matthias muntwiler
e1f1aa9636
- nickname can now correctly reference a dataset in a subfolder. - the interpolation now trims the dataset at the largest angle.
150 lines
146 KiB
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150 lines
146 KiB
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<a href="pearl-scienta-preprocess_8ipf.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> <span class="preprocessor">#pragma rtGlobals=3// Use modern global access method and strict wave access.</span></div><div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="preprocessor">#pragma IgorVersion = 6.1</span></div><div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="preprocessor">#pragma ModuleName = PearlScientaPreprocess</span></div><div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="preprocessor">#pragma version = 1.03</span></div><div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="preprocessor">#include "mm-fitfuncs"</span></div><div class="line"><a name="l00006"></a><span class="lineno"> 6</span> </div><div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="comment">// $Id$</span></div><div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="comment">// author: matthias.muntwiler@psi.ch</span></div><div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="comment">// Copyright (c) 2013-17 Paul Scherrer Institut</span></div><div class="line"><a name="l00010"></a><span class="lineno"> 10</span> </div><div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="comment">// Licensed under the Apache License, Version 2.0 (the "License");</span></div><div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="comment">// you may not use this file except in compliance with the License.</span></div><div class="line"><a name="l00013"></a><span class="lineno"> 13</span> <span class="comment">// You may obtain a copy of the License at</span></div><div class="line"><a name="l00014"></a><span class="lineno"> 14</span> <span class="comment">// http://www.apache.org/licenses/LICENSE-2.0</span></div><div class="line"><a name="l00015"></a><span class="lineno"> 15</span> </div><div class="line"><a name="l00030"></a><span class="lineno"> 30</span> </div><div class="line"><a name="l00035"></a><span class="lineno"> 35</span> </div><div class="line"><a name="l00036"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a145c7275b8809c5e789b932ef46e4811"> 36</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a145c7275b8809c5e789b932ef46e4811">prompt_int_linbg_reduction</a>(<span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00037"></a><span class="lineno"> 37</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00038"></a><span class="lineno"> 38</span> </div><div class="line"><a name="l00039"></a><span class="lineno"> 39</span>  variable Lcrop = NumberByKey(<span class="stringliteral">"Lcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00040"></a><span class="lineno"> 40</span>  variable Lsize = NumberByKey(<span class="stringliteral">"Lsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00041"></a><span class="lineno"> 41</span>  variable Hcrop = NumberByKey(<span class="stringliteral">"Hcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00042"></a><span class="lineno"> 42</span>  variable Hsize = NumberByKey(<span class="stringliteral">"Hsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00043"></a><span class="lineno"> 43</span>  variable Cpos = NumberByKey(<span class="stringliteral">"Cpos"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00044"></a><span class="lineno"> 44</span>  variable Csize = NumberByKey(<span class="stringliteral">"Csize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00045"></a><span class="lineno"> 45</span>  </div><div class="line"><a name="l00046"></a><span class="lineno"> 46</span>  prompt Lcrop, <span class="stringliteral">"Lower cropping region"</span></div><div class="line"><a name="l00047"></a><span class="lineno"> 47</span>  prompt Hcrop, <span class="stringliteral">"Upper cropping region"</span></div><div class="line"><a name="l00048"></a><span class="lineno"> 48</span>  prompt Lsize, <span class="stringliteral">"Lower background region"</span></div><div class="line"><a name="l00049"></a><span class="lineno"> 49</span>  prompt Hsize, <span class="stringliteral">"Upper background region"</span></div><div class="line"><a name="l00050"></a><span class="lineno"> 50</span>  prompt Cpos, <span class="stringliteral">"Center position"</span></div><div class="line"><a name="l00051"></a><span class="lineno"> 51</span>  prompt Csize, <span class="stringliteral">"Center integration region"</span></div><div class="line"><a name="l00052"></a><span class="lineno"> 52</span>  </div><div class="line"><a name="l00053"></a><span class="lineno"> 53</span>  doprompt <span class="stringliteral">"int_linbg_reduction Parameters"</span>, lcrop, hcrop, lsize, hsize, cpos, csize</div><div class="line"><a name="l00054"></a><span class="lineno"> 54</span>  <span class="keywordflow">if</span> (v_flag == 0)</div><div class="line"><a name="l00055"></a><span class="lineno"> 55</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lcrop"</span>, param, Lcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00056"></a><span class="lineno"> 56</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lsize"</span>, param, Lsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00057"></a><span class="lineno"> 57</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hcrop"</span>, param, Hcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00058"></a><span class="lineno"> 58</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hsize"</span>, param, Hsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00059"></a><span class="lineno"> 59</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Cpos"</span>, param, Cpos, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00060"></a><span class="lineno"> 60</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Csize"</span>, param, Csize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00061"></a><span class="lineno"> 61</span>  endif</div><div class="line"><a name="l00062"></a><span class="lineno"> 62</span> </div><div class="line"><a name="l00063"></a><span class="lineno"> 63</span>  <span class="keywordflow">return</span> v_flag</div><div class="line"><a name="l00064"></a><span class="lineno"> 64</span> };</div><div class="line"><a name="l00065"></a><span class="lineno"> 65</span> </div><div class="line"><a name="l00066"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#ae6877c51ad15c2ba8a69c65356cb34b8"> 66</a></span> <span class="keywordtype">string</span> <a class="code" href="pearl-scienta-preprocess_8ipf.html#ae6877c51ad15c2ba8a69c65356cb34b8">capture_int_linbg_cursors</a>(){</div><div class="line"><a name="l00067"></a><span class="lineno"> 67</span>  <span class="comment">// this function is for testing only, until we implement a proper interface</span></div><div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  <span class="keywordtype">string</span> param = <a class="code" href="pearl-scienta-preprocess_8ipf.html#a95fbd22f52f61d2bff0625b7b8e159d1">csr_int_linbg_reduction</a>(<span class="stringliteral">""</span>)</div><div class="line"><a name="l00069"></a><span class="lineno"> 69</span>  svar /z global_params = root:packages:pearl_explorer:s_reduction_params</div><div