a>) {</div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  scalar_sum += <a class="code" href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">column</a>[<a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a>];</div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  }</div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  output(i, j) = A * output(i, j) + B * scalar_sum;</div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span>  }</div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span> }</div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  </div>
<div class="line"><a name="l00208"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_a0ea8b6700f5aab01e913dcbad9de72a5.html#a0ea8b6700f5aab01e913dcbad9de72a5"> 208</a></span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array3D_a0ea8b6700f5aab01e913dcbad9de72a5.html#a0ea8b6700f5aab01e913dcbad9de72a5">Array3D::copy_from</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array3D.html">Array3D</a> &input) {</div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  <a class="code" href="classpism_1_1array_1_1AccessScope.html">array::AccessScope</a> list{ <span class="keyword">this</span>, &input };</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  </div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  assert(<a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>().<a class="code" href="classpism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5.html#a47a8eb9b88993e033cce116e499b2ff5">size</a>() == input.<a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>().size());</div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  assert(<a class="code" href="classpism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e.html#a22abc0084c8d344d0fb1faebb8b4319e">ndof</a>() == input.<a class="code" href="classpism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e.html#a22abc0084c8d344d0fb1faebb8b4319e">ndof</a>());</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  </div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  <span class="comment">// 3D arrays have more than one level and ndof() of 1, collections of fields have one</span></div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span>  <span class="comment">// level and ndof() > 1</span></div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span>  <span class="keyword">auto</span> N = <a class="code" href="namespacepism_1_1array_a8957d08741c6f48d1e554ac7ea98530a.html#a8957d08741c6f48d1e554ac7ea98530a">std::max</a>((<span class="keywordtype">size_t</span>)<a class="code" href="classpism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e.html#a22abc0084c8d344d0fb1faebb8b4319e">ndof</a>(), <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>().<a class="code" href="classpism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5.html#a47a8eb9b88993e033cce116e499b2ff5">size</a>());</div>
<div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  </div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  <a class="code" href="classpism_1_1ParallelSection.html">ParallelSection</a> loop(<a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_a295d8d59d99979427598a947439a2949.html#a295d8d59d99979427598a947439a2949">grid</a>->com);</div>
<div class="line"><a name="l00219"></a><span class="lineno"> 219</span>  <span class="keywordflow">try</span> {</div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span>  <span class="keywordflow">for</span> (<span class="keyword">auto</span> p = <a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_a295d8d59d99979427598a947439a2949.html#a295d8d59d99979427598a947439a2949">grid</a>->points(); p; p.next()) {</div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  <span class="keyword">const</span> <span class="keywordtype">int</span> i = p.i(), j = p.j();</div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  </div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span> <span class="preprocessor">#if PETSC_VERSION_LT(3, 12, 0)</span></div>
<div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  PetscMemmove(this-><a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j), <span class="keyword">const_cast<</span><span class="keywordtype">double</span> *<span class="keyword">></span>(input.<a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j)),</div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  N * <span class="keyword">sizeof</span>(<span class="keywordtype">double</span>));</div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span> <span class="preprocessor">#else</span></div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  PetscArraymove(this-><a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j), input.<a class="code" href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">get_column</a>(i, j), N);</div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span> <span class="preprocessor">#endif</span></div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  }</div>
