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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="Array_8hh.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--2023 Ed Bueler, Constantine Khroulev, and David Maxwell</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">#ifndef PISM_ARRAY_H</span></div>
<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="preprocessor">#define PISM_ARRAY_H</span></div>
<div class="line"><a name="l00021"></a><span class="lineno"> 21</span>  </div>
<div class="line"><a name="l00022"></a><span class="lineno"> 22</span> <span class="preprocessor">#include <initializer_list></span></div>
<div class="line"><a name="l00023"></a><span class="lineno"> 23</span> <span class="preprocessor">#include <memory></span> <span class="comment">// shared_ptr, dynamic_pointer_cast</span></div>
<div class="line"><a name="l00024"></a><span class="lineno"> 24</span> <span class="preprocessor">#include <cstdint></span> <span class="comment">// uint64_t</span></div>
<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> <span class="preprocessor">#include <array></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/error_handling.hh"</span> <span class="comment">// RuntimeError</span></div>
<div class="line"><a name="l00028"></a><span class="lineno"> 28</span>  </div>
<div class="line"><a name="l00029"></a><span class="lineno"> 29</span> <span class="keyword">namespace </span><a class="code" href="namespacepism.html">pism</a> {</div>
<div class="line"><a name="l00030"></a><span class="lineno"> 30</span>  </div>
<div class="line"><a name="l00031"></a><span class="lineno"> 31</span> <span class="keyword">enum</span> <a class="code" href="namespacepism_a3415cf6a7a4530c4e489feebe6365e03.html#a3415cf6a7a4530c4e489feebe6365e03">InterpolationType</a> : int;</div>
<div class="line"><a name="l00032"></a><span class="lineno"> 32</span>  </div>
<div class="line"><a name="l00033"></a><span class="lineno"><a class="line" href="namespacepism_1_1io.html"> 33</a></span> <span class="keyword">namespace </span>io {</div>
<div class="line"><a name="l00034"></a><span class="lineno"> 34</span> <span class="keyword">enum</span> <a class="code" href="namespacepism_1_1io_a53ffb40793c398e10644fbd2ecda3e77.html#a53ffb40793c398e10644fbd2ecda3e77">Type</a> : int;</div>
<div class="line"><a name="l00035"></a><span class="lineno"> 35</span> <span class="keyword">class </span><a class="code" href="classpism_1_1io_1_1Default.html">Default</a>;</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>  </div>
<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="keyword">class </span><a class="code" href="classpism_1_1Grid.html">Grid</a>;</div>
<div class="line"><a name="l00039"></a><span class="lineno"> 39</span> <span class="keyword">class </span><a class="code" href="classpism_1_1File.html">File</a>;</div>
<div class="line"><a name="l00040"></a><span class="lineno"> 40</span> <span class="keyword">class </span><a class="code" href="classpism_1_1SpatialVariableMetadata.html">SpatialVariableMetadata</a>;</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="namespacepism_1_1petsc.html"> 42</a></span> <span class="keyword">namespace </span>petsc {</div>
<div class="line"><a name="l00043"></a><span class="lineno"> 43</span> <span class="keyword">class </span><a class="code" href="classpism_1_1petsc_1_1DM.html">DM</a>;</div>
<div class="line"><a name="l00044"></a><span class="lineno"> 44</span> <span class="keyword">class </span><a class="code" href="classpism_1_1petsc_1_1Vec.html">Vec</a>;</div>
<div class="line"><a name="l00045"></a><span class="lineno"> 45</span> <span class="keyword">class </span><a class="code" href="classpism_1_1petsc_1_1Viewer.html">Viewer</a>;</div>
<div class="line"><a name="l00046"></a><span class="lineno"> 46</span> } <span class="comment">// end of namespace petsc</span></div>
<div class="line"><a name="l00047"></a><span class="lineno"> 47</span>  </div>
<div class="line"><a name="l00048"></a><span class="lineno"><a class="line" href="namespacepism_1_1units.html"> 48</a></span> <span class="keyword">namespace </span>units {</div>
<div class="line"><a name="l00049"></a><span class="lineno"> 49</span> <span class="keyword">class </span><a class="code" href="classpism_1_1units_1_1System.html">System</a>;</div>
<div class="line"><a name="l00050"></a><span class="lineno"> 50</span> }</div>
<div class="line"><a name="l00051"></a><span class="lineno"> 51</span>  </div>
<div class="line"><a name="l00052"></a><span class="lineno"><a class="line" href="classpism_1_1PetscAccessible.html"> 52</a></span> <span class="keyword">class </span><a class="code" href="classpism_1_1PetscAccessible.html">PetscAccessible</a> {</div>
<div class="line"><a name="l00053"></a><span class="lineno"> 53</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00054"></a><span class="lineno"><a class="line" href="classpism_1_1PetscAccessible_a2a5ee8392bf3bfd7e1d5f8aa76f49f45.html#a2a5ee8392bf3bfd7e1d5f8aa76f49f45"> 54</a></span>  <span class="keyword">virtual</span> <a class="code" href="classpism_1_1PetscAccessible_a2a5ee8392bf3bfd7e1d5f8aa76f49f45.html#a2a5ee8392bf3bfd7e1d5f8aa76f49f45">~PetscAccessible</a>() = <span class="keywordflow">default</span>;</div>
<div class="line"><a name="l00055"></a><span class="lineno"><a class="line" href="classpism_1_1PetscAccessible_a3479683e4a350e10ae36242daf3ca011.html#a3479683e4a350e10ae36242daf3ca011"> 55</a></span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1PetscAccessible_a3479683e4a350e10ae36242daf3ca011.html#a3479683e4a350e10ae36242daf3ca011">begin_access</a>() <span class="keyword">const</span> = 0;</div>
<div class="line"><a name="l00056"></a><span class="lineno"><a class="line" href="classpism_1_1PetscAccessible_a7f0f57337f18a79b121cc108aa5ec37c.html#a7f0f57337f18a79b121cc108aa5ec37c"> 56</a></span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1PetscAccessible_a7f0f57337f18a79b121cc108aa5ec37c.html#a7f0f57337f18a79b121cc108aa5ec37c">end_access</a>() <span class="keyword">const</span> = 0;</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>  </div>
<div class="line"><a name="l00059"></a><span class="lineno"> 59</span> <span class="keyword">namespace </span>array {</div>
<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> <span class="comment"></span> </div>
<div class="line"><a name="l00061"></a><span class="lineno"> 61</span> <span class="comment">//! What "kind" of a vector to create: with or without ghosts.</span></div>
<div class="line"><a name="l00062"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3"> 62</a></span> <span class="comment"></span><span class="keyword">enum</span> <a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3">Kind</a> {<a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3af672399d2e1a4112ca5d4a4591c30885">WITHOUT_GHOSTS</a>=0, <a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3a7aa2276678f0b2cd3f63c15be430372f">WITH_GHOSTS</a>=1};</div>
<div class="line"><a name="l00063"></a><span class="lineno"> 63</span> <span class="comment"></span> </div>
<div class="line"><a name="l00064"></a><span class="lineno"> 64</span> <span class="comment">//! Makes sure that we call begin_access() and end_access() for all accessed array::Arrays.</span></div>
<div class="line"><a name="l00065"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1AccessScope.html"> 65</a></span> <span class="comment"></span><span class="keyword">class </span><a class="code" href="classpism_1_1array_1_1AccessScope.html">AccessScope</a> {</div>
<div class="line"><a name="l00066"></a><span class="lineno"> 66</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00067"></a><span class="lineno"> 67</span>  <a class="code" href="classpism_1_1array_1_1AccessScope_ae18bd835e0b5ee2b4f83d0a7e4f330a1.html#ae18bd835e0b5ee2b4f83d0a7e4f330a1">AccessScope</a>();</div>
<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  <a class="code" href="classpism_1_1array_1_1AccessScope_ae18bd835e0b5ee2b4f83d0a7e4f330a1.html#ae18bd835e0b5ee2b4f83d0a7e4f330a1">AccessScope</a>(std::initializer_list<const PetscAccessible *> vecs);</div>
<div class="line"><a name="l00069"></a><span class="lineno"> 69</span>  <a class="code" href="classpism_1_1array_1_1AccessScope_ae18bd835e0b5ee2b4f83d0a7e4f330a1.html#ae18bd835e0b5ee2b4f83d0a7e4f330a1">AccessScope</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1PetscAccessible.html">PetscAccessible</a> &v);</div>
<div class="line"><a name="l00070"></a><span class="lineno"> 70</span>  <a class="code" href="classpism_1_1array_1_1AccessScope_a7b645191ff12347a173b1137bad274e2.html#a7b645191ff12347a173b1137bad274e2">~AccessScope</a>();</div>
<div class="line"><a name="l00071"></a><span class="lineno"> 71</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1AccessScope_a46c8cd5c8fb2dee06845dc385f04cc28.html#a46c8cd5c8fb2dee06845dc385f04cc28">add</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1PetscAccessible.html">PetscAccessible</a> &v);</div>
<div class="line"><a name="l00072"></a><span class="lineno"> 72</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1AccessScope_a46c8cd5c8fb2dee06845dc385f04cc28.html#a46c8cd5c8fb2dee06845dc385f04cc28">add</a>(<span class="keyword">const</span> std::vector<const PetscAccessible*> &vecs);</div>
<div class="line"><a name="l00073"></a><span class="lineno"> 73</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00074"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1AccessScope_afe5fd53d93439e9137f82aeb9eee6abe.html#afe5fd53d93439e9137f82aeb9eee6abe"> 74</a></span>  std::vector<const PetscAccessible*> <a class="code" href="classpism_1_1array_1_1AccessScope_afe5fd53d93439e9137f82aeb9eee6abe.html#afe5fd53d93439e9137f82aeb9eee6abe">m_vecs</a>;</div>
<div class="line"><a name="l00075"></a><span class="lineno"> 75</span> };</div>
<div class="line"><a name="l00076"></a><span class="lineno"> 76</span> <span class="comment"></span> </div>
<div class="line"><a name="l00077"></a><span class="lineno"> 77</span> <span class="comment">/*!</span></div>