class="line"><a name="l00070"></a><span class="lineno"> 70</span>  <span class="keywordflow">if</span> (svar_exists(global_params))</div><div class="line"><a name="l00071"></a><span class="lineno"> 71</span>  global_params = param</div><div class="line"><a name="l00072"></a><span class="lineno"> 72</span>  endif</div><div class="line"><a name="l00073"></a><span class="lineno"> 73</span>  <span class="keywordflow">return</span> param</div><div class="line"><a name="l00074"></a><span class="lineno"> 74</span> };</div><div class="line"><a name="l00075"></a><span class="lineno"> 75</span> </div><div class="line"><a name="l00076"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a95fbd22f52f61d2bff0625b7b8e159d1"> 76</a></span> <span class="keywordtype">string</span> <a class="code" href="pearl-scienta-preprocess_8ipf.html#a95fbd22f52f61d2bff0625b7b8e159d1">csr_int_linbg_reduction</a>(<span class="keywordtype">string</span> win){</div><div class="line"><a name="l00077"></a><span class="lineno"> 77</span>  <span class="comment">// PRELIMINARY - function arguments may change</span></div><div class="line"><a name="l00078"></a><span class="lineno"> 78</span>  </div><div class="line"><a name="l00079"></a><span class="lineno"> 79</span>  <span class="comment">// sets reduction parameters from cursors in a graph.</span></div><div class="line"><a name="l00080"></a><span class="lineno"> 80</span>  <span class="comment">// an even number of cursors (2 or more) must be set on the image.</span></div><div class="line"><a name="l00081"></a><span class="lineno"> 81</span>  <span class="comment">// cursor names and order do not matter,</span></div><div class="line"><a name="l00082"></a><span class="lineno"> 82</span>  <span class="comment">// except that the alphabetically first cursor which is attached to an image selects the image.</span></div><div class="line"><a name="l00083"></a><span class="lineno"> 83</span>  <span class="comment">// the cursors mark the following positions, from innermost to outermost pair:</span></div><div class="line"><a name="l00084"></a><span class="lineno"> 84</span>  <span class="comment">// 1) low and high limits of peak region.</span></div><div class="line"><a name="l00085"></a><span class="lineno"> 85</span>  <span class="comment">// 2) peak-side boundary of lower and upper background region.</span></div><div class="line"><a name="l00086"></a><span class="lineno"> 86</span>  <span class="comment">// 3) lower and upper cropping region.</span></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="keywordtype">string</span> win</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="comment">// read all cursor positions</span></div><div class="line"><a name="l00091"></a><span class="lineno"> 91</span>  variable ic</div><div class="line"><a name="l00092"></a><span class="lineno"> 92</span>  <span class="keywordtype">string</span> sc</div><div class="line"><a name="l00093"></a><span class="lineno"> 93</span>  variable nc = 10</div><div class="line"><a name="l00094"></a><span class="lineno"> 94</span>  make /n=(nc) /free positions</div><div class="line"><a name="l00095"></a><span class="lineno"> 95</span>  variable np = 0</div><div class="line"><a name="l00096"></a><span class="lineno"> 96</span>  wave /z image = $<span class="stringliteral">""</span></div><div class="line"><a name="l00097"></a><span class="lineno"> 97</span>  <span class="keywordtype">string</span> imagename = <span class="stringliteral">""</span></div><div class="line"><a name="l00098"></a><span class="lineno"> 98</span>  <span class="keywordtype">string</span> tracename = <span class="stringliteral">""</span></div><div class="line"><a name="l00099"></a><span class="lineno"> 99</span>  <span class="keywordtype">string</span> info</div><div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  </div><div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  <span class="keywordflow">for</span> (ic = 0; ic < nc; ic += 1)</div><div class="line"><a name="l00102"></a><span class="lineno"> 102</span>  sc = num2char(char2num(<span class="stringliteral">"A"</span>) + ic)</div><div class="line"><a name="l00103"></a><span class="lineno"> 103</span>  wave /z wc = CsrWaveRef($sc, win)</div><div class="line"><a name="l00104"></a><span class="lineno"> 104</span>  info = CsrInfo($sc, win)</div><div class="line"><a name="l00105"></a><span class="lineno"> 105</span>  tracename = StringByKey(<span class="stringliteral">"TNAME"</span>, info, <span class="stringliteral">":"</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00106"></a><span class="lineno"> 106</span>  <span class="keywordflow">if</span> (waveexists(wc) && (wavedims(wc) == 2))</div><div class="line"><a name="l00107"></a><span class="lineno"> 107</span>  <span class="keywordflow">if</span> (!waveexists(image))</div><div class="line"><a name="l00108"></a><span class="lineno"> 108</span>  wave image = wc</div><div class="line"><a name="l00109"></a><span class="lineno"> 109</span>  imagename = tracename</div><div class="line"><a name="l00110"></a><span class="lineno"> 110</span>  endif</div><div class="line"><a name="l00111"></a><span class="lineno"> 111</span>  <span class="keywordflow">if</span> (cmpstr(tracename, imagename) == 0)</div><div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  positions[np] = pcsr($sc, win)</div><div class="line"><a name="l00113"></a><span class="lineno"> 113</span>  np += 1</div><div class="line"><a name="l00114"></a><span class="lineno"> 114</span>  endif</div><div class="line"><a name="l00115"></a><span class="lineno"> 115</span>  endif</div><div class="line"><a name="l00116"></a><span class="lineno"> 116</span>  endfor</div><div class="line"><a name="l00117"></a><span class="lineno"> 117</span> </div><div class="line"><a name="l00118"></a><span class="lineno"> 118</span>  np = floor(np / 2) * 2<span class="comment">// ignore odd cursor</span></div><div class="line"><a name="l00119"></a><span class="lineno"> 119</span>  redimension /n=(np) positions</div><div class="line"><a name="l00120"></a><span class="lineno"> 120</span>  sort positions, positions</div><div class="line"><a name="l00121"></a><span class="lineno"> 121</span>  <span class="comment">// shift upper positions by one so that the rightmost pixel becomes 1.0</span></div><div class="line"><a name="l00122"></a><span class="lineno"> 122</span>  positions = p >= np / 2 ? positions + 1 : positions</div><div class="line"><a name="l00123"></a><span class="lineno"> 123</span>  positions = positions / dimsize(image, 0)</div><div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  </div><div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  <span class="comment">// map innermost cursor pair to peak center and size</span></div><div class="line"><a name="l00126"></a><span class="lineno"> 126</span>  variable ip2 = np / 2</div><div class="line"><a name="l00127"></a><span class="lineno"> 127</span>  variable ip1 = ip2 - 1</div><div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  variable Cpos = (positions[ip1] + positions[ip2]) / 2</div><div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  variable Csize = positions[ip2] - positions[ip1]</div><div class="line"><a name="l00130"></a><span class="lineno"> 130</span>  <span class="keywordflow">if</span> (ip1 >= 0)</div><div class="line"><a name="l00131"></a><span class="lineno"> 131</span>  Cpos = (positions[ip1] + positions[ip2]) / 2</div><div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  Csize = positions[ip2] - positions[ip1]</div><div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00134"></a><span class="lineno"> 134</span>  <span class="comment">// default: a small region in the center</span></div><div class="line"><a name="l00135"></a><span class="lineno"> 135</span>  Cpos = 0.5</div><div class="line"><a name="l00136"></a><span class="lineno"> 136</span>  Csize = 0.2</div><div class="line"><a name="l00137"></a><span class="lineno"> 137</span>  endif</div><div class="line"><a name="l00138"></a><span class="lineno"> 138</span>  </div><div class="line"><a name="l00139"></a><span class="lineno"> 139</span>  <span class="comment">// background region</span></div><div class="line"><a name="l00140"></a><span class="lineno"> 140</span>  ip1 -= 1</div><div class="line"><a name="l00141"></a><span class="lineno"> 141</span>  ip2 += 1</div><div class="line"><a name="l00142"></a><span class="lineno"> 142</span>  variable Lsize</div><div class="line"><a name="l00143"></a><span class="lineno"> 143</span>  variable Hsize</div><div class="line"><a name="l00144"></a><span class="lineno"> 144</span>  <span class="keywordflow">if</span> (ip1 >= 0)</div><div class="line"><a name="l00145"></a><span class="lineno"> 145</span>  Lsize = positions[ip1]</div><div class="line"><a name="l00146"></a><span class="lineno"> 146</span>  Hsize = 1 - positions[ip2]</div><div class="line"><a name="l00147"></a><span class="lineno"> 147</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00148"></a><span class="lineno"> 148</span>  <span class="comment">// default: everything outside the peak region</span></div><div class="line"><a name="l00149"></a><span class="lineno"> 149</span>  Lsize = Cpos - Csize / 2</div><div class="line"><a name="l00150"></a><span class="lineno"> 150</span>  Hsize = 1 - (Cpos + Csize / 2)</div><div class="line"><a name="l00151"></a><span class="lineno"> 151</span>  endif</div><div class="line"><a name="l00152"></a><span class="lineno"> 152</span>  </div><div class="line"><a name="l00153"></a><span class="lineno"> 153</span>  <span class="comment">// crop region</span></div><div class="line"><a name="l00154"></a><span class="lineno"> 154</span>  ip1 -= 1</div><div class="line"><a name="l00155"></a><span class="lineno"> 155</span>  ip2 += 1</div><div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  variable Lcrop</div><div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  variable Hcrop</div><div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  <span class="keywordflow">if</span> (ip1 >= 0)</div><div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  Lcrop = positions[ip1]</div><div class="line"><a name="l00160"></a><span class="lineno"> 160</span>  Hcrop = 1 - positions[ip2]</div><div class="line"><a name="l00161"></a><span class="lineno"> 161</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  <span class="comment">// default: dead corners of the EW4000 at PEARL</span></div><div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  Lcrop = 0.11</div><div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  Hcrop = 0.11</div><div class="line"><a name="l00165"></a><span class="lineno"> 165</span>  endif</div><div class="line"><a name="l00166"></a><span class="lineno"> 166</span>  Lsize = max(Lsize - Lcrop, 0)</div><div class="line"><a name="l00167"></a><span class="lineno"> 167</span>  Hsize = max(Hsize - Hcrop, 0)</div><div class="line"><a name="l00168"></a><span class="lineno"> 168</span>  </div><div class="line"><a name="l00169"></a><span class="lineno"> 169</span>  <span class="keywordtype">string</span> param = <span class="stringliteral">""</span></div><div class="line"><a name="l00170"></a><span class="lineno"> 170</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lcrop"</span>, param, Lcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00171"></a><span class="lineno"> 171</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lsize"</span>, param, Lsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00172"></a><span class="lineno"> 172</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hcrop"</span>, param, Hcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00173"></a><span class="lineno"> 173</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hsize"</span>, param, Hsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00174"></a><span class="lineno"> 174</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Cpos"</span>, param, Cpos, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00175"></a><span class="lineno"> 175</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Csize"</span>, param, Csize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00176"></a><span class="lineno"> 176</span> </div><div class="line"><a name="l00177"></a><span class="lineno"> 177</span>  <span class="keywordflow">return</span> param</div><div class="line"><a name="l00178"></a><span class="lineno"> 178</span> };</div><div class="line"><a name="l00179"></a><span class="lineno"> 179</span> </div><div class="line"><a name="l00180"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a01fdc27931518dc988500b3cba409e57"> 180</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a01fdc27931518dc988500b3cba409e57">test_int_linbg</a>(wave image){</div><div class="line"><a name="l00181"></a><span class="lineno"> 181</span>  <span class="comment">// useful for testing or manual processing</span></div><div class="line"><a name="l00182"></a><span class="lineno"> 182</span>  <span class="comment">// since the int_linbg_reduction function cannot be called from the command line directly.</span></div><div class="line"><a name="l00183"></a><span class="lineno"> 183</span>  wave image</div><div class="line"><a name="l00184"></a><span class="lineno"> 184</span>  </div><div class="line"><a name="l00185"></a><span class="lineno"> 185</span>  <span class="keywordtype">string</span> param = <span class="stringliteral">""</span></div><div class="line"><a name="l00186"></a><span class="lineno"> 186</span>  <a class="code" href="pearl-scienta-preprocess_8ipf.html#a145c7275b8809c5e789b932ef46e4811">prompt_int_linbg_reduction</a>(param)</div><div class="line"><a name="l00187"></a><span class="lineno"> 187</span>  </div><div class="line"><a name="l00188"></a><span class="lineno"> 188</span>  <span class="keywordtype">string</span> data1_name = <span class="stringliteral">"test_data1"</span></div><div class="line"><a name="l00189"></a><span class="lineno"> 189</span>  <span class="keywordtype">string</span> data2_name = <span class="stringliteral">"test_data2"</span></div><div class="line"><a name="l00190"></a><span class="lineno"> 190</span>  duplicate /o image, $data1_name, $data2_name</div><div class="line"><a name="l00191"></a><span class="lineno"> 191</span>  wave w_data1 = $data1_name</div><div class="line"><a name="l00192"></a><span class="lineno"> 192</span>  wave w_data2 = $data2_name</div><div class="line"><a name="l00193"></a><span class="lineno"> 193</span>  </div><div class="line"><a name="l00194"></a><span class="lineno"> 194</span>  <a class="code" href="pearl-scienta-preprocess_8ipf.html#a4e5ae4a68d9caa4710db477d71e2b9e0">int_linbg_reduction</a>(image, w_data1, w_data2, param)</div><div class="line"><a name="l00195"></a><span class="lineno"> 195</span> };</div><div class="line"><a name="l00196"></a><span class="lineno"> 196</span> </div><div class="line"><a name="l00197"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a4e5ae4a68d9caa4710db477d71e2b9e0"> 197</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a4e5ae4a68d9caa4710db477d71e2b9e0">int_linbg_reduction</a>(wave source, wave dest1, wave dest2, <span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00198"></a><span class="lineno"> 198</span>  <span class="comment">// data reduction function for adh5_load_reduced_detector</span></div><div class="line"><a name="l00199"></a><span class="lineno"> 199</span>  <span class="comment">// calculates the average pixel value of each angular slice</span></div><div class="line"><a name="l00200"></a><span class="lineno"> 200</span>  <span class="comment">// in one center and two background intervals.