<div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  } <span class="keywordflow">catch</span> (...) {</div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  loop.<a class="code" href="classpism_1_1ParallelSection_a6b0a6e5e64970af7eadabfebe2b20bd2.html#a6b0a6e5e64970af7eadabfebe2b20bd2">failed</a>();</div>
<div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  }</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  loop.<a class="code" href="classpism_1_1ParallelSection_ac23296abee1cbcb3c3fd68c7f5ce0835.html#ac23296abee1cbcb3c3fd68c7f5ce0835">check</a>();</div>
<div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  </div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  <a class="code" href="classpism_1_1array_1_1Array_ad9defa70b851fd2dfac595cfcbb9d803.html#ad9defa70b851fd2dfac595cfcbb9d803">update_ghosts</a>();</div>
<div class="line"><a name="l00236"></a><span class="lineno"> 236</span>  </div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  <a class="code" href="classpism_1_1array_1_1Array_aa3b5158e40a9807c547ce7ba7a223b98.html#aa3b5158e40a9807c547ce7ba7a223b98">inc_state_counter</a>();</div>
<div class="line"><a name="l00238"></a><span class="lineno"> 238</span> }</div>
<div class="line"><a name="l00239"></a><span class="lineno"> 239</span>  </div>
<div class="line"><a name="l00240"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_ab2d5de7b9ceac2f86db1288b02bf6572.html#ab2d5de7b9ceac2f86db1288b02bf6572"> 240</a></span> std::shared_ptr<Array3D> <a class="code" href="classpism_1_1array_1_1Array3D_ab2d5de7b9ceac2f86db1288b02bf6572.html#ab2d5de7b9ceac2f86db1288b02bf6572">Array3D::duplicate</a>(<a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3">Kind</a> ghostedp)<span class="keyword"> const </span>{</div>
<div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  </div>
<div class="line"><a name="l00242"></a><span class="lineno"> 242</span>  <span class="keyword">auto</span> result =</div>
<div class="line"><a name="l00243"></a><span class="lineno"> 243</span>  std::make_shared<Array3D>(this-><a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>(), this-><a class="code" href="classpism_1_1array_1_1Array_a4fe13d85d5fd0747c00837aaee32651b.html#a4fe13d85d5fd0747c00837aaee32651b">get_name</a>(), ghostedp, this-><a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>());</div>
<div class="line"><a name="l00244"></a><span class="lineno"> 244</span>  </div>
<div class="line"><a name="l00245"></a><span class="lineno"> 245</span>  result->metadata() = this-><a class="code" href="classpism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4.html#af9eece42153cd03bfc8ba237ae5310c4">metadata</a>();</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  </div>
<div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  <span class="keywordflow">return</span> result;</div>
<div class="line"><a name="l00248"></a><span class="lineno"> 248</span> }</div>
<div class="line"><a name="l00249"></a><span class="lineno"> 249</span>  </div>
<div class="line"><a name="l00250"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array3D_a8990db065ae76f3c6434fa58fae33d17.html#a8990db065ae76f3c6434fa58fae33d17"> 250</a></span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array3D_a8990db065ae76f3c6434fa58fae33d17.html#a8990db065ae76f3c6434fa58fae33d17">Array3D::regrid_impl</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file, <a class="code" href="classpism_1_1io_1_1Default.html">io::Default</a> default_value) {</div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  </div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  <span class="keyword">auto</span> log = <a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->ctx()->log();</div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  </div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span>  <span class="keyword">auto</span> variable = <a class="code" href="classpism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4.html#af9eece42153cd03bfc8ba237ae5310c4">metadata</a>(0);</div>
<div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  </div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  <span class="keyword">auto</span> V = file.<a class="code" href="classpism_1_1File_a4ec169f0ab9d7858d09f07bffc978f2a.html#a4ec169f0ab9d7858d09f07bffc978f2a">find_variable</a>(variable.get_name(), variable[<span class="stringliteral">"standard_name"</span>]);</div>