<div class="line"><a name="l00078"></a><span class="lineno"> 78</span> <span class="comment"> * Interpolation helper. Does not check if points needed for interpolation are within the current</span></div>
<div class="line"><a name="l00079"></a><span class="lineno"> 79</span> <span class="comment"> * processor's sub-domain.</span></div>
<div class="line"><a name="l00080"></a><span class="lineno"> 80</span> <span class="comment"> */</span></div>
<div class="line"><a name="l00081"></a><span class="lineno"> 81</span> <span class="keyword">template</span><<span class="keyword">class</span> F, <span class="keyword">typename</span> T></div>
<div class="line"><a name="l00082"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_acc78626832aa1c59a74bd4cd7cc5519c.html#acc78626832aa1c59a74bd4cd7cc5519c"> 82</a></span> T <a class="code" href="namespacepism_1_1array_acc78626832aa1c59a74bd4cd7cc5519c.html#acc78626832aa1c59a74bd4cd7cc5519c">interpolate</a>(<span class="keyword">const</span> <a class="code" href="namespacepism_a200b1c89a64c718f6b0f585508e55172.html#a200b1c89a64c718f6b0f585508e55172">F</a> &field, <span class="keywordtype">double</span> x, <span class="keywordtype">double</span> y) {</div>
<div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  <span class="keyword">auto</span> grid = field.grid();</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="keywordtype">int</span> i_left = 0, i_right = 0, j_bottom = 0, j_top = 0;</div>
<div class="line"><a name="l00086"></a><span class="lineno"> 86</span>  grid->compute_point_neighbors(x, y, i_left, i_right, j_bottom, j_top);</div>
<div class="line"><a name="l00087"></a><span class="lineno"> 87</span>  </div>
<div class="line"><a name="l00088"></a><span class="lineno"> 88</span>  <span class="keyword">auto</span> w = grid->compute_interp_weights(x, y);</div>
<div class="line"><a name="l00089"></a><span class="lineno"> 89</span>  </div>
<div class="line"><a name="l00090"></a><span class="lineno"> 90</span>  <span class="keywordflow">return</span> (w[0] * field(i_left, j_bottom) +</div>
<div class="line"><a name="l00091"></a><span class="lineno"> 91</span>  w[1] * field(i_right, j_bottom) +</div>
<div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  w[2] * field(i_right, j_top) +</div>
<div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  w[3] * field(i_left, j_top));</div>
<div class="line"><a name="l00094"></a><span class="lineno"> 94</span> }</div>
<div class="line"><a name="l00095"></a><span class="lineno"> 95</span> <span class="comment"></span> </div>
<div class="line"><a name="l00096"></a><span class="lineno"> 96</span> <span class="comment">//! \brief Abstract class for reading, writing, allocating, and accessing a</span></div>
<div class="line"><a name="l00097"></a><span class="lineno"> 97</span> <span class="comment">//! DA-based PETSc Vec (2D and 3D fields) from within IceModel.</span></div>
<div class="line"><a name="l00098"></a><span class="lineno"> 98</span> <span class="comment"></span><span class="comment">/*!</span></div>
<div class="line"><a name="l00099"></a><span class="lineno"> 99</span> <span class="comment"> @anchor icemodelvec_use</span></div>
<div class="line"><a name="l00100"></a><span class="lineno"> 100</span> <span class="comment"></span> </div>
<div class="line"><a name="l00101"></a><span class="lineno"> 101</span> <span class="comment"> This class represents 2D and 3D fields in PISM. Its methods common to all</span></div>
<div class="line"><a name="l00102"></a><span class="lineno"> 102</span> <span class="comment"> the derived classes can be split (roughly) into six kinds:</span></div>
<div class="line"><a name="l00103"></a><span class="lineno"> 103</span> <span class="comment"></span> </div>
<div class="line"><a name="l00104"></a><span class="lineno"> 104</span> <span class="comment"> - memory allocation (create)</span></div>
<div class="line"><a name="l00105"></a><span class="lineno"> 105</span> <span class="comment"> - point-wise access (begin_access(), end_access())</span></div>
<div class="line"><a name="l00106"></a><span class="lineno"> 106</span> <span class="comment"> - arithmetic (range(), norm(), add(), shift(), scale(), set(), ...)</span></div>
<div class="line"><a name="l00107"></a><span class="lineno"> 107</span> <span class="comment"> - setting or reading metadata (set_attrs(), metadata())</span></div>
<div class="line"><a name="l00108"></a><span class="lineno"> 108</span> <span class="comment"> - file input/output (read, write, regrid)</span></div>
<div class="line"><a name="l00109"></a><span class="lineno"> 109</span> <span class="comment"> - tracking whether a field was updated (get_state_counter(), inc_state_counter())</span></div>
<div class="line"><a name="l00110"></a><span class="lineno"> 110</span> <span class="comment"></span> </div>
<div class="line"><a name="l00111"></a><span class="lineno"> 111</span> <span class="comment"> ## Memory allocation</span></div>
<div class="line"><a name="l00112"></a><span class="lineno"> 112</span> <span class="comment"></span> </div>
<div class="line"><a name="l00113"></a><span class="lineno"> 113</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> <span class="comment"> array::Scalar var(grid, "var_name", WITH_GHOSTS);</span></div>
<div class="line"><a name="l00115"></a><span class="lineno"> 115</span> <span class="comment"> // var is ready to use</span></div>
<div class="line"><a name="l00116"></a><span class="lineno"> 116</span> <span class="comment"> \endcode</span></div>
<div class="line"><a name="l00117"></a><span class="lineno"> 117</span> <span class="comment"></span> </div>
<div class="line"><a name="l00118"></a><span class="lineno"> 118</span> <span class="comment"> ("WITH_GHOSTS" means "can be used in computations using map-plane neighbors</span></div>
<div class="line"><a name="l00119"></a><span class="lineno"> 119</span> <span class="comment"> of grid points.)</span></div>
<div class="line"><a name="l00120"></a><span class="lineno"> 120</span> <span class="comment"></span> </div>
<div class="line"><a name="l00121"></a><span class="lineno"> 121</span> <span class="comment"> It is usually a good idea to set variable metadata right after creating it.</span></div>
<div class="line"><a name="l00122"></a><span class="lineno"> 122</span> <span class="comment"> The method set_attrs() is used throughout PISM to set commonly used</span></div>
<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> <span class="comment"> attributes.</span></div>
<div class="line"><a name="l00124"></a><span class="lineno"> 124</span> <span class="comment"></span> </div>
<div class="line"><a name="l00125"></a><span class="lineno"> 125</span> <span class="comment"> ## Point-wise access</span></div>
<div class="line"><a name="l00126"></a><span class="lineno"> 126</span> <span class="comment"></span> </div>
<div class="line"><a name="l00127"></a><span class="lineno"> 127</span> <span class="comment"> PETSc performs some pointer arithmetic magic to allow convenient indexing of</span></div>
<div class="line"><a name="l00128"></a><span class="lineno"> 128</span> <span class="comment"> grid point values. Because of this one needs to surround the code using row,</span></div>
<div class="line"><a name="l00129"></a><span class="lineno"> 129</span> <span class="comment"> column or level indexes with begin_access() and end_access() calls:</span></div>
<div class="line"><a name="l00130"></a><span class="lineno"> 130</span> <span class="comment"></span> </div>
<div class="line"><a name="l00131"></a><span class="lineno"> 131</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00132"></a><span class="lineno"> 132</span> <span class="comment"> double foo;</span></div>
<div class="line"><a name="l00133"></a><span class="lineno"> 133</span> <span class="comment"> int i = 0, j = 0;</span></div>
<div class="line"><a name="l00134"></a><span class="lineno"> 134</span> <span class="comment"> array::Scalar var;</span></div>
<div class="line"><a name="l00135"></a><span class="lineno"> 135</span> <span class="comment"> // assume that var was allocated</span></div>
<div class="line"><a name="l00136"></a><span class="lineno"> 136</span> <span class="comment"> ierr = var.begin_access(); CHKERRQ(ierr);</span></div>
<div class="line"><a name="l00137"></a><span class="lineno"> 137</span> <span class="comment"> foo = var(i,j) * 2;</span></div>
<div class="line"><a name="l00138"></a><span class="lineno"> 138</span> <span class="comment"> ierr = var.end_access(); CHKERRQ(ierr);</span></div>
<div class="line"><a name="l00139"></a><span class="lineno"> 139</span> <span class="comment"> \endcode</span></div>
<div class="line"><a name="l00140"></a><span class="lineno"> 140</span> <span class="comment"></span> </div>
<div class="line"><a name="l00141"></a><span class="lineno"> 141</span> <span class="comment"> Please see [this page](@ref computational_grid) for a discussion of the</span></div>
<div class="line"><a name="l00142"></a><span class="lineno"> 142</span> <span class="comment"> organization of PISM's computational grid and examples of for-loops you will</span></div>
<div class="line"><a name="l00143"></a><span class="lineno"> 143</span> <span class="comment"> probably put between begin_access() and end_access().</span></div>
<div class="line"><a name="l00144"></a><span class="lineno"> 144</span> <span class="comment"></span> </div>
<div class="line"><a name="l00145"></a><span class="lineno"> 145</span> <span class="comment"> To ensure that ghost values are up to date add the following call</span></div>
<div class="line"><a name="l00146"></a><span class="lineno"> 146</span> <span class="comment"> before the code using ghosts:</span></div>
<div class="line"><a name="l00147"></a><span class="lineno"> 147</span> <span class="comment"></span> </div>
<div class="line"><a name="l00148"></a><span class="lineno"> 148</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00149"></a><span class="lineno"> 149</span> <span class="comment"> ierr = var.update_ghosts(); CHKERRQ(ierr);</span></div>
<div class="line"><a name="l00150"></a><span class="lineno"> 150</span> <span class="comment"> \endcode</span></div>