</span></div><div class="line"><a name="l00201"></a><span class="lineno"> 201</span>  <span class="comment">// a background value is calculated at the center position </span></div><div class="line"><a name="l00202"></a><span class="lineno"> 202</span>  <span class="comment">// by linear interpolation from the two background values.</span></div><div class="line"><a name="l00203"></a><span class="lineno"> 203</span>  <span class="comment">// returns the center minus linear background in dest1.</span></div><div class="line"><a name="l00204"></a><span class="lineno"> 204</span>  <span class="comment">// returns the Poisson one-sigma error in dest2.</span></div><div class="line"><a name="l00205"></a><span class="lineno"> 205</span>  wave source<span class="comment">// source wave</span></div><div class="line"><a name="l00206"></a><span class="lineno"> 206</span>  <span class="comment">// Scienta detector image, energy axis along X, angle axis along Y</span></div><div class="line"><a name="l00207"></a><span class="lineno"> 207</span>  wave dest1, dest2<span class="comment">// destination waves</span></div><div class="line"><a name="l00208"></a><span class="lineno"> 208</span>  <span class="comment">// each wave is a one-dimensional intensity distribution</span></div><div class="line"><a name="l00209"></a><span class="lineno"> 209</span>  <span class="comment">// the function may redimension these waves to one of the image dimensions</span></div><div class="line"><a name="l00210"></a><span class="lineno"> 210</span>  <span class="comment">// (it must be clear to the user which dimension this is).</span></div><div class="line"><a name="l00211"></a><span class="lineno"> 211</span>  <span class="comment">// the meaning of dest1 and dest2 is up to the particular function,</span></div><div class="line"><a name="l00212"></a><span class="lineno"> 212</span>  <span class="comment">// e.g. dest1 could hold the mean value and dest2 the one-sigma error,</span></div><div class="line"><a name="l00213"></a><span class="lineno"> 213</span>  <span class="comment">// or dest1 could hold the X-profile, and dest2 the Y-profile.</span></div><div class="line"><a name="l00214"></a><span class="lineno"> 214</span>  <span class="keywordtype">string</span> &param<span class="comment">// parameters in a key1=value1;key2=value2;... list</span></div><div class="line"><a name="l00215"></a><span class="lineno"> 215</span>  <span class="comment">// all region parameters are relative to the image size (0...1)</span></div><div class="line"><a name="l00216"></a><span class="lineno"> 216</span>  <span class="comment">// Lcrop = size of the lower cropping region</span></div><div class="line"><a name="l00217"></a><span class="lineno"> 217</span>  <span class="comment">// Hcrop = size of the upper cropping region</span></div><div class="line"><a name="l00218"></a><span class="lineno"> 218</span>  <span class="comment">// Lsize = size of the lower background integration region</span></div><div class="line"><a name="l00219"></a><span class="lineno"> 219</span>  <span class="comment">// Hsize = size of the upper background integration region</span></div><div class="line"><a name="l00220"></a><span class="lineno"> 220</span>  <span class="comment">// Cpos = center position of the of the peak integration region</span></div><div class="line"><a name="l00221"></a><span class="lineno"> 221</span>  <span class="comment">// Csize = size of the peak integration region</span></div><div class="line"><a name="l00222"></a><span class="lineno"> 222</span>  </div><div class="line"><a name="l00223"></a><span class="lineno"> 223</span>  <span class="comment">// typical values (peak centered on detector, FWHM ~ 20 % of image)</span></div><div class="line"><a name="l00224"></a><span class="lineno"> 224</span>  <span class="comment">// Lcrop=0.11;Hcrop=0.11;Lsize=0.2;Hsize=0.2;Cpos=0.5;Csize=0.2</span></div><div class="line"><a name="l00225"></a><span class="lineno"> 225</span>  </div><div class="line"><a name="l00226"></a><span class="lineno"> 226</span>  variable nx = dimsize(source, 0)</div><div class="line"><a name="l00227"></a><span class="lineno"> 227</span>  variable ny = dimsize(source, 1)</div><div class="line"><a name="l00228"></a><span class="lineno"> 228</span>  </div><div class="line"><a name="l00229"></a><span class="lineno"> 229</span>  <span class="comment">// read parameters</span></div><div class="line"><a name="l00230"></a><span class="lineno"> 230</span>  variable lcrop = NumberByKey(<span class="stringliteral">"Lcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00231"></a><span class="lineno"> 231</span>  variable lsize = NumberByKey(<span class="stringliteral">"Lsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00232"></a><span class="lineno"> 232</span>  variable hcrop = NumberByKey(<span class="stringliteral">"Hcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00233"></a><span class="lineno"> 233</span>  variable hsize = NumberByKey(<span class="stringliteral">"Hsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00234"></a><span class="lineno"> 234</span>  variable cpos = NumberByKey(<span class="stringliteral">"Cpos"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00235"></a><span class="lineno"> 235</span>  variable csize = NumberByKey(<span class="stringliteral">"Csize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00236"></a><span class="lineno"> 236</span>  </div><div class="line"><a name="l00237"></a><span class="lineno"> 237</span>  <span class="comment">// validate parameters</span></div><div class="line"><a name="l00238"></a><span class="lineno"> 238</span>  <span class="comment">// background parameters are optional, center parameter is required.