<div class="line"><a name="l00257"></a><span class="lineno"> 257</span>  </div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  <a class="code" href="classpism_1_1petsc_1_1TemporaryGlobalVec.html">petsc::TemporaryGlobalVec</a> tmp(<a class="code" href="classpism_1_1array_1_1Array_aa3fb4d0b08e98efb43662be6db1fe2ef.html#aa3fb4d0b08e98efb43662be6db1fe2ef">dm</a>());</div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  </div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span>  <span class="keywordflow">if</span> (not V.exists) {</div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  <a class="code" href="namespacepism_1_1array_a6340d8382fff157e7b54699b1bd35882.html#a6340d8382fff157e7b54699b1bd35882">set_default_value_or_stop</a>(file.<a class="code" href="classpism_1_1File_a735a2ac444d55f02c4456736fca22223.html#a735a2ac444d55f02c4456736fca22223">filename</a>(), variable, default_value, *log, tmp);</div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  } <span class="keywordflow">else</span> {</div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  <a class="code" href="classpism_1_1grid_1_1InputGridInfo.html">grid::InputGridInfo</a> input_grid(file, V.name, variable.unit_system(), <a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>()->registration());</div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  </div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  input_grid.<a class="code" href="classpism_1_1grid_1_1InputGridInfo_af7ffeece246313bb65122f384bd4aa38.html#af7ffeece246313bb65122f384bd4aa38">report</a>(*log, 4, variable.unit_system());</div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  </div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  <a class="code" href="namespacepism_1_1io_a68030f868b9f8a08c80c96fcf3b09f5b.html#a68030f868b9f8a08c80c96fcf3b09f5b">io::check_input_grid</a>(input_grid, *<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>(), <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>());</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  </div>
<div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  <a class="code" href="classpism_1_1LocalInterpCtx.html">LocalInterpCtx</a> lic(input_grid, *<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>(), <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>(), <a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_a3e0a8f5b2176e8aaa858ef6e169c5507.html#a3e0a8f5b2176e8aaa858ef6e169c5507">interpolation_type</a>);</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  </div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  <span class="comment">// Note: this call will read the last time record (the index is set in `lic` based on</span></div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  <span class="comment">// info in `input_grid`).</span></div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  <a class="code" href="classpism_1_1petsc_1_1VecArray.html">petsc::VecArray</a> tmp_array(tmp);</div>
<div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  <a class="code" href="namespacepism_1_1io_a0e1b36b1c8f0c67cae5535fd40850bbc.html#a0e1b36b1c8f0c67cae5535fd40850bbc">io::regrid_spatial_variable</a>(variable, *<a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>(), lic, file, tmp_array.<a class="code" href="classpism_1_1petsc_1_1VecArray_aaa06564a211921bb10f02b52f8b956cf.html#aaa06564a211921bb10f02b52f8b956cf">get</a>());</div>
<div class="line"><a name="l00275"></a><span class="lineno"> 275</span>  }</div>
<div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  </div>
<div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  <span class="keywordflow">if</span> (<a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</a>-><a class="code" href="structpism_1_1array_1_1Array_1_1Impl_a168f31ddc8404eb3ddb3a38a55aee3b7.html#a168f31ddc8404eb3ddb3a38a55aee3b7">ghosted</a>) {</div>
<div class="line"><a name="l00278"></a><span class="lineno"> 278</span>  <a class="code" href="namespacepism_1_1array_a79ae8188b20d8242ce8326fc22d8699b.html#a79ae8188b20d8242ce8326fc22d8699b">global_to_local</a>(*<a class="code" href="classpism_1_1array_1_1Array_aa3fb4d0b08e98efb43662be6db1fe2ef.html#aa3fb4d0b08e98efb43662be6db1fe2ef">dm</a>(), tmp, <a class="code" href="classpism_1_1array_1_1Array_a5da8e0cb6f7c1e6e2ac6efdc841fb80d.html#a5da8e0cb6f7c1e6e2ac6efdc841fb80d">vec</a>());</div>
<div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  } <span class="keywordflow">else</span> {</div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  PetscErrorCode ierr = VecCopy(tmp, <a class="code" href="classpism_1_1array_1_1Array_a5da8e0cb6f7c1e6e2ac6efdc841fb80d.html#a5da8e0cb6f7c1e6e2ac6efdc841fb80d">vec</a>());</div>
<div class="line"><a name="l00281"></a><span class="lineno"> 281</span>  <a class="code" href="error__handling_8hh_a970ec877c0e54c6e16c039bfa1b88bad.html#a970ec877c0e54c6e16c039bfa1b88bad">PISM_CHK</a>(ierr, <span class="stringliteral">"VecCopy"</span>);</div>
<div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  }</div>
<div class="line"><a name="l00283"></a><span class="lineno"> 283</span> }</div>
<div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  </div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span> } <span class="comment">// end of namespace array</span></div>
<div class="line"><a name="l00286"></a><span class="lineno"> 286</span> } <span class="comment">// end of namespace pism</span></div>