<div class="line"><a name="l00151"></a><span class="lineno"> 151</span> <span class="comment"></span> </div>
<div class="line"><a name="l00152"></a><span class="lineno"> 152</span> <span class="comment"> ## Reading and writing variables</span></div>
<div class="line"><a name="l00153"></a><span class="lineno"> 153</span> <span class="comment"></span> </div>
<div class="line"><a name="l00154"></a><span class="lineno"> 154</span> <span class="comment"> PISM can read variables either from files with data on a grid matching the</span></div>
<div class="line"><a name="l00155"></a><span class="lineno"> 155</span> <span class="comment"> current grid (read()) or, using bilinear interpolation, from files</span></div>
<div class="line"><a name="l00156"></a><span class="lineno"> 156</span> <span class="comment"> containing data on a different (but compatible) grid (regrid()).</span></div>
<div class="line"><a name="l00157"></a><span class="lineno"> 157</span> <span class="comment"></span> </div>
<div class="line"><a name="l00158"></a><span class="lineno"> 158</span> <span class="comment"> To write a field to a "prepared" NetCDF file, use write(). (A file is prepared</span></div>
<div class="line"><a name="l00159"></a><span class="lineno"> 159</span> <span class="comment"> if it contains all the necessary dimensions, coordinate variables and global</span></div>
<div class="line"><a name="l00160"></a><span class="lineno"> 160</span> <span class="comment"> metadata.)</span></div>
<div class="line"><a name="l00161"></a><span class="lineno"> 161</span> <span class="comment"></span> </div>
<div class="line"><a name="l00162"></a><span class="lineno"> 162</span> <span class="comment"> If you need to "prepare" a file, do:</span></div>
<div class="line"><a name="l00163"></a><span class="lineno"> 163</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00164"></a><span class="lineno"> 164</span> <span class="comment"> File file(grid.com, PISM_NETCDF3);</span></div>
<div class="line"><a name="l00165"></a><span class="lineno"> 165</span> <span class="comment"> io::prepare_for_output(file, *grid.ctx());</span></div>
<div class="line"><a name="l00166"></a><span class="lineno"> 166</span> <span class="comment"> \endcode</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"> A note about NetCDF write performance: due to limitations of the NetCDF</span></div>
<div class="line"><a name="l00169"></a><span class="lineno"> 169</span> <span class="comment"> (classic, version 3) format, it is significantly faster to</span></div>
<div class="line"><a name="l00170"></a><span class="lineno"> 170</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00171"></a><span class="lineno"> 171</span> <span class="comment"> for (all variables)</span></div>
<div class="line"><a name="l00172"></a><span class="lineno"> 172</span> <span class="comment"> var.define(...);</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"> for (all variables)</span></div>
<div class="line"><a name="l00175"></a><span class="lineno"> 175</span> <span class="comment"> var.write(...);</span></div>
<div class="line"><a name="l00176"></a><span class="lineno"> 176</span> <span class="comment"> \endcode</span></div>
<div class="line"><a name="l00177"></a><span class="lineno"> 177</span> <span class="comment"></span> </div>
<div class="line"><a name="l00178"></a><span class="lineno"> 178</span> <span class="comment"> as opposed to</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"> \code</span></div>
<div class="line"><a name="l00181"></a><span class="lineno"> 181</span> <span class="comment"> for (all variables) {</span></div>
<div class="line"><a name="l00182"></a><span class="lineno"> 182</span> <span class="comment"> var.define(...);</span></div>
<div class="line"><a name="l00183"></a><span class="lineno"> 183</span> <span class="comment"> var.write(...);</span></div>
<div class="line"><a name="l00184"></a><span class="lineno"> 184</span> <span class="comment"> }</span></div>
<div class="line"><a name="l00185"></a><span class="lineno"> 185</span> <span class="comment"> \endcode</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"> array::Array::define() is here so that we can use the first approach.</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"> ## Tracking if a field changed</span></div>
<div class="line"><a name="l00190"></a><span class="lineno"> 190</span> <span class="comment"></span> </div>
<div class="line"><a name="l00191"></a><span class="lineno"> 191</span> <span class="comment"> It is possible to track if a certain field changed with the help of</span></div>
<div class="line"><a name="l00192"></a><span class="lineno"> 192</span> <span class="comment"> get_state_counter() and inc_state_counter() methods.</span></div>
<div class="line"><a name="l00193"></a><span class="lineno"> 193</span> <span class="comment"></span> </div>
<div class="line"><a name="l00194"></a><span class="lineno"> 194</span> <span class="comment"> For example, PISM's SIA code re-computes the smoothed bed only if the bed</span></div>
<div class="line"><a name="l00195"></a><span class="lineno"> 195</span> <span class="comment"> deformation code updated it:</span></div>
<div class="line"><a name="l00196"></a><span class="lineno"> 196</span> <span class="comment"></span> </div>
<div class="line"><a name="l00197"></a><span class="lineno"> 197</span> <span class="comment"> \code</span></div>
<div class="line"><a name="l00198"></a><span class="lineno"> 198</span> <span class="comment"> if (bed->get_state_counter() > bed_state_counter) {</span></div>
<div class="line"><a name="l00199"></a><span class="lineno"> 199</span> <span class="comment"> ierr = bed_smoother->preprocess_bed(...); CHKERRQ(ierr);</span></div>
<div class="line"><a name="l00200"></a><span class="lineno"> 200</span> <span class="comment"> bed_state_counter = bed->get_state_counter();</span></div>
<div class="line"><a name="l00201"></a><span class="lineno"> 201</span> <span class="comment"> }</span></div>
<div class="line"><a name="l00202"></a><span class="lineno"> 202</span> <span class="comment"> \endcode</span></div>
<div class="line"><a name="l00203"></a><span class="lineno"> 203</span> <span class="comment"></span> </div>
<div class="line"><a name="l00204"></a><span class="lineno"> 204</span> <span class="comment"> The state counter is **not** updated automatically. For the code snippet above</span></div>
<div class="line"><a name="l00205"></a><span class="lineno"> 205</span> <span class="comment"> to work, a bed deformation model has to call inc_state_counter() after an</span></div>
<div class="line"><a name="l00206"></a><span class="lineno"> 206</span> <span class="comment"> update.</span></div>
<div class="line"><a name="l00207"></a><span class="lineno"> 207</span> <span class="comment">*/</span></div>
<div class="line"><a name="l00208"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array.html"> 208</a></span> <span class="keyword">class </span><a class="code" href="classpism_1_1array_1_1Array.html">Array</a> : <span class="keyword">public</span> <a class="code" href="classpism_1_1PetscAccessible.html">PetscAccessible</a> {</div>
<div class="line"><a name="l00209"></a><span class="lineno"> 209</span> <span class="keyword">public</span>:</div>
<div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  <span class="keyword">virtual</span> <a class="code" href="classpism_1_1array_1_1Array_a57e576c6c3873ad06edabcd2b30e0f4a.html#a57e576c6c3873ad06edabcd2b30e0f4a">~Array</a>();</div>
<div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  </div>
<div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  std::shared_ptr<const Grid> <a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="classpism_1_1array_1_1Array_aa78dff7e30d312e2d45b939b5237f68e.html#aa78dff7e30d312e2d45b939b5237f68e">ndims</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  std::vector<int> <a class="code" href="classpism_1_1array_1_1Array_a8a4885c56a7e19ea98e4a126dba612af.html#a8a4885c56a7e19ea98e4a126dba612af">shape</a>() <span class="keyword">const</span>;<span class="comment"></span></div>
<div class="line"><a name="l00215"></a><span class="lineno"> 215</span> <span class="comment"> //! @brief Returns the number of degrees of freedom per grid point.</span></div>
<div class="line"><a name="l00216"></a><span class="lineno"> 216</span> <span class="comment"></span> <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="classpism_1_1array_1_1Array_a22abc0084c8d344d0fb1faebb8b4319e.html#a22abc0084c8d344d0fb1faebb8b4319e">ndof</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="classpism_1_1array_1_1Array_ade892a3412dcdc9f21129c2aed50e84d.html#ade892a3412dcdc9f21129c2aed50e84d">stencil_width</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  </div>
<div class="line"><a name="l00219"></a><span class="lineno"> 219</span>  <span class="keyword">const</span> std::vector<double>& <a class="code" href="classpism_1_1array_1_1Array_a471583941d54506f80b014efaa14073a.html#a471583941d54506f80b014efaa14073a">levels</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00220"></a><span class="lineno"> 220</span>  </div>
<div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  std::array<double,2> <a class="code" href="classpism_1_1array_1_1Array_a363541662d9b80d79985fb76df22913b.html#a363541662d9b80d79985fb76df22913b">range</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  std::vector<double> <a class="code" href="classpism_1_1array_1_1Array_ad9b51e2677b0927d2de4eda2b81c3e48.html#ad9b51e2677b0927d2de4eda2b81c3e48">norm</a>(<span class="keywordtype">int</span> <a class="code" href="exactTestM_8c_ad5228cd48403ef9d8b632f5c7c124720.html#ad5228cd48403ef9d8b632f5c7c124720">n</a>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00223"></a><span class="lineno"> 223</span>  </div>
<div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ad11b3ebab1177fd1e6713959389b9de1.html#ad11b3ebab1177fd1e6713959389b9de1">add</a>(<span class="keywordtype">double</span> alpha, <span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array.html">Array</a> &x);</div>