</span></div><div class="line"><a name="l00239"></a><span class="lineno"> 239</span>  <span class="keywordflow">if</span> (numtype(lcrop) != 0)</div><div class="line"><a name="l00240"></a><span class="lineno"> 240</span>  lcrop = 0</div><div class="line"><a name="l00241"></a><span class="lineno"> 241</span>  endif</div><div class="line"><a name="l00242"></a><span class="lineno"> 242</span>  <span class="keywordflow">if</span> (numtype(lsize) != 0)</div><div class="line"><a name="l00243"></a><span class="lineno"> 243</span>  lsize = 0</div><div class="line"><a name="l00244"></a><span class="lineno"> 244</span>  endif</div><div class="line"><a name="l00245"></a><span class="lineno"> 245</span>  <span class="keywordflow">if</span> (numtype(hcrop) != 0)</div><div class="line"><a name="l00246"></a><span class="lineno"> 246</span>  hcrop = 0</div><div class="line"><a name="l00247"></a><span class="lineno"> 247</span>  endif</div><div class="line"><a name="l00248"></a><span class="lineno"> 248</span>  <span class="keywordflow">if</span> (numtype(hsize) != 0)</div><div class="line"><a name="l00249"></a><span class="lineno"> 249</span>  hsize = 0</div><div class="line"><a name="l00250"></a><span class="lineno"> 250</span>  endif</div><div class="line"><a name="l00251"></a><span class="lineno"> 251</span>  <span class="keywordflow">if</span> (numtype(Cpos) != 0)</div><div class="line"><a name="l00252"></a><span class="lineno"> 252</span>  <span class="keywordflow">return</span> 1<span class="comment">// Cpos parameter missing</span></div><div class="line"><a name="l00253"></a><span class="lineno"> 253</span>  endif</div><div class="line"><a name="l00254"></a><span class="lineno"> 254</span>  <span class="keywordflow">if</span> (numtype(Csize) != 0)</div><div class="line"><a name="l00255"></a><span class="lineno"> 255</span>  <span class="keywordflow">return</span> 2<span class="comment">// Csize parameter missing</span></div><div class="line"><a name="l00256"></a><span class="lineno"> 256</span>  endif</div><div class="line"><a name="l00257"></a><span class="lineno"> 257</span> </div><div class="line"><a name="l00258"></a><span class="lineno"> 258</span>  variable lpos = lcrop + lsize / 2</div><div class="line"><a name="l00259"></a><span class="lineno"> 259</span>  variable hpos = 1 - (hcrop + hsize / 2)</div><div class="line"><a name="l00260"></a><span class="lineno"> 260</span> </div><div class="line"><a name="l00261"></a><span class="lineno"> 261</span>  variable p0</div><div class="line"><a name="l00262"></a><span class="lineno"> 262</span>  variable p1</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>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest1, 1)</div><div class="line"><a name="l00265"></a><span class="lineno"> 265</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest2, 1)</div><div class="line"><a name="l00266"></a><span class="lineno"> 266</span>  </div><div class="line"><a name="l00267"></a><span class="lineno"> 267</span>  duplicate /free dest1, lbg, hbg</div><div class="line"><a name="l00268"></a><span class="lineno"> 268</span>  <span class="keywordflow">if</span> (lsize > 0)</div><div class="line"><a name="l00269"></a><span class="lineno"> 269</span>  p0 = round(lcrop * nx)</div><div class="line"><a name="l00270"></a><span class="lineno"> 270</span>  p1 = round((lcrop + lsize) * nx)</div><div class="line"><a name="l00271"></a><span class="lineno"> 271</span>  <a class="code" href="pearl-area-profiles_8ipf.html#a8b09e13162fa47cc076e1e661e80b002">ad_profile_y_w</a>(source, p0, p1, lbg)</div><div class="line"><a name="l00272"></a><span class="lineno"> 272</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00273"></a><span class="lineno"> 273</span>  lbg = 0</div><div class="line"><a name="l00274"></a><span class="lineno"> 274</span>  endif</div><div class="line"><a name="l00275"></a><span class="lineno"> 275</span>  <span class="keywordflow">if</span> (hsize > 0)</div><div class="line"><a name="l00276"></a><span class="lineno"> 276</span>  p0 = round((1 - hcrop - hsize) * nx)</div><div class="line"><a name="l00277"></a><span class="lineno"> 277</span>  p1 = round((1 - hcrop) * nx)</div><div class="line"><a name="l00278"></a><span class="lineno"> 278</span>  <a class="code" href="pearl-area-profiles_8ipf.html#a8b09e13162fa47cc076e1e661e80b002">ad_profile_y_w</a>(source, p0, p1, hbg)</div><div class="line"><a name="l00279"></a><span class="lineno"> 279</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00280"></a><span class="lineno"> 280</span>  hbg = 0</div><div class="line"><a name="l00281"></a><span class="lineno"> 281</span>  endif</div><div class="line"><a name="l00282"></a><span class="lineno"> 282</span>  <span class="keywordflow">if</span> (csize > 0)</div><div class="line"><a name="l00283"></a><span class="lineno"> 283</span>  p0 = round((cpos - csize/2) * nx)</div><div class="line"><a name="l00284"></a><span class="lineno"> 284</span>  p1 = round((cpos + csize/2) * nx)</div><div class="line"><a name="l00285"></a><span class="lineno"> 285</span>  <a class="code" href="pearl-area-profiles_8ipf.html#a8b09e13162fa47cc076e1e661e80b002">ad_profile_y_w</a>(source, p0, p1, dest1)</div><div class="line"><a name="l00286"></a><span class="lineno"> 286</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00287"></a><span class="lineno"> 287</span>  dest1 = 0</div><div class="line"><a name="l00288"></a><span class="lineno"> 288</span>  endif</div><div class="line"><a name="l00289"></a><span class="lineno"> 289</span>  </div><div class="line"><a name="l00290"></a><span class="lineno"> 290</span>  variable scale = (cpos - lpos) / (hpos - lpos)</div><div class="line"><a name="l00291"></a><span class="lineno"> 291</span>  dest2 = dest1</div><div class="line"><a name="l00292"></a><span class="lineno"> 292</span>  dest1 -= scale * (hbg - lbg) + lbg</div><div class="line"><a name="l00293"></a><span class="lineno"> 293</span>  dest2 = sqrt(dest2 + scale^2 * (hbg + lbg))</div><div class="line"><a name="l00294"></a><span class="lineno"> 294</span>  <span class="keywordflow">return</span> 0<span class="comment">// return zero if successful, non-zero if an error occurs</span></div><div class="line"><a name="l00295"></a><span class="lineno"> 295</span> };</div><div class="line"><a name="l00296"></a><span class="lineno"> 296</span> </div><div class="line"><a name="l00297"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#ad9c09259aaaf32246fe9391dfb3e2c93"> 297</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#ad9c09259aaaf32246fe9391dfb3e2c93">test_shockley_anglefit</a>(wave image, variable branch){</div><div class="line"><a name="l00298"></a><span class="lineno"> 298</span>  <span class="comment">// apply the Shockley_anglefit function to a single image</span></div><div class="line"><a name="l00299"></a><span class="lineno"> 299</span>  <span class="comment">// useful for testing or manual processing</span></div><div class="line"><a name="l00300"></a><span class="lineno"> 300</span>  <span class="comment">// since the Shockley_anglefit function cannot be called from the command line directly.