<div class="ttc" id="aclasspism_1_1File_a4ec169f0ab9d7858d09f07bffc978f2a_html_a4ec169f0ab9d7858d09f07bffc978f2a"><div class="ttname"><a href="classpism_1_1File_a4ec169f0ab9d7858d09f07bffc978f2a.html#a4ec169f0ab9d7858d09f07bffc978f2a">pism::File::find_variable</a></div><div class="ttdeci">VariableLookupData find_variable(const std::string &short_name, const std::string &std_name) const</div><div class="ttdoc">Find a variable using its standard name and/or short name.</div><div class="ttdef"><b>Definition:</b> <a href="File_8cc_source.html#l00361">File.cc:361</a></div></div>
<div class="ttc" id="aclasspism_1_1File_a735a2ac444d55f02c4456736fca22223_html_a735a2ac444d55f02c4456736fca22223"><div class="ttname"><a href="classpism_1_1File_a735a2ac444d55f02c4456736fca22223.html#a735a2ac444d55f02c4456736fca22223">pism::File::filename</a></div><div class="ttdeci">std::string filename() const</div><div class="ttdef"><b>Definition:</b> <a href="File_8cc_source.html#l00307">File.cc:307</a></div></div>
<div class="ttc" id="aclasspism_1_1File_html"><div class="ttname"><a href="classpism_1_1File.html">pism::File</a></div><div class="ttdoc">High-level PISM I/O class.</div><div class="ttdef"><b>Definition:</b> <a href="File_8hh_source.html#l00055">File.hh:56</a></div></div>
<div class="ttc" id="aclasspism_1_1LocalInterpCtx_html"><div class="ttname"><a href="classpism_1_1LocalInterpCtx.html">pism::LocalInterpCtx</a></div><div class="ttdef"><b>Definition:</b> <a href="LocalInterpCtx_8hh_source.html#l00054">LocalInterpCtx.hh:54</a></div></div>
<div class="ttc" id="aclasspism_1_1ParallelSection_a6b0a6e5e64970af7eadabfebe2b20bd2_html_a6b0a6e5e64970af7eadabfebe2b20bd2"><div class="ttname"><a href="classpism_1_1ParallelSection_a6b0a6e5e64970af7eadabfebe2b20bd2.html#a6b0a6e5e64970af7eadabfebe2b20bd2">pism::ParallelSection::failed</a></div><div class="ttdeci">void failed()</div><div class="ttdoc">Indicates a failure of a parallel section.</div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8cc_source.html#l00185">error_handling.cc:185</a></div></div>
<div class="ttc" id="aclasspism_1_1ParallelSection_ac23296abee1cbcb3c3fd68c7f5ce0835_html_ac23296abee1cbcb3c3fd68c7f5ce0835"><div class="ttname"><a href="classpism_1_1ParallelSection_ac23296abee1cbcb3c3fd68c7f5ce0835.html#ac23296abee1cbcb3c3fd68c7f5ce0835">pism::ParallelSection::check</a></div><div class="ttdeci">void check()</div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8cc_source.html#l00201">error_handling.cc:201</a></div></div>
<div class="ttc" id="aclasspism_1_1ParallelSection_html"><div class="ttname"><a href="classpism_1_1ParallelSection.html">pism::ParallelSection</a></div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8hh_source.html#l00069">error_handling.hh:69</a></div></div>
<div class="ttc" id="aclasspism_1_1RuntimeError_ad0ed5f05a9a4e3e403a1d62f8d1e4e7d_html_ad0ed5f05a9a4e3e403a1d62f8d1e4e7d"><div class="ttname"><a href="classpism_1_1RuntimeError_ad0ed5f05a9a4e3e403a1d62f8d1e4e7d.html#ad0ed5f05a9a4e3e403a1d62f8d1e4e7d">pism::RuntimeError::formatted</a></div><div class="ttdeci">static RuntimeError formatted(const ErrorLocation &location, const char format[],...) __attribute__((format(printf</div><div class="ttdoc">build a RuntimeError with a formatted message</div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8cc_source.html#l00047">error_handling.cc:47</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1AccessScope_html"><div class="ttname"><a href="classpism_1_1array_1_1AccessScope.html">pism::array::AccessScope</a></div><div class="ttdoc">Makes sure that we call begin_access() and end_access() for all accessed array::Arrays.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00065">Array.hh:65</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_a0ea8b6700f5aab01e913dcbad9de72a5_html_a0ea8b6700f5aab01e913dcbad9de72a5"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_a0ea8b6700f5aab01e913dcbad9de72a5.html#a0ea8b6700f5aab01e913dcbad9de72a5">pism::array::Array3D::copy_from</a></div><div class="ttdeci">void copy_from(const Array3D &input)</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00208">Array3D.cc:208</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb_html_a4baf48fbb0f675a23093d4d4cc1ab6cb"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_a4baf48fbb0f675a23093d4d4cc1ab6cb.html#a4baf48fbb0f675a23093d4d4cc1ab6cb">pism::array::Array3D::interpolate</a></div><div class="ttdeci">double interpolate(int i, int j, double z) const</div><div class="ttdoc">Return value of scalar quantity at level z (m) above base of ice (by linear interpolation).</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00088">Array3D.cc:88</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_a57f6842686575847d4662ebe9a69bca6_html_a57f6842686575847d4662ebe9a69bca6"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_a57f6842686575847d4662ebe9a69bca6.html#a57f6842686575847d4662ebe9a69bca6">pism::array::Array3D::set_column</a></div><div class="ttdeci">void set_column(int i, int j, double c)</div><div class="ttdoc">Set all values of scalar quantity to given a single value in a particular column.