<div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4682225eaaf7a6f647b7f1bf8dafb6e0.html#a4682225eaaf7a6f647b7f1bf8dafb6e0">shift</a>(<span class="keywordtype">double</span> alpha);</div>
<div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a7b700739a7f5845c95fa33375a497901.html#a7b700739a7f5845c95fa33375a497901">scale</a>(<span class="keywordtype">double</span> alpha);</div>
<div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  </div>
<div class="line"><a name="l00228"></a><span class="lineno"> 228</span>  <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a>& <a class="code" href="classpism_1_1array_1_1Array_a5da8e0cb6f7c1e6e2ac6efdc841fb80d.html#a5da8e0cb6f7c1e6e2ac6efdc841fb80d">vec</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  std::shared_ptr<petsc::DM> <a class="code" href="classpism_1_1array_1_1Array_aa3fb4d0b08e98efb43662be6db1fe2ef.html#aa3fb4d0b08e98efb43662be6db1fe2ef">dm</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  </div>
<div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a2ff33ea8873af12a63971854f0a35304.html#a2ff33ea8873af12a63971854f0a35304">set_name</a>(<span class="keyword">const</span> std::string &name);</div>
<div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  <span class="keyword">const</span> std::string& <a class="code" href="classpism_1_1array_1_1Array_a4fe13d85d5fd0747c00837aaee32651b.html#a4fe13d85d5fd0747c00837aaee32651b">get_name</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  </div>
<div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a3e1a5859cef073a95e5e0cc5f1cc0fdb.html#a3e1a5859cef073a95e5e0cc5f1cc0fdb">define</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file, <a class="code" href="namespacepism_1_1io_a53ffb40793c398e10644fbd2ecda3e77.html#a53ffb40793c398e10644fbd2ecda3e77">io::Type</a> default_type) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  </div>
<div class="line"><a name="l00236"></a><span class="lineno"> 236</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a0326efd779d857755513901da9a54992.html#a0326efd779d857755513901da9a54992">read</a>(<span class="keyword">const</span> std::string &filename, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> time);</div>
<div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a0326efd779d857755513901da9a54992.html#a0326efd779d857755513901da9a54992">read</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> time);</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>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4cdaeb827d166a076668d2ab86416793.html#a4cdaeb827d166a076668d2ab86416793">write</a>(<span class="keyword">const</span> std::string &filename) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00240"></a><span class="lineno"> 240</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4cdaeb827d166a076668d2ab86416793.html#a4cdaeb827d166a076668d2ab86416793">write</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file) <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="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_aa7de6be7e8f785321df81d9fd6518a16.html#aa7de6be7e8f785321df81d9fd6518a16">regrid</a>(<span class="keyword">const</span> std::string &filename, <a class="code" href="classpism_1_1io_1_1Default.html">io::Default</a> default_value);</div>
<div class="line"><a name="l00243"></a><span class="lineno"> 243</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_aa7de6be7e8f785321df81d9fd6518a16.html#aa7de6be7e8f785321df81d9fd6518a16">regrid</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="l00244"></a><span class="lineno"> 244</span>  </div>
<div class="line"><a name="l00245"></a><span class="lineno"> 245</span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a3ea8fcc8fd376aff2754a8ad081d0195.html#a3ea8fcc8fd376aff2754a8ad081d0195">begin_access</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a0fa36087e9f96f8af1a50d28fcf0f699.html#a0fa36087e9f96f8af1a50d28fcf0f699">end_access</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ad9defa70b851fd2dfac595cfcbb9d803.html#ad9defa70b851fd2dfac595cfcbb9d803">update_ghosts</a>();</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>  std::shared_ptr<petsc::Vec> <a class="code" href="classpism_1_1array_1_1Array_ab03888a9f5e399025704ae789738bba2.html#ab03888a9f5e399025704ae789738bba2">allocate_proc0_copy</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00250"></a><span class="lineno"> 250</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ab56dc4d6cf0f9660ce580bbf4f3585d9.html#ab56dc4d6cf0f9660ce580bbf4f3585d9">put_on_proc0</a>(<a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &onp0) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4b0a2833f2ca67c37228e037d1821ccf.html#a4b0a2833f2ca67c37228e037d1821ccf">get_from_proc0</a>(<a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &onp0);</div>
<div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  </div>
<div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a9959fcf0124f084e6a2835ed745ce0d1.html#a9959fcf0124f084e6a2835ed745ce0d1">set</a>(<span class="keywordtype">double</span> c);</div>
<div class="line"><a name="l00254"></a><span class="lineno"> 254</span>  </div>
<div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  <a class="code" href="classpism_1_1SpatialVariableMetadata.html">SpatialVariableMetadata</a>& <a class="code" href="classpism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4.html#af9eece42153cd03bfc8ba237ae5310c4">metadata</a>(<span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> N = 0);</div>
<div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  </div>
<div class="line"><a name="l00257"></a><span class="lineno"> 257</span>  <span class="keyword">const</span> <a class="code" href="classpism_1_1SpatialVariableMetadata.html">SpatialVariableMetadata</a>& <a class="code" href="classpism_1_1array_1_1Array_af9eece42153cd03bfc8ba237ae5310c4.html#af9eece42153cd03bfc8ba237ae5310c4">metadata</a>(<span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> N = 0) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  </div>
<div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  <span class="keywordtype">int</span> <a class="code" href="classpism_1_1array_1_1Array_a8944ba25bc076e69faafe183268ec390.html#a8944ba25bc076e69faafe183268ec390">state_counter</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00260"></a><span class="lineno"> 260</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_aa3b5158e40a9807c547ce7ba7a223b98.html#aa3b5158e40a9807c547ce7ba7a223b98">inc_state_counter</a>();</div>
<div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  </div>
<div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a2990bf1b48b47192f64a198ad3b80de3.html#a2990bf1b48b47192f64a198ad3b80de3">set_interpolation_type</a>(<a class="code" href="namespacepism_a3415cf6a7a4530c4e489feebe6365e03.html#a3415cf6a7a4530c4e489feebe6365e03">InterpolationType</a> type);</div>
<div class="line"><a name="l00263"></a><span class="lineno"> 263</span>  </div>
<div class="line"><a name="l00264"></a><span class="lineno"> 264</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a93ecc3ba18b8ee1b19387703814fa5ed.html#a93ecc3ba18b8ee1b19387703814fa5ed">view</a>(std::vector<std::shared_ptr<petsc::Viewer> > viewers) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  </div>
<div class="line"><a name="l00266"></a><span class="lineno"> 266</span> <span class="keyword">protected</span>:</div>
<div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  <a class="code" href="classpism_1_1array_1_1Array_a1eaef8ef14e4acaa36bfa2476ce4a81d.html#a1eaef8ef14e4acaa36bfa2476ce4a81d">Array</a>(std::shared_ptr<const Grid> <a class="code" href="classpism_1_1array_1_1Array_a982fca110a5d7011f681b928b20e3577.html#a982fca110a5d7011f681b928b20e3577">grid</a>,</div>
<div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  <span class="keyword">const</span> std::string &name,</div>
<div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  <a class="code" href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3">Kind</a> ghostedp,</div>
<div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  <span class="keywordtype">size_t</span> dof,</div>
<div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  <span class="keywordtype">size_t</span> <a class="code" href="classpism_1_1array_1_1Array_ade892a3412dcdc9f21129c2aed50e84d.html#ade892a3412dcdc9f21129c2aed50e84d">stencil_width</a>,</div>
<div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  <span class="keyword">const</span> std::vector<double> &zlevels);</div>
<div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  <span class="keyword">struct </span><a class="code" href="structpism_1_1array_1_1Array_1_1Impl.html">Impl</a>;</div>
<div class="line"><a name="l00274"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5"> 274</a></span>  <a class="code" href="structpism_1_1array_1_1Array_1_1Impl.html">Impl</a> *<a class="code" href="classpism_1_1array_1_1Array_a1fa9d92d2183dd048612690d41cfcde5.html#a1fa9d92d2183dd048612690d41cfcde5">m_impl</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>  <span class="comment">// will be cast to double**, double***, or Vector2** in derived classes</span></div>
<div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  <span class="comment">// This is not hidden in m_impl to make it possible to inline operator()</span></div>
<div class="line"><a name="l00278"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f"> 278</a></span>  <span class="keyword">mutable</span> <span class="keywordtype">void</span> *<a class="code" href="classpism_1_1array_1_1Array_a4bc8801a2c4ff3fb139baa69ab2dab7f.html#a4bc8801a2c4ff3fb139baa69ab2dab7f">m_array</a>;</div>
<div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  </div>
<div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_acdf6a6df6f0b82ee5bf8de3472c36835.html#acdf6a6df6f0b82ee5bf8de3472c36835">set_begin_access_use_dof</a>(<span class="keywordtype">bool</span> flag);</div>
<div class="line"><a name="l00281"></a><span class="lineno"> 281</span>  </div>