</span></div><div class="line"><a name="l00301"></a><span class="lineno"> 301</span>  wave image</div><div class="line"><a name="l00302"></a><span class="lineno"> 302</span>  variable branch<span class="comment">// +1 or -1</span></div><div class="line"><a name="l00303"></a><span class="lineno"> 303</span>  </div><div class="line"><a name="l00304"></a><span class="lineno"> 304</span>  <span class="keywordtype">string</span> param = <span class="stringliteral">""</span></div><div class="line"><a name="l00305"></a><span class="lineno"> 305</span>  param = ReplaceStringByKey(<span class="stringliteral">"branch"</span>, param, num2str(branch), <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00306"></a><span class="lineno"> 306</span>  </div><div class="line"><a name="l00307"></a><span class="lineno"> 307</span>  <span class="keywordtype">string</span> s_branch</div><div class="line"><a name="l00308"></a><span class="lineno"> 308</span>  <span class="keywordflow">if</span> (branch >= 0)</div><div class="line"><a name="l00309"></a><span class="lineno"> 309</span>  s_branch = <span class="stringliteral">"p"</span></div><div class="line"><a name="l00310"></a><span class="lineno"> 310</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00311"></a><span class="lineno"> 311</span>  s_branch = <span class="stringliteral">"n"</span></div><div class="line"><a name="l00312"></a><span class="lineno"> 312</span>  endif</div><div class="line"><a name="l00313"></a><span class="lineno"> 313</span>  <span class="keywordtype">string</span> pkpos_name = <span class="stringliteral">"saf_pkpos_"</span> + s_branch</div><div class="line"><a name="l00314"></a><span class="lineno"> 314</span>  <span class="keywordtype">string</span> pkwid_name = <span class="stringliteral">"saf_pkwid_"</span> + s_branch</div><div class="line"><a name="l00315"></a><span class="lineno"> 315</span>  duplicate /o image, $pkpos_name, $pkwid_name</div><div class="line"><a name="l00316"></a><span class="lineno"> 316</span>  wave w_pkpos = $pkpos_name</div><div class="line"><a name="l00317"></a><span class="lineno"> 317</span>  wave w_pkwid = $pkwid_name</div><div class="line"><a name="l00318"></a><span class="lineno"> 318</span>  </div><div class="line"><a name="l00319"></a><span class="lineno"> 319</span>  shockley_anglefit(image, w_pkpos, w_pkwid, param)</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> </div><div class="line"><a name="l00322"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#ab3e0823a6ec7d85e08276cd32d0ffd21"> 322</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#ab3e0823a6ec7d85e08276cd32d0ffd21">prompt_Shockley_anglefit</a>(<span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00323"></a><span class="lineno"> 323</span>  <span class="keywordtype">string</span> &param</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>  variable branch = NumberByKey(<span class="stringliteral">"branch"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</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>  prompt branch, <span class="stringliteral">"Branch (-1 or +1)"</span></div><div class="line"><a name="l00328"></a><span class="lineno"> 328</span>  </div><div class="line"><a name="l00329"></a><span class="lineno"> 329</span>  doprompt <span class="stringliteral">"Shockley_anglefit_reduction Parameters"</span>, branch</div><div class="line"><a name="l00330"></a><span class="lineno"> 330</span>  <span class="keywordflow">if</span> (v_flag == 0)</div><div class="line"><a name="l00331"></a><span class="lineno"> 331</span>  param = ReplaceNumberByKey(<span class="stringliteral">"branch"</span>, param, branch, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00332"></a><span class="lineno"> 332</span>  endif</div><div class="line"><a name="l00333"></a><span class="lineno"> 333</span> </div><div class="line"><a name="l00334"></a><span class="lineno"> 334</span>  <span class="keywordflow">return</span> v_flag</div><div class="line"><a name="l00335"></a><span class="lineno"> 335</span> };</div><div class="line"><a name="l00336"></a><span class="lineno"> 336</span> </div><div class="line"><a name="l00337"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#adc472d56286afd855109d561fbf633bd"> 337</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#adc472d56286afd855109d561fbf633bd">Shockley_anglefit</a>(wave source, wave dest1, wave dest2, <span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00338"></a><span class="lineno"> 338</span>  <span class="comment">// data reduction function for adh5_load_reduced_detector</span></div><div class="line"><a name="l00339"></a><span class="lineno"> 339</span>  <span class="comment">// specialized for analysing the Cu(111) Shockley surface state</span></div><div class="line"><a name="l00340"></a><span class="lineno"> 340</span>  <span class="comment">// do curve fitting of one branch of the surface state</span></div><div class="line"><a name="l00341"></a><span class="lineno"> 341</span>  <span class="comment">// the result is peak position versus energy</span></div><div class="line"><a name="l00342"></a><span class="lineno"> 342</span>  <span class="comment">// TODO: this function contains hard-coded parameters. please generalize as necessary.</span></div><div class="line"><a name="l00343"></a><span class="lineno"> 343</span>  wave source<span class="comment">// source wave</span></div><div class="line"><a name="l00344"></a><span class="lineno"> 344</span>  <span class="comment">// Scienta detector image, energy axis along X, angle axis along Y</span></div><div class="line"><a name="l00345"></a><span class="lineno"> 345</span>  <span class="comment">// the apex of the surface state must be at angle 0</span></div><div class="line"><a name="l00346"></a><span class="lineno"> 346</span>  wave dest1, dest2<span class="comment">// destination waves</span></div><div class="line"><a name="l00347"></a><span class="lineno"> 347</span>  <span class="comment">// dest1: peak position</span></div><div class="line"><a name="l00348"></a><span class="lineno"> 348</span>  <span class="comment">// dest2: peak width (sigma)</span></div><div class="line"><a name="l00349"></a><span class="lineno"> 349</span>  <span class="keywordtype">string</span> &param<span class="comment">// parameters in a key1=value1;key2=value2;... list</span></div><div class="line"><a name="l00350"></a><span class="lineno"> 350</span>  <span class="comment">// branch=-1 or +1: select negative (positive) angles for the fit interval, respectively</span></div><div class="line"><a name="l00351"></a><span class="lineno"> 351</span>  </div><div class="line"><a name="l00352"></a><span class="lineno"> 352</span>  variable nx = dimsize(source, 0)</div><div class="line"><a name="l00353"></a><span class="lineno"> 353</span>  variable ny = dimsize(source, 1)</div><div class="line"><a name="l00354"></a><span class="lineno"> 354</span>  </div><div class="line"><a name="l00355"></a><span class="lineno"> 355</span>  <span class="comment">// read parameters</span></div><div class="line"><a name="l00356"></a><span class="lineno"> 356</span>  variable branch = NumberByKey(<span class="stringliteral">"branch"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00357"></a><span class="lineno"> 357</span>  </div><div class="line"><a name="l00358"></a><span class="lineno"> 358</span>  <span class="comment">// validate parameters</span></div><div class="line"><a name="l00359"></a><span class="lineno"> 359</span>  <span class="keywordflow">if</span> (numtype(branch) != 0)</div><div class="line"><a name="l00360"></a><span class="lineno"> 360</span>  branch = +1</div><div class="line"><a name="l00361"></a><span class="lineno"> 361</span>  endif</div><div class="line"><a name="l00362"></a><span class="lineno"> 362</span> </div><div class="line"><a name="l00363"></a><span class="lineno"> 363</span>  <span class="comment">// prepare output</span></div><div class="line"><a name="l00364"></a><span class="lineno"> 364</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest1, 0)</div><div class="line"><a name="l00365"></a><span class="lineno"> 365</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest2, 0)</div><div class="line"><a name="l00366"></a><span class="lineno"> 366</span>  dest1 = nan</div><div class="line"><a name="l00367"></a><span class="lineno"> 367</span>  dest2 = nan</div><div class="line"><a name="l00368"></a><span class="lineno"> 