</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00049">Array3D.cc:49</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_a8990db065ae76f3c6434fa58fae33d17_html_a8990db065ae76f3c6434fa58fae33d17"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_a8990db065ae76f3c6434fa58fae33d17.html#a8990db065ae76f3c6434fa58fae33d17">pism::array::Array3D::regrid_impl</a></div><div class="ttdeci">void regrid_impl(const File &file, io::Default default_value)</div><div class="ttdoc">Gets an Array from a file file, interpolating onto the current grid.</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00250">Array3D.cc:250</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_aa6c8dbf58dff709e5bbbefb7f9e56e30_html_aa6c8dbf58dff709e5bbbefb7f9e56e30"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_aa6c8dbf58dff709e5bbbefb7f9e56e30.html#aa6c8dbf58dff709e5bbbefb7f9e56e30">pism::array::Array3D::Array3D</a></div><div class="ttdeci">Array3D(std::shared_ptr< const Grid > grid, const std::string &name, Kind ghostedp, const std::vector< double > &levels, unsigned int stencil_width=1)</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00042">Array3D.cc:42</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_ab2d5de7b9ceac2f86db1288b02bf6572_html_ab2d5de7b9ceac2f86db1288b02bf6572"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_ab2d5de7b9ceac2f86db1288b02bf6572.html#ab2d5de7b9ceac2f86db1288b02bf6572">pism::array::Array3D::duplicate</a></div><div class="ttdeci">std::shared_ptr< Array3D > duplicate(Kind ghostedp=WITHOUT_GHOSTS) const</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00240">Array3D.cc:240</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791_html_ac74ddc5a845ca13d159983b9e7b20791"><div class="ttname"><a href="classpism_1_1array_1_1Array3D_ac74ddc5a845ca13d159983b9e7b20791.html#ac74ddc5a845ca13d159983b9e7b20791">pism::array::Array3D::get_column</a></div><div class="ttdeci">double * get_column(int i, int j)</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00120">Array3D.cc:120</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array3D_html"><div class="ttname"><a href="classpism_1_1array_1_1Array3D.html">pism::array::Array3D</a></div><div class="ttdoc">A virtual class collecting methods common to ice and bedrock 3D fields.</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8hh_source.html#l00033">Array3D.hh:33</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5_html_a1fa9d92d2183dd048612690d41cfcde5"><div class="ttname"><a href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">pism::array::Array::m_impl</a></div><div class="ttdeci">Impl * m_impl</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00274">Array.hh:273</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e_html_a22abc0084c8d344d0fb1faebb8b4319e"><div class="ttname"><a href="classpism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e.html#a22abc0084c8d344d0fb1faebb8b4319e">pism::array::Array::ndof</a></div><div class="ttdeci">unsigned int ndof() const</div><div class="ttdoc">Returns the number of degrees of freedom per grid point.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00136">Array.cc:136</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a_html_a471583941d54506f80b014efaa14073a"><div class="ttname"><a href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">pism::array::Array::levels</a></div><div class="ttdeci">const std::vector< double > & levels() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00140">Array.cc:140</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5_html_a47a8eb9b88993e033cce116e499b2ff5"><div class="ttname"><a href="classpism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5.html#a47a8eb9b88993e033cce116e499b2ff5">pism::array::Array::size</a></div><div class="ttdeci">size_t size() const</div><div class="ttdoc">Return the total number of elements in the owned part of an array.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00946">Array.cc:946</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f_html_a4bc8801a2c4ff3fb139baa69ab2dab7f"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">pism::array::Array::m_array</a></div><div class="ttdeci">void * m_array</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00278">Array.hh:278</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a4fe13d85d5fd0747c00837aaee32651b_html_a4fe13d85d5fd0747c00837aaee32651b"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4fe13d85d5fd0747c00837aaee32651b.html#a4fe13d85d5fd0747c00837aaee32651b">pism::array::Array::get_name</a></div><div class="ttdeci">const std::string & get_name() const</div><div class="ttdoc">Get the name of an Array object.