<div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ae34325e69b37407305d08dac29791ee6.html#ae34325e69b37407305d08dac29791ee6">read_impl</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> time);</div>
<div class="line"><a name="l00283"></a><span class="lineno"> 283</span>  <span class="keyword">virtual</span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a10cc4a99c07691fc367bdd87b4757b28.html#a10cc4a99c07691fc367bdd87b4757b28">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="l00284"></a><span class="lineno"> 284</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a0db005265cf0541f36beec52d6779da2.html#a0db005265cf0541f36beec52d6779da2">write_impl</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1File.html">File</a> &file) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00285"></a><span class="lineno"> 285</span>  </div>
<div class="line"><a name="l00286"></a><span class="lineno"> 286</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ae273bca5ed37b7b588c2b0e2a9c0f572.html#ae273bca5ed37b7b588c2b0e2a9c0f572">checkCompatibility</a>(<span class="keyword">const</span> <span class="keywordtype">char</span> *<span class="keyword">function</span>, <span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array.html">Array</a> &other) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00287"></a><span class="lineno"> 287</span> <span class="comment"></span> </div>
<div class="line"><a name="l00288"></a><span class="lineno"> 288</span> <span class="comment"> //! @brief Check array indices and warn if they are out of range.</span></div>
<div class="line"><a name="l00289"></a><span class="lineno"> 289</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_af325585b37b5cd326ca52d6ef2e65e9f.html#af325585b37b5cd326ca52d6ef2e65e9f">check_array_indices</a>(<span class="keywordtype">int</span> i, <span class="keywordtype">int</span> j, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="namespacepism_a7343afff8d353b59dbdec563bd896812.html#a7343afff8d353b59dbdec563bd896812">k</a>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00290"></a><span class="lineno"> 290</span>  </div>
<div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4d2682345688240e2773608bda9924ad.html#a4d2682345688240e2773608bda9924ad">copy_to_vec</a>(std::shared_ptr<petsc::DM> destination_da, <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &destination) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a7443e19f7b2c8705e4ace9c775f173bd.html#a7443e19f7b2c8705e4ace9c775f173bd">get_dof</a>(std::shared_ptr<petsc::DM> da_result, <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &result, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> start,</div>
<div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="test__cube_8c_ad43c3812e6d13e0518d9f8b8f463ffcf.html#ad43c3812e6d13e0518d9f8b8f463ffcf">count</a>=1) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00294"></a><span class="lineno"> 294</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a9e04ef2f4b5c7082a4903876cc21740d.html#a9e04ef2f4b5c7082a4903876cc21740d">set_dof</a>(std::shared_ptr<petsc::DM> da_source, <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &source, <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> start,</div>
<div class="line"><a name="l00295"></a><span class="lineno"> 295</span>  <span class="keywordtype">unsigned</span> <span class="keywordtype">int</span> <a class="code" href="test__cube_8c_ad43c3812e6d13e0518d9f8b8f463ffcf.html#ad43c3812e6d13e0518d9f8b8f463ffcf">count</a>=1);</div>
<div class="line"><a name="l00296"></a><span class="lineno"> 296</span> <span class="keyword">private</span>:</div>
<div class="line"><a name="l00297"></a><span class="lineno"> 297</span>  <span class="keywordtype">size_t</span> <a class="code" href="classpism_1_1array_1_1Array_a47a8eb9b88993e033cce116e499b2ff5.html#a47a8eb9b88993e033cce116e499b2ff5">size</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00298"></a><span class="lineno"> 298</span>  <span class="comment">// disable copy constructor and the assignment operator:</span></div>
<div class="line"><a name="l00299"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array_a3c06cb44d9e11f8daee2d39729ccb655.html#a3c06cb44d9e11f8daee2d39729ccb655"> 299</a></span>  <a class="code" href="classpism_1_1array_1_1Array_a3c06cb44d9e11f8daee2d39729ccb655.html#a3c06cb44d9e11f8daee2d39729ccb655">Array</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array.html">Array</a> &other);</div>
<div class="line"><a name="l00300"></a><span class="lineno"><a class="line" href="classpism_1_1array_1_1Array_a9e5c68ab1889c9f01198d1b78118f678.html#a9e5c68ab1889c9f01198d1b78118f678"> 300</a></span>  <a class="code" href="classpism_1_1array_1_1Array.html">Array</a>& <a class="code" href="classpism_1_1array_1_1Array_a9e5c68ab1889c9f01198d1b78118f678.html#a9e5c68ab1889c9f01198d1b78118f678">operator=</a>(<span class="keyword">const</span> <a class="code" href="classpism_1_1array_1_1Array.html">Array</a>&);</div>
<div class="line"><a name="l00301"></a><span class="lineno"> 301</span> <span class="keyword">public</span>:<span class="comment"></span></div>
<div class="line"><a name="l00302"></a><span class="lineno"> 302</span> <span class="comment"> //! Dump an Array to a file. *This is for debugging only.*</span></div>
<div class="line"><a name="l00303"></a><span class="lineno"> 303</span> <span class="comment"> //! Uses const char[] to make it easier to call it from gdb.</span></div>
<div class="line"><a name="l00304"></a><span class="lineno"> 304</span> <span class="comment"></span> <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a349f572801677e376b220abfb88f2118.html#a349f572801677e376b220abfb88f2118">dump</a>(<span class="keyword">const</span> <span class="keywordtype">char</span> filename[]) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  </div>
<div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  uint64_t <a class="code" href="classpism_1_1array_1_1Array_a600df48032d0a35e21bd95e3239793c4.html#a600df48032d0a35e21bd95e3239793c4">fletcher64_serial</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  uint64_t <a class="code" href="classpism_1_1array_1_1Array_ab3d67dc7b767fd3dcdfb667c0569d8e3.html#ab3d67dc7b767fd3dcdfb667c0569d8e3">fletcher64</a>() <span class="keyword">const</span>;</div>
<div class="line"><a name="l00308"></a><span class="lineno"> 308</span>  std::string <a class="code" href="classpism_1_1array_1_1Array_a8d8b6e5742fcbf3f2f34d905f4fcd99e.html#a8d8b6e5742fcbf3f2f34d905f4fcd99e">checksum</a>(<span class="keywordtype">bool</span> serial) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a86870f60d7c377faf5a6433d1e1aff20.html#a86870f60d7c377faf5a6433d1e1aff20">print_checksum</a>(<span class="keyword">const</span> <span class="keywordtype">char</span> *prefix = <span class="stringliteral">""</span>, <span class="keywordtype">bool</span> serial=<span class="keyword">false</span>) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00310"></a><span class="lineno"> 310</span>  </div>
<div class="line"><a name="l00311"></a><span class="lineno"> 311</span> <span class="keyword">protected</span>:</div>
<div class="line"><a name="l00312"></a><span class="lineno"> 312</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_ab56dc4d6cf0f9660ce580bbf4f3585d9.html#ab56dc4d6cf0f9660ce580bbf4f3585d9">put_on_proc0</a>(<a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &parallel, <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &onp0) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  <span class="keywordtype">void</span> <a class="code" href="classpism_1_1array_1_1Array_a4b0a2833f2ca67c37228e037d1821ccf.html#a4b0a2833f2ca67c37228e037d1821ccf">get_from_proc0</a>(<a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &onp0, <a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &parallel) <span class="keyword">const</span>;</div>
<div class="line"><a name="l00314"></a><span class="lineno"> 314</span> };</div>
<div class="line"><a name="l00315"></a><span class="lineno"> 315</span> <span class="comment"></span> </div>
<div class="line"><a name="l00316"></a><span class="lineno"> 316</span> <span class="comment">//! `std::dynamic_pointer_cast` wrapper that checks if the cast succeeded.</span></div>
<div class="line"><a name="l00317"></a><span class="lineno"> 317</span> <span class="comment"></span><span class="keyword">template</span> <<span class="keyword">class</span> T></div>
<div class="line"><a name="l00318"></a><span class="lineno"><a class="line" href="namespacepism_1_1array_ae447cfd4c50f67ec58fc796a76c7129a.html#ae447cfd4c50f67ec58fc796a76c7129a"> 318</a></span> <span class="keyword">static</span> <span class="keyword">typename</span> std::shared_ptr<T> <a class="code" href="namespacepism_1_1array_ae447cfd4c50f67ec58fc796a76c7129a.html#ae447cfd4c50f67ec58fc796a76c7129a">cast</a>(std::shared_ptr<Array> input) {</div>
<div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  <span class="keyword">auto</span> result = std::dynamic_pointer_cast<T, Array>(input);</div>
<div class="line"><a name="l00320"></a><span class="lineno"> 320</span>  </div>
<div class="line"><a name="l00321"></a><span class="lineno"> 321</span>  <span class="keywordflow">if</span> (not result) {</div>
<div class="line"><a name="l00322"></a><span class="lineno"> 322</span>  <span class="keywordflow">throw</span> <a class="code" href="classpism_1_1RuntimeError.html">RuntimeError</a>(<a class="code" href="error__handling_8hh_aa0c260bffe8a4dbd77d48e8feee7c526.html#aa0c260bffe8a4dbd77d48e8feee7c526">PISM_ERROR_LOCATION</a>, <span class="stringliteral">"dynamic cast failure"</span>);</div>
<div class="line"><a name="l00323"></a><span class="lineno"> 323</span>  }</div>
<div class="line"><a name="l00324"></a><span class="lineno"> 324</span>  </div>
<div class="line"><a name="l00325"></a><span class="lineno"> 325</span>  <span class="keywordflow">return</span> result;</div>
<div class="line"><a name="l00326"></a><span class="lineno"> 326</span> }</div>
<div class="line"><a name="l00327"></a><span class="lineno"> 327</span>  </div>
<div class="line"><a name="l00328"></a><span class="lineno"> 328</span> } <span class="comment">// end of namespace array</span></div>