368</span>  </div><div class="line"><a name="l00369"></a><span class="lineno"> 369</span>  <span class="comment">// select angle range</span></div><div class="line"><a name="l00370"></a><span class="lineno"> 370</span>  <span class="comment">// hard-coded for a particular measurement series</span></div><div class="line"><a name="l00371"></a><span class="lineno"> 371</span>  variable y0</div><div class="line"><a name="l00372"></a><span class="lineno"> 372</span>  variable y1</div><div class="line"><a name="l00373"></a><span class="lineno"> 373</span>  <span class="keywordflow">if</span> (branch < 0)</div><div class="line"><a name="l00374"></a><span class="lineno"> 374</span>  y0 = -5</div><div class="line"><a name="l00375"></a><span class="lineno"> 375</span>  y1 = 0</div><div class="line"><a name="l00376"></a><span class="lineno"> 376</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00377"></a><span class="lineno"> 377</span>  y0 = 0</div><div class="line"><a name="l00378"></a><span class="lineno"> 378</span>  y1 = 5</div><div class="line"><a name="l00379"></a><span class="lineno"> 379</span>  endif</div><div class="line"><a name="l00380"></a><span class="lineno"> 380</span>  </div><div class="line"><a name="l00381"></a><span class="lineno"> 381</span>  <span class="comment">// select energy range</span></div><div class="line"><a name="l00382"></a><span class="lineno"> 382</span>  <span class="comment">// start at the point of highest intensity and go up 0.45 eV</span></div><div class="line"><a name="l00383"></a><span class="lineno"> 383</span>  variable p0</div><div class="line"><a name="l00384"></a><span class="lineno"> 384</span>  variable p1</div><div class="line"><a name="l00385"></a><span class="lineno"> 385</span>  variable q0</div><div class="line"><a name="l00386"></a><span class="lineno"> 386</span>  variable q1</div><div class="line"><a name="l00387"></a><span class="lineno"> 387</span>  duplicate /free dest1, center</div><div class="line"><a name="l00388"></a><span class="lineno"> 388</span>  q0 = round((y0 - dimoffset(source, 1)) / dimdelta(source, 1))</div><div class="line"><a name="l00389"></a><span class="lineno"> 389</span>  q1 = round((y1 - dimoffset(source, 1)) / dimdelta(source, 1))</div><div class="line"><a name="l00390"></a><span class="lineno"> 390</span>  <a class="code" href="pearl-area-profiles_8ipf.html#aa40fd5049f993e72fd52a66a6cdde7cc">ad_profile_x_w</a>(source, q0, q1, center)</div><div class="line"><a name="l00391"></a><span class="lineno"> 391</span>  wavestats /q/m=1 center</div><div class="line"><a name="l00392"></a><span class="lineno"> 392</span>  p0 = round((v_maxloc - dimoffset(source, 0)) / dimdelta(source, 0))</div><div class="line"><a name="l00393"></a><span class="lineno"> 393</span>  p1 = round((v_maxloc + 0.4 - dimoffset(source, 0)) / dimdelta(source, 0))</div><div class="line"><a name="l00394"></a><span class="lineno"> 394</span>  </div><div class="line"><a name="l00395"></a><span class="lineno"> 395</span>  <span class="comment">// prepare intermediate data buffer</span></div><div class="line"><a name="l00396"></a><span class="lineno"> 396</span>  make /n=(ny)/d/free profile</div><div class="line"><a name="l00397"></a><span class="lineno"> 397</span>  setscale /p x dimoffset(source,1), dimdelta(source,1), waveunits(source,1), profile</div><div class="line"><a name="l00398"></a><span class="lineno"> 398</span>  </div><div class="line"><a name="l00399"></a><span class="lineno"> 399</span>  variable pp</div><div class="line"><a name="l00400"></a><span class="lineno"> 400</span>  <span class="keywordflow">for</span> (pp = p0; pp <= p1; pp += 1)</div><div class="line"><a name="l00401"></a><span class="lineno"> 401</span>  profile = source[pp][p]</div><div class="line"><a name="l00402"></a><span class="lineno"> 402</span>  curvefit /Q /NTHR=1 /W=2 gauss profile(y0,y1)</div><div class="line"><a name="l00403"></a><span class="lineno"> 403</span>  wave w_coef</div><div class="line"><a name="l00404"></a><span class="lineno"> 404</span>  dest1[pp] = w_coef[2]</div><div class="line"><a name="l00405"></a><span class="lineno"> 405</span>  dest2[pp] = w_coef[3]</div><div class="line"><a name="l00406"></a><span class="lineno"> 406</span>  endfor</div><div class="line"><a name="l00407"></a><span class="lineno"> 407</span>  <span class="keywordflow">return</span> 0<span class="comment">// return zero if successful, non-zero if an error occurs</span></div><div class="line"><a name="l00408"></a><span class="lineno"> 408</span> };</div><div class="line"><a name="l00409"></a><span class="lineno"> 409</span> </div><div class="line"><a name="l00410"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a6d06ea5a11ba79160efeea7fe673af8c"> 410</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a6d06ea5a11ba79160efeea7fe673af8c">prompt_int_quadbg_reduction</a>(<span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00411"></a><span class="lineno"> 411</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00412"></a><span class="lineno"> 412</span> </div><div class="line"><a name="l00413"></a><span class="lineno"> 413</span>  variable Lcrop = NumberByKey(<span class="stringliteral">"Lcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00414"></a><span class="lineno"> 414</span>  variable Lsize = NumberByKey(<span class="stringliteral">"Lsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00415"></a><span class="lineno"> 415</span>  variable Hcrop = NumberByKey(<span class="stringliteral">"Hcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00416"></a><span class="lineno"> 416</span>  variable Hsize = NumberByKey(<span class="stringliteral">"Hsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00417"></a><span class="lineno"> 417</span>  variable Cpos = NumberByKey(<span class="stringliteral">"Cpos"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00418"></a><span class="lineno"> 418</span>  variable Csize = NumberByKey(<span class="stringliteral">"Csize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00419"></a><span class="lineno"> 419</span>  </div><div class="line"><a name="l00420"></a><span class="lineno"> 420</span>  prompt Lcrop, <span class="stringliteral">"Lower cropping region"</span></div><div class="line"><a name="l00421"></a><span class="lineno"> 421</span>  prompt Hcrop, <span class="stringliteral">"Upper cropping region"</span></div><div class="line"><a name="l00422"></a><span class="lineno"> 422</span>  prompt Lsize, <span class="stringliteral">"Lower background region"</span></div><div class="line"><a name="l00423"></a><span class="lineno"> 423</span>  prompt Hsize, <span class="stringliteral">"Upper background region"</span></div><div class="line"><a name="l00424"></a><span class="lineno"> 424</span>  prompt Cpos, <span class="stringliteral">"Center position"</span></div><div class="line"><a name="l00425"></a><span class="lineno"> 425</span>  prompt Csize, <span class="stringliteral">"Center integration region"</span></div><div class="line"><a name="l00426"></a><span class="lineno"> 426</span>  </div><div class="line"><a name="l00427"></a><span class="lineno"> 427</span>  doprompt <span class="stringliteral">"int_quadbg_reduction Parameters"</span>, lcrop, hcrop, lsize, hsize, cpos, csize</div><div class="line"><a name="l00428"></a><span class="lineno"> 428</span>  <span class="keywordflow">if</span> (v_flag == 0)</div><div