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00383">Array.cc:383</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a5da8e0cb6f7c1e6e2ac6efdc841fb80d_html_a5da8e0cb6f7c1e6e2ac6efdc841fb80d"><div class="ttname"><a href="classpism_1_1array_1_1Array_a5da8e0cb6f7c1e6e2ac6efdc841fb80d.html#a5da8e0cb6f7c1e6e2ac6efdc841fb80d">pism::array::Array::vec</a></div><div class="ttdeci">petsc::Vec & vec() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00339">Array.cc:339</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577_html_a982fca110a5d7011f681b928b20e3577"><div class="ttname"><a href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">pism::array::Array::grid</a></div><div class="ttdeci">std::shared_ptr< const Grid > grid() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00132">Array.cc:132</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_aa3b5158e40a9807c547ce7ba7a223b98_html_aa3b5158e40a9807c547ce7ba7a223b98"><div class="ttname"><a href="classpism_1_1array_1_1Array_aa3b5158e40a9807c547ce7ba7a223b98.html#aa3b5158e40a9807c547ce7ba7a223b98">pism::array::Array::inc_state_counter</a></div><div class="ttdeci">void inc_state_counter()</div><div class="ttdoc">Increment the object state counter.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00151">Array.cc:151</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_aa3fb4d0b08e98efb43662be6db1fe2ef_html_aa3fb4d0b08e98efb43662be6db1fe2ef"><div class="ttname"><a href="classpism_1_1array_1_1Array_aa3fb4d0b08e98efb43662be6db1fe2ef.html#aa3fb4d0b08e98efb43662be6db1fe2ef">pism::array::Array::dm</a></div><div class="ttdeci">std::shared_ptr< petsc::DM > dm() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00353">Array.cc:353</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_acdf6a6df6f0b82ee5bf8de3472c36835_html_acdf6a6df6f0b82ee5bf8de3472c36835"><div class="ttname"><a href="classpism_1_1array_1_1Array_acdf6a6df6f0b82ee5bf8de3472c36835.html#acdf6a6df6f0b82ee5bf8de3472c36835">pism::array::Array::set_begin_access_use_dof</a></div><div class="ttdeci">void set_begin_access_use_dof(bool flag)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00175">Array.cc:175</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ad9defa70b851fd2dfac595cfcbb9d803_html_ad9defa70b851fd2dfac595cfcbb9d803"><div class="ttname"><a href="classpism_1_1array_1_1Array_ad9defa70b851fd2dfac595cfcbb9d803.html#ad9defa70b851fd2dfac595cfcbb9d803">pism::array::Array::update_ghosts</a></div><div class="ttdeci">void update_ghosts()</div><div class="ttdoc">Updates ghost points.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00693">Array.cc:693</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f_html_af325585b37b5cd326ca52d6ef2e65e9f"><div class="ttname"><a href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">pism::array::Array::check_array_indices</a></div><div class="ttdeci">void check_array_indices(int i, int j, unsigned int k) const</div><div class="ttdoc">Check array indices and warn if they are out of range.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00714">Array.cc:714</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4_html_af9eece42153cd03bfc8ba237ae5310c4"><div class="ttname"><a href="classpism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4.html#af9eece42153cd03bfc8ba237ae5310c4">pism::array::Array::metadata</a></div><div class="ttdeci">SpatialVariableMetadata & metadata(unsigned int N=0)</div><div class="ttdoc">Returns a reference to the SpatialVariableMetadata object containing metadata for the compoment N.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00553">Array.cc:553</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_html"><div class="ttname"><a href="classpism_1_1array_1_1Array.html">pism::array::Array</a></div><div class="ttdoc">Abstract class for reading, writing, allocating, and accessing a DA-based PETSc Vec (2D and 3D fields...</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00208">Array.hh:208</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Scalar_html"><div class="ttname"><a href="classpism_1_1array_1_1Scalar.html">pism::array::Scalar</a></div><div class="ttdef"><b>Definition:</b> <a href="Scalar_8hh_source.html#l00031">Scalar.hh:31</a></div></div>
<div class="ttc" id="aclasspism_1_1grid_1_1InputGridInfo_af7ffeece246313bb65122f384bd4aa38_html_af7ffeece246313bb65122f384bd4aa38"><div class="ttname"><a href="classpism_1_1grid_1_1InputGridInfo_af7ffeece246313bb65122f384bd4aa38.html#af7ffeece246313bb65122f384bd4aa38">pism::grid::InputGridInfo::report</a></div><div class="ttdeci">void report(const Logger &log, int threshold, std::shared_ptr< units::System > s) const</div><div class="ttdef"><b>Definition:</b> <a href="Grid_8cc_source.html#l01025">Grid.cc:1025</a></div></div>
<div class="ttc" id="aclasspism_1_1grid_1_1InputGridInfo_html"><div class="ttname"><a href="classpism_1_1grid_1_1InputGridInfo.html">pism::grid::InputGridInfo</a></div><div class="ttdoc">Contains parameters of an input file grid.</div><div class="ttdef"><b>Definition:</b> <a href="Grid_8hh_source.html#l00065">Grid.hh:65</a></div></div>
<div class="ttc" id="aclasspism_1_1io_1_1Default_html"><div class="ttname"><a href="classpism_1_1io_1_1Default.html">pism::io::Default</a></div><div class="ttdef"><b>Definition:</b> <a href="IO__Flags_8hh_source.html#l00091">IO_Flags.hh:91</a></div></div>