<div class="line"><a name="l00329"></a><span class="lineno"> 329</span> <span class="comment"></span> </div>
<div class="line"><a name="l00330"></a><span class="lineno"> 330</span> <span class="comment">/**</span></div>
<div class="line"><a name="l00331"></a><span class="lineno"> 331</span> <span class="comment"> * Convert a PETSc Vec from the units in `from` into units in `to` (in place).</span></div>
<div class="line"><a name="l00332"></a><span class="lineno"> 332</span> <span class="comment"> *</span></div>
<div class="line"><a name="l00333"></a><span class="lineno"> 333</span> <span class="comment"> * @param v data to convert</span></div>
<div class="line"><a name="l00334"></a><span class="lineno"> 334</span> <span class="comment"> * @param system unit system</span></div>
<div class="line"><a name="l00335"></a><span class="lineno"> 335</span> <span class="comment"> * @param spec1 source unit specification string</span></div>
<div class="line"><a name="l00336"></a><span class="lineno"> 336</span> <span class="comment"> * @param spec2 destination unit specification string</span></div>
<div class="line"><a name="l00337"></a><span class="lineno"> 337</span> <span class="comment"> */</span></div>
<div class="line"><a name="l00338"></a><span class="lineno"><a class="line" href="namespacepism_ad84858a051f421bc00d00dad164c4004.html#ad84858a051f421bc00d00dad164c4004"> 338</a></span> <span class="keywordtype">void</span> <a class="code" href="namespacepism_aded10babcc1dfd7b9d3f41562db82090.html#aded10babcc1dfd7b9d3f41562db82090">convert_vec</a>(<a class="code" href="classpism_1_1petsc_1_1Vec.html">petsc::Vec</a> &v, std::shared_ptr<units::System> system,</div>
<div class="line"><a name="l00339"></a><span class="lineno"> 339</span>  <span class="keyword">const</span> std::string &spec1, <span class="keyword">const</span> std::string &spec2);</div>
<div class="line"><a name="l00340"></a><span class="lineno"> 340</span>  </div>
<div class="line"><a name="l00341"></a><span class="lineno"> 341</span> } <span class="comment">// end of namespace pism</span></div>
<div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  </div>
<div class="line"><a name="l00343"></a><span class="lineno"> 343</span> <span class="preprocessor">#endif </span><span class="comment">/* PISM_ARRAY_H */</span><span class="preprocessor"></span></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_1Grid_html"><div class="ttname"><a href="classpism_1_1Grid.html">pism::Grid</a></div><div class="ttdoc">Describes the PISM grid and the distribution of data across processors.</div><div class="ttdef"><b>Definition:</b> <a href="Grid_8hh_source.html#l00282">Grid.hh:282</a></div></div>
<div class="ttc" id="aclasspism_1_1PetscAccessible_a2a5ee8392bf3bfd7e1d5f8aa76f49f45_html_a2a5ee8392bf3bfd7e1d5f8aa76f49f45"><div class="ttname"><a href="classpism_1_1PetscAccessible_a2a5ee8392bf3bfd7e1d5f8aa76f49f45.html#a2a5ee8392bf3bfd7e1d5f8aa76f49f45">pism::PetscAccessible::~PetscAccessible</a></div><div class="ttdeci">virtual ~PetscAccessible()=default</div></div>
<div class="ttc" id="aclasspism_1_1PetscAccessible_a3479683e4a350e10ae36242daf3ca011_html_a3479683e4a350e10ae36242daf3ca011"><div class="ttname"><a href="classpism_1_1PetscAccessible_a3479683e4a350e10ae36242daf3ca011.html#a3479683e4a350e10ae36242daf3ca011">pism::PetscAccessible::begin_access</a></div><div class="ttdeci">virtual void begin_access() const =0</div></div>
<div class="ttc" id="aclasspism_1_1PetscAccessible_a7f0f57337f18a79b121cc108aa5ec37c_html_a7f0f57337f18a79b121cc108aa5ec37c"><div class="ttname"><a href="classpism_1_1PetscAccessible_a7f0f57337f18a79b121cc108aa5ec37c.html#a7f0f57337f18a79b121cc108aa5ec37c">pism::PetscAccessible::end_access</a></div><div class="ttdeci">virtual void end_access() const =0</div></div>
<div class="ttc" id="aclasspism_1_1PetscAccessible_html"><div class="ttname"><a href="classpism_1_1PetscAccessible.html">pism::PetscAccessible</a></div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00052">Array.hh:52</a></div></div>
<div class="ttc" id="aclasspism_1_1RuntimeError_html"><div class="ttname"><a href="classpism_1_1RuntimeError.html">pism::RuntimeError</a></div><div class="ttdef"><b>Definition:</b> <a href="error__handling_8hh_source.html#l00046">error_handling.hh:46</a></div></div>
<div class="ttc" id="aclasspism_1_1SpatialVariableMetadata_html"><div class="ttname"><a href="classpism_1_1SpatialVariableMetadata.html">pism::SpatialVariableMetadata</a></div><div class="ttdoc">Spatial NetCDF variable (corresponding to a 2D or 3D scalar field).</div><div class="ttdef"><b>Definition:</b> <a href="VariableMetadata_8hh_source.html#l00188">VariableMetadata.hh:188</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1AccessScope_a46c8cd5c8fb2dee06845dc385f04cc28_html_a46c8cd5c8fb2dee06845dc385f04cc28"><div class="ttname"><a href="classpism_1_1array_1_1AccessScope_a46c8cd5c8fb2dee06845dc385f04cc28.html#a46c8cd5c8fb2dee06845dc385f04cc28">pism::array::AccessScope::add</a></div><div class="ttdeci">void add(const PetscAccessible &v)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00933">Array.cc:933</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1AccessScope_a7b645191ff12347a173b1137bad274e2_html_a7b645191ff12347a173b1137bad274e2"><div class="ttname"><a href="classpism_1_1array_1_1AccessScope_a7b645191ff12347a173b1137bad274e2.html#a7b645191ff12347a173b1137bad274e2">pism::array::AccessScope::~AccessScope</a></div><div class="ttdeci">~AccessScope()</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00911">Array.cc:911</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1AccessScope_ae18bd835e0b5ee2b4f83d0a7e4f330a1_html_ae18bd835e0b5ee2b4f83d0a7e4f330a1"><div class="ttname"><a href="classpism_1_1array_1_1AccessScope_ae18bd835e0b5ee2b4f83d0a7e4f330a1.html#ae18bd835e0b5ee2b4f83d0a7e4f330a1">pism::array::AccessScope::AccessScope</a></div><div class="ttdeci">AccessScope()</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00907">Array.cc:907</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1AccessScope_afe5fd53d93439e9137f82aeb9eee6abe_html_afe5fd53d93439e9137f82aeb9eee6abe"><div class="ttname"><a href="classpism_1_1array_1_1AccessScope_afe5fd53d93439e9137f82aeb9eee6abe.html#afe5fd53d93439e9137f82aeb9eee6abe">pism::array::AccessScope::m_vecs</a></div><div class="ttdeci">std::vector< const PetscAccessible * > m_vecs</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00074">Array.hh:74</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_1Array_a0326efd779d857755513901da9a54992_html_a0326efd779d857755513901da9a54992"><div class="ttname"><a href="classpism_1_1array_1_1Array_a0326efd779d857755513901da9a54992.html#a0326efd779d857755513901da9a54992">pism::array::Array::read</a></div><div class="ttdeci">void read(const std::string &filename, unsigned int time)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00809">Array.cc:809</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a0db005265cf0541f36beec52d6779da2_html_a0db005265cf0541f36beec52d6779da2"><div class="ttname"><a href="classpism_1_1array_1_1Array_a0db005265cf0541f36beec52d6779da2.html#a0db005265cf0541f36beec52d6779da2">pism::array::Array::write_impl</a></div><div class="ttdeci">void write_impl(const File &file) const</div><div class="ttdoc">Writes an Array to a NetCDF file.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00564">Array.cc:564</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a0fa36087e9f96f8af1a50d28fcf0f699_html_a0fa36087e9f96f8af1a50d28fcf0f699"><div class="ttname"><a href="classpism_1_1array_1_1Array_a0fa36087e9f96f8af1a50d28fcf0f699.html#a0fa36087e9f96f8af1a50d28fcf0f699">pism::array::Array::end_access</a></div><div class="ttdeci">virtual void end_access() const</div><div class="ttdoc">Checks if an Array is allocated and calls DAVecRestoreArray.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00667">Array.cc:667</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a10cc4a99c07691fc367bdd87b4757b28_html_a10cc4a99c07691fc367bdd87b4757b28"><div class="ttname"><a href="classpism_1_1array_1_1Array_a10cc4a99c07691fc367bdd87b4757b28.html#a10cc4a99c07691fc367bdd87b4757b28">pism::array::Array::regrid_impl</a></div><div class="ttdeci">virtual 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="Array_8cc_source.html#l00426">Array.cc:426</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a1eaef8ef14e4acaa36bfa2476ce4a81d_html_a1eaef8ef14e4acaa36bfa2476ce4a81d"><div class="ttname"><a href="classpism_1_1array_1_1Array_a1eaef8ef14e4acaa36bfa2476ce4a81d.html#a1eaef8ef14e4acaa36bfa2476ce4a81d">pism::array::Array::Array</a></div><div class="ttdeci">Array(std::shared_ptr< const Grid > grid, const std::string &name, Kind ghostedp, size_t dof, size_t stencil_width, const std::vector< double > &zlevels)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00059">Array.cc:59</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_a2990bf1b48b47192f64a198ad3b80de3_html_a2990bf1b48b47192f64a198ad3b80de3"><div class="ttname"><a href="classpism_1_1array_1_1Array_a2990bf1b48b47192f64a198ad3b80de3.html#a2990bf1b48b47192f64a198ad3b80de3">pism::array::Array::set_interpolation_type</a></div><div class="ttdeci">void set_interpolation_type(InterpolationType type)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00179">Array.cc:179</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a2ff33ea8873af12a63971854f0a35304_html_a2ff33ea8873af12a63971854f0a35304"><div class="ttname"><a href="classpism_1_1array_1_1Array_a2ff33ea8873af12a63971854f0a35304.html#a2ff33ea8873af12a63971854f0a35304">pism::array::Array::set_name</a></div><div class="ttdeci">void set_name(const std::string &name)</div><div class="ttdoc">Sets the variable name to name.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00371">Array.cc:371</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a349f572801677e376b220abfb88f2118_html_a349f572801677e376b220abfb88f2118"><div class="ttname"><a href="classpism_1_1array_1_1Array_a349f572801677e376b220abfb88f2118.html#a349f572801677e376b220abfb88f2118">pism::array::Array::dump</a></div><div class="ttdeci">void dump(const char filename[]) const</div><div class="ttdoc">Dumps a variable to a file, overwriting this file's contents (for debugging).</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00607">Array.cc:607</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a363541662d9b80d79985fb76df22913b_html_a363541662d9b80d79985fb76df22913b"><div class="ttname"><a href="classpism_1_1array_1_1Array_a363541662d9b80d79985fb76df22913b.html#a363541662d9b80d79985fb76df22913b">pism::array::Array::range</a></div><div class="ttdeci">std::array< double, 2 > range() const</div><div class="ttdoc">Result: min <- min(v[j]), max <- max(v[j]).</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00194">Array.cc:194</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a3c06cb44d9e11f8daee2d39729ccb655_html_a3c06cb44d9e11f8daee2d39729ccb655"><div class="ttname"><a href="classpism_1_1array_1_1Array_a3c06cb44d9e11f8daee2d39729ccb655.html#a3c06cb44d9e11f8daee2d39729ccb655">pism::array::Array::Array</a></div><div class="ttdeci">Array(const Array &other)</div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a3e1a5859cef073a95e5e0cc5f1cc0fdb_html_a3e1a5859cef073a95e5e0cc5f1cc0fdb"><div class="ttname"><a href="classpism_1_1array_1_1Array_a3e1a5859cef073a95e5e0cc5f1cc0fdb.html#a3e1a5859cef073a95e5e0cc5f1cc0fdb">pism::array::Array::define</a></div><div class="ttdeci">void define(const File &file, io::Type default_type) const</div><div class="ttdoc">Define variables corresponding to an Array in a file opened using file.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00540">Array.cc:540</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a3ea8fcc8fd376aff2754a8ad081d0195_html_a3ea8fcc8fd376aff2754a8ad081d0195"><div class="ttname"><a href="classpism_1_1array_1_1Array_a3ea8fcc8fd376aff2754a8ad081d0195.html#a3ea8fcc8fd376aff2754a8ad081d0195">pism::array::Array::begin_access</a></div><div class="ttdeci">virtual void begin_access() const</div><div class="ttdoc">Checks if an Array is allocated and calls DAVecGetArray.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00646">Array.cc:646</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a4682225eaaf7a6f647b7f1bf8dafb6e0_html_a4682225eaaf7a6f647b7f1bf8dafb6e0"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4682225eaaf7a6f647b7f1bf8dafb6e0.html#a4682225eaaf7a6f647b7f1bf8dafb6e0">pism::array::Array::shift</a></div><div class="ttdeci">void shift(double alpha)</div><div class="ttdoc">Result: v[j] <- v[j] + alpha for all j. Calls VecShift.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00245">Array.cc:245</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_a4b0a2833f2ca67c37228e037d1821ccf_html_a4b0a2833f2ca67c37228e037d1821ccf"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4b0a2833f2ca67c37228e037d1821ccf.html#a4b0a2833f2ca67c37228e037d1821ccf">pism::array::Array::get_from_proc0</a></div><div class="ttdeci">void get_from_proc0(petsc::Vec &onp0)</div><div class="ttdoc">Gets a local Array2 from processor 0.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01095">Array.cc:1095</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_a4cdaeb827d166a076668d2ab86416793_html_a4cdaeb827d166a076668d2ab86416793"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4cdaeb827d166a076668d2ab86416793.html#a4cdaeb827d166a076668d2ab86416793">pism::array::Array::write</a></div><div class="ttdeci">void write(const std::string &filename) const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00800">Array.cc:800</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a4d2682345688240e2773608bda9924ad_html_a4d2682345688240e2773608bda9924ad"><div class="ttname"><a href="classpism_1_1array_1_1Array_a4d2682345688240e2773608bda9924ad.html#a4d2682345688240e2773608bda9924ad">pism::array::Array::copy_to_vec</a></div><div class="ttdeci">void copy_to_vec(std::shared_ptr< petsc::DM > destination_da, petsc::Vec &destination) const</div><div class="ttdoc">Copies v to a global vector 'destination'. Ghost points are discarded.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00267">Array.cc:267</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_a57e576c6c3873ad06edabcd2b30e0f4a_html_a57e576c6c3873ad06edabcd2b30e0f4a"><div class="ttname"><a href="classpism_1_1array_1_1Array_a57e576c6c3873ad06edabcd2b30e0f4a.html#a57e576c6c3873ad06edabcd2b30e0f4a">pism::array::Array::~Array</a></div><div class="ttdeci">virtual ~Array()</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00105">Array.cc:105</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_a600df48032d0a35e21bd95e3239793c4_html_a600df48032d0a35e21bd95e3239793c4"><div class="ttname"><a href="classpism_1_1array_1_1Array_a600df48032d0a35e21bd95e3239793c4.html#a600df48032d0a35e21bd95e3239793c4">pism::array::Array::fletcher64_serial</a></div><div class="ttdeci">uint64_t fletcher64_serial() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01112">Array.cc:1112</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a7443e19f7b2c8705e4ace9c775f173bd_html_a7443e19f7b2c8705e4ace9c775f173bd"><div class="ttname"><a href="classpism_1_1array_1_1Array_a7443e19f7b2c8705e4ace9c775f173bd.html#a7443e19f7b2c8705e4ace9c775f173bd">pism::array::Array::get_dof</a></div><div class="ttdeci">void get_dof(std::shared_ptr< petsc::DM > da_result, petsc::Vec &result, unsigned int start, unsigned int count=1) const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00277">Array.cc:277</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a7b700739a7f5845c95fa33375a497901_html_a7b700739a7f5845c95fa33375a497901"><div class="ttname"><a href="classpism_1_1array_1_1Array_a7b700739a7f5845c95fa33375a497901.html#a7b700739a7f5845c95fa33375a497901">pism::array::Array::scale</a></div><div class="ttdeci">void scale(double alpha)</div><div class="ttdoc">Result: v <- v * alpha. Calls VecScale.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00253">Array.cc:253</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a86870f60d7c377faf5a6433d1e1aff20_html_a86870f60d7c377faf5a6433d1e1aff20"><div class="ttname"><a href="classpism_1_1array_1_1Array_a86870f60d7c377faf5a6433d1e1aff20.html#a86870f60d7c377faf5a6433d1e1aff20">pism::array::Array::print_checksum</a></div><div class="ttdeci">void print_checksum(const char *prefix="", bool serial=false) const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01198">Array.cc:1198</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a8944ba25bc076e69faafe183268ec390_html_a8944ba25bc076e69faafe183268ec390"><div class="ttname"><a href="classpism_1_1array_1_1Array_a8944ba25bc076e69faafe183268ec390.html#a8944ba25bc076e69faafe183268ec390">pism::array::Array::state_counter</a></div><div class="ttdeci">int state_counter() const</div><div class="ttdoc">Get the object state counter.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00128">Array.cc:128</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a8a4885c56a7e19ea98e4a126dba612af_html_a8a4885c56a7e19ea98e4a126dba612af"><div class="ttname"><a href="classpism_1_1array_1_1Array_a8a4885c56a7e19ea98e4a126dba612af.html#a8a4885c56a7e19ea98e4a126dba612af">pism::array::Array::shape</a></div><div class="ttdeci">std::vector< int > shape() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00160">Array.cc:160</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a8d8b6e5742fcbf3f2f34d905f4fcd99e_html_a8d8b6e5742fcbf3f2f34d905f4fcd99e"><div class="ttname"><a href="classpism_1_1array_1_1Array_a8d8b6e5742fcbf3f2f34d905f4fcd99e.html#a8d8b6e5742fcbf3f2f34d905f4fcd99e">pism::array::Array::checksum</a></div><div class="ttdeci">std::string checksum(bool serial) const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01189">Array.cc:1189</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a93ecc3ba18b8ee1b19387703814fa5ed_html_a93ecc3ba18b8ee1b19387703814fa5ed"><div class="ttname"><a href="classpism_1_1array_1_1Array_a93ecc3ba18b8ee1b19387703814fa5ed.html#a93ecc3ba18b8ee1b19387703814fa5ed">pism::array::Array::view</a></div><div class="ttdeci">void view(std::vector< std::shared_ptr< petsc::Viewer > > viewers) const</div><div class="ttdoc">View a 2D vector field using existing PETSc viewers.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01205">Array.cc:1205</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_a9959fcf0124f084e6a2835ed745ce0d1_html_a9959fcf0124f084e6a2835ed745ce0d1"><div class="ttname"><a href="classpism_1_1array_1_1Array_a9959fcf0124f084e6a2835ed745ce0d1.html#a9959fcf0124f084e6a2835ed745ce0d1">pism::array::Array::set</a></div><div class="ttdeci">void set(double c)</div><div class="ttdoc">Result: v[j] <- c for all j.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00707">Array.cc:707</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a9e04ef2f4b5c7082a4903876cc21740d_html_a9e04ef2f4b5c7082a4903876cc21740d"><div class="ttname"><a href="classpism_1_1array_1_1Array_a9e04ef2f4b5c7082a4903876cc21740d.html#a9e04ef2f4b5c7082a4903876cc21740d">pism::array::Array::set_dof</a></div><div class="ttdeci">void set_dof(std::shared_ptr< petsc::DM > da_source, petsc::Vec &source, unsigned int start, unsigned int count=1)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00302">Array.cc:302</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_a9e5c68ab1889c9f01198d1b78118f678_html_a9e5c68ab1889c9f01198d1b78118f678"><div class="ttname"><a href="classpism_1_1array_1_1Array_a9e5c68ab1889c9f01198d1b78118f678.html#a9e5c68ab1889c9f01198d1b78118f678">pism::array::Array::operator=</a></div><div class="ttdeci">Array & operator=(const Array &)</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_aa78dff7e30d312e2d45b939b5237f68e_html_aa78dff7e30d312e2d45b939b5237f68e"><div class="ttname"><a href="classpism_1_1array_1_1Array_aa78dff7e30d312e2d45b939b5237f68e.html#aa78dff7e30d312e2d45b939b5237f68e">pism::array::Array::ndims</a></div><div class="ttdeci">unsigned int ndims() const</div><div class="ttdoc">Returns the number of spatial dimensions.