<div class="ttc" id="aclasspism_1_1petsc_1_1TemporaryGlobalVec_html"><div class="ttname"><a href="classpism_1_1petsc_1_1TemporaryGlobalVec.html">pism::petsc::TemporaryGlobalVec</a></div><div class="ttdef"><b>Definition:</b> <a href="Vec_8hh_source.html#l00092">Vec.hh:92</a></div></div>
<div class="ttc" id="aclasspism_1_1petsc_1_1VecArray_aaa06564a211921bb10f02b52f8b956cf_html_aaa06564a211921bb10f02b52f8b956cf"><div class="ttname"><a href="classpism_1_1petsc_1_1VecArray_aaa06564a211921bb10f02b52f8b956cf.html#aaa06564a211921bb10f02b52f8b956cf">pism::petsc::VecArray::get</a></div><div class="ttdeci">double * get()</div><div class="ttdef"><b>Definition:</b> <a href="Vec_8cc_source.html#l00054">Vec.cc:54</a></div></div>
<div class="ttc" id="aclasspism_1_1petsc_1_1VecArray_html"><div class="ttname"><a href="classpism_1_1petsc_1_1VecArray.html">pism::petsc::VecArray</a></div><div class="ttdoc">Wrapper around VecGetArray and VecRestoreArray.</div><div class="ttdef"><b>Definition:</b> <a href="Vec_8hh_source.html#l00044">Vec.hh:44</a></div></div>
<div class="ttc" id="aerror__handling_8hh_a970ec877c0e54c6e16c039bfa1b88bad_html_a970ec877c0e54c6e16c039bfa1b88bad"><div class="ttname"><a href="error__handling_8hh_a970ec877c0e54c6e16c039bfa1b88bad.html#a970ec877c0e54c6e16c039bfa1b88bad">PISM_CHK</a></div><div class="ttdeci">#define PISM_CHK(errcode, name)</div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8hh_source.html#l00090">error_handling.hh:90</a></div></div>
<div class="ttc" id="aerror__handling_8hh_aa0c260bffe8a4dbd77d48e8feee7c526_html_aa0c260bffe8a4dbd77d48e8feee7c526"><div class="ttname"><a href="error__handling_8hh_aa0c260bffe8a4dbd77d48e8feee7c526.html#aa0c260bffe8a4dbd77d48e8feee7c526">PISM_ERROR_LOCATION</a></div><div class="ttdeci">#define PISM_ERROR_LOCATION</div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8hh_source.html#l00043">error_handling.hh:43</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_a0ce70fa345951f83ae207a765c5273e4_html_a0ce70fa345951f83ae207a765c5273e4"><div class="ttname"><a href="namespacepism_1_1array_a0ce70fa345951f83ae207a765c5273e4.html#a0ce70fa345951f83ae207a765c5273e4">pism::array::extract_surface</a></div><div class="ttdeci">void extract_surface(const Array3D &data, double z, Scalar &output)</div><div class="ttdoc">Copies a horizontal slice at level z of an Array3D into output.</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00135">Array3D.cc:135</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_a1b1be958c985d6b95f0f529d90bc87d7_html_a1b1be958c985d6b95f0f529d90bc87d7"><div class="ttname"><a href="namespacepism_1_1array_a1b1be958c985d6b95f0f529d90bc87d7.html#a1b1be958c985d6b95f0f529d90bc87d7">pism::array::sum_columns</a></div><div class="ttdeci">void sum_columns(const Array3D &data, double A, double B, Scalar &output)</div><div class="ttdef"><b>Definition:</b> <a href="Array3D_8cc_source.html#l00190">Array3D.cc:190</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_a6340d8382fff157e7b54699b1bd35882_html_a6340d8382fff157e7b54699b1bd35882"><div class="ttname"><a href="namespacepism_1_1array_a6340d8382fff157e7b54699b1bd35882.html#a6340d8382fff157e7b54699b1bd35882">pism::array::set_default_value_or_stop</a></div><div class="ttdeci">void set_default_value_or_stop(const std::string &filename, const VariableMetadata &variable, io::Default default_value, const Logger &log, Vec output)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00387">Array.cc:387</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_a79ae8188b20d8242ce8326fc22d8699b_html_a79ae8188b20d8242ce8326fc22d8699b"><div class="ttname"><a href="namespacepism_1_1array_a79ae8188b20d8242ce8326fc22d8699b.html#a79ae8188b20d8242ce8326fc22d8699b">pism::array::global_to_local</a></div><div class="ttdeci">void global_to_local(petsc::DM &dm, Vec source, Vec destination)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00049">Array.cc:49</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_a8957d08741c6f48d1e554ac7ea98530a_html_a8957d08741c6f48d1e554ac7ea98530a"><div class="ttname"><a href="namespacepism_1_1array_a8957d08741c6f48d1e554ac7ea98530a.html#a8957d08741c6f48d1e554ac7ea98530a">pism::array::max</a></div><div class="ttdeci">double max(const array::Scalar &input)</div><div class="ttdoc">Finds maximum over all the values in an array::Scalar object. Ignores ghosts.</div><div class="ttdef"><b>Definition:</b> <a href="Scalar_8cc_source.html#l00165">Scalar.cc:165</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3_html_ab49b8ee9a79e7f46ec91fc40efdb7ca3"><div class="ttname"><a href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3">pism::array::Kind</a></div><div class="ttdeci">Kind</div><div class="ttdoc">What "kind" of a vector to create: with or without ghosts.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00062">Array.hh:62</a></div></div>
<div class="ttc" id="anamespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364_html_ae2f57ac21774f132ef388b3de9cde364"><div class="ttname"><a href="namespacepism_1_1fem_ae2f57ac21774f132ef388b3de9cde364.html#ae2f57ac21774f132ef388b3de9cde364">pism::fem::column</a></div><div class="ttdeci">static Vector3 column(const double A[3][3], size_t k)</div><div class="ttdef"><b>Definition:</b> <a href="Element_8cc_source.html#l00051">Element.cc:51</a></div></div>
<div class="ttc" id="anamespacepism_1_1io_a0e1b36b1c8f0c67cae5535fd40850bbc_html_a0e1b36b1c8f0c67cae5535fd40850bbc"><div class="ttname"><a href="namespacepism_1_1io_a0e1b36b1c8f0c67cae5535fd40850bbc.html#a0e1b36b1c8f0c67cae5535fd40850bbc">pism::io::regrid_spatial_variable</a></div><div class="ttdeci">void regrid_spatial_variable(SpatialVariableMetadata &variable, const Grid &internal_grid, const LocalInterpCtx &lic, const File &file, double *output)</div><div class="ttdoc">Regrid from a NetCDF file into a distributed array output.</div><div class="ttdef"><b>Definition:</b> <a href="io__helpers_8cc_source.html#l00793">io_helpers.cc:793</a></div></div>
<div class="ttc" id="anamespacepism_1_1io_a68030f868b9f8a08c80c96fcf3b09f5b_html_a68030f868b9f8a08c80c96fcf3b09f5b"><div class="ttname"><a href="namespacepism_1_1io_a68030f868b9f8a08c80c96fcf3b09f5b.html#a68030f868b9f8a08c80c96fcf3b09f5b">pism::io::check_input_grid</a></div><div class="ttdeci">void check_input_grid(const grid::InputGridInfo &input_grid, const Grid &internal_grid, const std::vector< double > &internal_z_levels)</div><div class="ttdoc">Check that x, y, and z coordinates of the input grid are strictly increasing.</div><div class="ttdef"><b>Definition:</b> <a href="io__helpers_8cc_source.html#l00757">io_helpers.cc:757</a></div></div>
<div class="ttc" id="anamespacepism_a7343afff8d353b59dbdec563bd896812_html_a7343afff8d353b59dbdec563bd896812"><div class="ttname"><a href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">pism::k</a></div><div class="ttdeci">static const double k</div><div class="ttdef"><b>Definition:</b> <a href="exactTestP_8cc_source.html#l00042">exactTestP.cc:42</a></div></div>
<div class="ttc" id="anamespacepism_html"><div class="ttname"><a href="namespacepism.html">pism</a></div><div class="ttdef"><b>Definition:</b> <a href="AgeColumnSystem_8cc_source.html#l00023">AgeColumnSystem.cc:23</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_a168f31ddc8404eb3ddb3a38a55aee3b7_html_a168f31ddc8404eb3ddb3a38a55aee3b7"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_a168f31ddc8404eb3ddb3a38a55aee3b7.html#a168f31ddc8404eb3ddb3a38a55aee3b7">pism::array::Array::Impl::ghosted</a></div><div class="ttdeci">bool ghosted</div><div class="ttdoc">true if this Array is ghosted</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00086">Array_impl.hh:86</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_a295d8d59d99979427598a947439a2949_html_a295d8d59d99979427598a947439a2949"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_a295d8d59d99979427598a947439a2949.html#a295d8d59d99979427598a947439a2949">pism::array::Array::Impl::grid</a></div><div class="ttdeci">std::shared_ptr< const Grid > grid</div><div class="ttdoc">The computational grid.</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00077">Array_impl.hh:77</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_a3e0a8f5b2176e8aaa858ef6e169c5507_html_a3e0a8f5b2176e8aaa858ef6e169c5507"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_a3e0a8f5b2176e8aaa858ef6e169c5507.html#a3e0a8f5b2176e8aaa858ef6e169c5507">pism::array::Array::Impl::interpolation_type</a></div><div class="ttdeci">InterpolationType interpolation_type</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00105">Array_impl.hh:105</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_a90edba9f54e9a08982973dd017941662_html_a90edba9f54e9a08982973dd017941662"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_a90edba9f54e9a08982973dd017941662.html#a90edba9f54e9a08982973dd017941662">pism::array::Array::Impl::bsearch_accel</a></div><div class="ttdeci">gsl_interp_accel * bsearch_accel</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00111">Array_impl.hh:111</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_ad071bf93059f137225d182dfdd6a7e2f_html_ad071bf93059f137225d182dfdd6a7e2f"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_ad071bf93059f137225d182dfdd6a7e2f.html#ad071bf93059f137225d182dfdd6a7e2f">pism::array::Array::Impl::name</a></div><div class="ttdeci">std::string name</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00071">Array_impl.hh:71</a></div></div>
<div class="ttc" id="astructpism_1_1array_1_1Array_1_1Impl_aec81354aaf53e5608f89116c340263da_html_aec81354aaf53e5608f89116c340263da"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl_aec81354aaf53e5608f89116c340263da.html#aec81354aaf53e5608f89116c340263da">pism::array::Array::Impl::zlevels</a></div><div class="ttdeci">std::vector< double > zlevels</div><div class="ttdoc">Vertical levels (for 3D fields)</div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00108">Array_impl.hh:108</a></div></div>
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