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00156">Array.cc:156</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_aa7de6be7e8f785321df81d9fd6518a16_html_aa7de6be7e8f785321df81d9fd6518a16"><div class="ttname"><a href="classpism_1_1array_1_1Array_aa7de6be7e8f785321df81d9fd6518a16.html#aa7de6be7e8f785321df81d9fd6518a16">pism::array::Array::regrid</a></div><div class="ttdeci">void regrid(const std::string &filename, io::Default default_value)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00814">Array.cc:814</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ab03888a9f5e399025704ae789738bba2_html_ab03888a9f5e399025704ae789738bba2"><div class="ttname"><a href="classpism_1_1array_1_1Array_ab03888a9f5e399025704ae789738bba2.html#ab03888a9f5e399025704ae789738bba2">pism::array::Array::allocate_proc0_copy</a></div><div class="ttdeci">std::shared_ptr< petsc::Vec > allocate_proc0_copy() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00963">Array.cc:963</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ab3d67dc7b767fd3dcdfb667c0569d8e3_html_ab3d67dc7b767fd3dcdfb667c0569d8e3"><div class="ttname"><a href="classpism_1_1array_1_1Array_ab3d67dc7b767fd3dcdfb667c0569d8e3.html#ab3d67dc7b767fd3dcdfb667c0569d8e3">pism::array::Array::fletcher64</a></div><div class="ttdeci">uint64_t fletcher64() const</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01144">Array.cc:1144</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ab56dc4d6cf0f9660ce580bbf4f3585d9_html_ab56dc4d6cf0f9660ce580bbf4f3585d9"><div class="ttname"><a href="classpism_1_1array_1_1Array_ab56dc4d6cf0f9660ce580bbf4f3585d9.html#ab56dc4d6cf0f9660ce580bbf4f3585d9">pism::array::Array::put_on_proc0</a></div><div class="ttdeci">void put_on_proc0(petsc::Vec &onp0) const</div><div class="ttdoc">Puts a local array::Scalar on processor 0.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01052">Array.cc:1052</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_ad11b3ebab1177fd1e6713959389b9de1_html_ad11b3ebab1177fd1e6713959389b9de1"><div class="ttname"><a href="classpism_1_1array_1_1Array_ad11b3ebab1177fd1e6713959389b9de1.html#ad11b3ebab1177fd1e6713959389b9de1">pism::array::Array::add</a></div><div class="ttdeci">void add(double alpha, const Array &x)</div><div class="ttdoc">Result: v <- v + alpha * x. Calls VecAXPY.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00235">Array.cc:235</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ad9b51e2677b0927d2de4eda2b81c3e48_html_ad9b51e2677b0927d2de4eda2b81c3e48"><div class="ttname"><a href="classpism_1_1array_1_1Array_ad9b51e2677b0927d2de4eda2b81c3e48.html#ad9b51e2677b0927d2de4eda2b81c3e48">pism::array::Array::norm</a></div><div class="ttdeci">std::vector< double > norm(int n) const</div><div class="ttdoc">Computes the norm of all the components of an Array.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00746">Array.cc:746</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_ade892a3412dcdc9f21129c2aed50e84d_html_ade892a3412dcdc9f21129c2aed50e84d"><div class="ttname"><a href="classpism_1_1array_1_1Array_ade892a3412dcdc9f21129c2aed50e84d.html#ade892a3412dcdc9f21129c2aed50e84d">pism::array::Array::stencil_width</a></div><div class="ttdeci">unsigned int stencil_width() const</div><div class="ttdoc">Get the stencil width of the current Array. Returns 0 if ghosts are not available.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00331">Array.cc:331</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ae273bca5ed37b7b588c2b0e2a9c0f572_html_ae273bca5ed37b7b588c2b0e2a9c0f572"><div class="ttname"><a href="classpism_1_1array_1_1Array_ae273bca5ed37b7b588c2b0e2a9c0f572.html#ae273bca5ed37b7b588c2b0e2a9c0f572">pism::array::Array::checkCompatibility</a></div><div class="ttdeci">void checkCompatibility(const char *function, const Array &other) const</div><div class="ttdoc">Checks if two Arrays have compatible sizes, dimensions and numbers of degrees of freedom.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00623">Array.cc:623</a></div></div>
<div class="ttc" id="aclasspism_1_1array_1_1Array_ae34325e69b37407305d08dac29791ee6_html_ae34325e69b37407305d08dac29791ee6"><div class="ttname"><a href="classpism_1_1array_1_1Array_ae34325e69b37407305d08dac29791ee6.html#ae34325e69b37407305d08dac29791ee6">pism::array::Array::read_impl</a></div><div class="ttdeci">void read_impl(const File &file, unsigned int time)</div><div class="ttdoc">Reads appropriate NetCDF variable(s) into an Array.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l00493">Array.cc:493</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_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_1DM_html"><div class="ttname"><a href="classpism_1_1petsc_1_1DM.html">pism::petsc::DM</a></div><div class="ttdef"><b>Definition:</b> <a href="DM_8hh_source.html#l00037">DM.hh:37</a></div></div>
<div class="ttc" id="aclasspism_1_1petsc_1_1Vec_html"><div class="ttname"><a href="classpism_1_1petsc_1_1Vec.html">pism::petsc::Vec</a></div><div class="ttdef"><b>Definition:</b> <a href="Vec_8hh_source.html#l00036">Vec.hh:36</a></div></div>
<div class="ttc" id="aclasspism_1_1petsc_1_1Viewer_html"><div class="ttname"><a href="classpism_1_1petsc_1_1Viewer.html">pism::petsc::Viewer</a></div><div class="ttdef"><b>Definition:</b> <a href="Viewer_8hh_source.html#l00030">Viewer.hh:30</a></div></div>
<div class="ttc" id="aclasspism_1_1units_1_1System_html"><div class="ttname"><a href="classpism_1_1units_1_1System.html">pism::units::System</a></div><div class="ttdef"><b>Definition:</b> <a href="Units_8hh_source.html#l00044">Units.hh:44</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="aexactTestM_8c_ad5228cd48403ef9d8b632f5c7c124720_html_ad5228cd48403ef9d8b632f5c7c124720"><div class="ttname"><a href="exactTestM_8c_ad5228cd48403ef9d8b632f5c7c124720.html#ad5228cd48403ef9d8b632f5c7c124720">n</a></div><div class="ttdeci">#define n</div><div class="ttdef"><b>Definition:</b> <a href="exactTestM_8c_source.html#l00037">exactTestM.c:37</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_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3_html_ab49b8ee9a79e7f46ec91fc40efdb7ca3a7aa2276678f0b2cd3f63c15be430372f"><div class="ttname"><a href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3a7aa2276678f0b2cd3f63c15be430372f">pism::array::WITH_GHOSTS</a></div><div class="ttdeci">@ WITH_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_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3_html_ab49b8ee9a79e7f46ec91fc40efdb7ca3af672399d2e1a4112ca5d4a4591c30885"><div class="ttname"><a href="namespacepism_1_1array_ab49b8ee9a79e7f46ec91fc40efdb7ca3.html#ab49b8ee9a79e7f46ec91fc40efdb7ca3af672399d2e1a4112ca5d4a4591c30885">pism::array::WITHOUT_GHOSTS</a></div><div class="ttdeci">@ 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_1array_acc78626832aa1c59a74bd4cd7cc5519c_html_acc78626832aa1c59a74bd4cd7cc5519c"><div class="ttname"><a href="namespacepism_1_1array_acc78626832aa1c59a74bd4cd7cc5519c.html#acc78626832aa1c59a74bd4cd7cc5519c">pism::array::interpolate</a></div><div class="ttdeci">T interpolate(const F &field, double x, double y)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00082">Array.hh:82</a></div></div>
<div class="ttc" id="anamespacepism_1_1array_ae447cfd4c50f67ec58fc796a76c7129a_html_ae447cfd4c50f67ec58fc796a76c7129a"><div class="ttname"><a href="namespacepism_1_1array_ae447cfd4c50f67ec58fc796a76c7129a.html#ae447cfd4c50f67ec58fc796a76c7129a">pism::array::cast</a></div><div class="ttdeci">static std::shared_ptr< T > cast(std::shared_ptr< Array > input)</div><div class="ttdoc">std::dynamic_pointer_cast wrapper that checks if the cast succeeded.</div><div class="ttdef"><b>Definition:</b> <a href="Array_8hh_source.html#l00318">Array.hh:318</a></div></div>
<div class="ttc" id="anamespacepism_1_1io_a53ffb40793c398e10644fbd2ecda3e77_html_a53ffb40793c398e10644fbd2ecda3e77"><div class="ttname"><a href="namespacepism_1_1io_a53ffb40793c398e10644fbd2ecda3e77.html#a53ffb40793c398e10644fbd2ecda3e77">pism::io::Type</a></div><div class="ttdeci">Type</div><div class="ttdef"><b>Definition:</b> <a href="IO__Flags_8hh_source.html#l00045">IO_Flags.hh:45</a></div></div>
<div class="ttc" id="anamespacepism_a200b1c89a64c718f6b0f585508e55172_html_a200b1c89a64c718f6b0f585508e55172"><div class="ttname"><a href="namespacepism_a200b1c89a64c718f6b0f585508e55172.html#a200b1c89a64c718f6b0f585508e55172">pism::F</a></div><div class="ttdeci">static double F(double SL, double B, double H, double alpha)</div><div class="ttdef"><b>Definition:</b> <a href="grounded__cell__fraction_8cc_source.html#l00225">grounded_cell_fraction.cc:225</a></div></div>
<div class="ttc" id="anamespacepism_a3415cf6a7a4530c4e489feebe6365e03_html_a3415cf6a7a4530c4e489feebe6365e03"><div class="ttname"><a href="namespacepism_a3415cf6a7a4530c4e489feebe6365e03.html#a3415cf6a7a4530c4e489feebe6365e03">pism::InterpolationType</a></div><div class="ttdeci">InterpolationType</div><div class="ttdef"><b>Definition:</b> <a href="interpolation_8hh_source.html#l00029">interpolation.hh:29</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_aded10babcc1dfd7b9d3f41562db82090_html_aded10babcc1dfd7b9d3f41562db82090"><div class="ttname"><a href="namespacepism_aded10babcc1dfd7b9d3f41562db82090.html#aded10babcc1dfd7b9d3f41562db82090">pism::convert_vec</a></div><div class="ttdeci">void convert_vec(petsc::Vec &v, units::System::Ptr system, const std::string &spec1, const std::string &spec2)</div><div class="ttdef"><b>Definition:</b> <a href="Array_8cc_source.html#l01262">Array.cc:1262</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_html"><div class="ttname"><a href="structpism_1_1array_1_1Array_1_1Impl.html">pism::array::Array::Impl</a></div><div class="ttdef"><b>Definition:</b> <a href="Array__impl_8hh_source.html#l00038">Array_impl.hh:38</a></div></div>
<div class="ttc" id="atest__cube_8c_ad43c3812e6d13e0518d9f8b8f463ffcf_html_ad43c3812e6d13e0518d9f8b8f463ffcf"><div class="ttname"><a href="test__cube_8c_ad43c3812e6d13e0518d9f8b8f463ffcf.html#ad43c3812e6d13e0518d9f8b8f463ffcf">count</a></div><div class="ttdeci">int count</div><div class="ttdef"><b>Definition:</b> <a href="test__cube_8c_source.html#l00016">test_cube.c:16</a></div></div>
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