class="line"><a name="l00429"></a><span class="lineno"> 429</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lcrop"</span>, param, Lcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00430"></a><span class="lineno"> 430</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lsize"</span>, param, Lsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00431"></a><span class="lineno"> 431</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hcrop"</span>, param, Hcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00432"></a><span class="lineno"> 432</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hsize"</span>, param, Hsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00433"></a><span class="lineno"> 433</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Cpos"</span>, param, Cpos, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00434"></a><span class="lineno"> 434</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Csize"</span>, param, Csize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00435"></a><span class="lineno"> 435</span>  endif</div><div class="line"><a name="l00436"></a><span class="lineno"> 436</span> </div><div class="line"><a name="l00437"></a><span class="lineno"> 437</span>  <span class="keywordflow">return</span> v_flag</div><div class="line"><a name="l00438"></a><span class="lineno"> 438</span> };</div><div class="line"><a name="l00439"></a><span class="lineno"> 439</span> </div><div class="line"><a name="l00440"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a1b1f473b96119afa602759a51e0c5b4c"> 440</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a1b1f473b96119afa602759a51e0c5b4c">test_int_quadbg</a>(wave image){</div><div class="line"><a name="l00441"></a><span class="lineno"> 441</span>  <span class="comment">// useful for testing or manual processing</span></div><div class="line"><a name="l00442"></a><span class="lineno"> 442</span>  <span class="comment">// since the int_quadbg_reduction function cannot be called from the command line directly.</span></div><div class="line"><a name="l00443"></a><span class="lineno"> 443</span>  wave image</div><div class="line"><a name="l00444"></a><span class="lineno"> 444</span>  </div><div class="line"><a name="l00445"></a><span class="lineno"> 445</span>  <span class="keywordtype">string</span> param = <span class="stringliteral">""</span></div><div class="line"><a name="l00446"></a><span class="lineno"> 446</span>  <a class="code" href="pearl-scienta-preprocess_8ipf.html#a6d06ea5a11ba79160efeea7fe673af8c">prompt_int_quadbg_reduction</a>(param)</div><div class="line"><a name="l00447"></a><span class="lineno"> 447</span>  </div><div class="line"><a name="l00448"></a><span class="lineno"> 448</span>  <span class="keywordtype">string</span> data1_name = <span class="stringliteral">"test_data1"</span></div><div class="line"><a name="l00449"></a><span class="lineno"> 449</span>  <span class="keywordtype">string</span> data2_name = <span class="stringliteral">"test_data2"</span></div><div class="line"><a name="l00450"></a><span class="lineno"> 450</span>  duplicate /o image, $data1_name, $data2_name</div><div class="line"><a name="l00451"></a><span class="lineno"> 451</span>  wave w_data1 = $data1_name</div><div class="line"><a name="l00452"></a><span class="lineno"> 452</span>  wave w_data2 = $data2_name</div><div class="line"><a name="l00453"></a><span class="lineno"> 453</span>  </div><div class="line"><a name="l00454"></a><span class="lineno"> 454</span>  <a class="code" href="pearl-scienta-preprocess_8ipf.html#aa5ac074dd3e405d13d3c4401d96e4743">int_quadbg_reduction</a>(image, w_data1, w_data2, param)</div><div class="line"><a name="l00455"></a><span class="lineno"> 455</span> };</div><div class="line"><a name="l00456"></a><span class="lineno"> 456</span> </div><div class="line"><a name="l00457"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#aa5ac074dd3e405d13d3c4401d96e4743"> 457</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#aa5ac074dd3e405d13d3c4401d96e4743">int_quadbg_reduction</a>(wave source, wave dest1, wave dest2, <span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00458"></a><span class="lineno"> 458</span>  <span class="comment">// data reduction function for adh5_load_reduced_detector</span></div><div class="line"><a name="l00459"></a><span class="lineno"> 459</span>  <span class="comment">// integrates peak area minus a quadratic backgrouind</span></div><div class="line"><a name="l00460"></a><span class="lineno"> 460</span>  wave source<span class="comment">// source wave</span></div><div class="line"><a name="l00461"></a><span class="lineno"> 461</span>  <span class="comment">// Scienta detector image, energy axis along X, angle axis along Y</span></div><div class="line"><a name="l00462"></a><span class="lineno"> 462</span>  wave dest1, dest2<span class="comment">// destination waves</span></div><div class="line"><a name="l00463"></a><span class="lineno"> 463</span>  <span class="keywordtype">string</span> &param<span class="comment">// parameters in a key1=value1;key2=value2;... list</span></div><div class="line"><a name="l00464"></a><span class="lineno"> 464</span>  <span class="comment">// all region parameters are relative to the image size (0...1)</span></div><div class="line"><a name="l00465"></a><span class="lineno"> 465</span>  <span class="comment">// Lcrop = size of the lower cropping region</span></div><div class="line"><a name="l00466"></a><span class="lineno"> 466</span>  <span class="comment">// Hcrop = size of the upper cropping region</span></div><div class="line"><a name="l00467"></a><span class="lineno"> 467</span>  <span class="comment">// Lsize = size of the lower background integration region</span></div><div class="line"><a name="l00468"></a><span class="lineno"> 468</span>  <span class="comment">// Hsize = size of the upper background integration region</span></div><div class="line"><a name="l00469"></a><span class="lineno"> 469</span>  <span class="comment">// Cpos = center position of the of the peak integration region</span></div><div class="line"><a name="l00470"></a><span class="lineno"> 470</span>  <span class="comment">// Csize = size of the peak integration region</span></div><div class="line"><a name="l00471"></a><span class="lineno"> 471</span>  </div><div class="line"><a name="l00472"></a><span class="lineno"> 472</span>  <span class="comment">// typical values (peak centered on detector, FWHM ~ 20 % of image)</span></div><div class="line"><a name="l00473"></a><span class="lineno"> 473</span>  <span class="comment">// Lcrop=0.11;Hcrop=0.11;Lsize=0.2;Hsize=0.2;Cpos=0.5;Csize=0.2</span></div><div class="line"><a name="l00474"></a><span class="lineno"> 474</span>  </div><div class="line"><a name="l00475"></a><span class="lineno"> 475</span>  variable nx = dimsize(source, 0)</div><div class="line"><a name="l00476"></a><span class="lineno"> 476</span>  variable ny = dimsize(source, 1)</div><div class="line"><a name="l00477"></a><span class="lineno"> 477</span>  </div><div class="line"><a name="l00478"></a><span class="lineno"> 478</span>  <span class="comment">// read parameters</span></div><div class="line"><a name="l00479"></a><span class="lineno"> 479</span>  variable lcrop = NumberByKey(<span class="stringliteral">"Lcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00480"></a><span class="lineno"> 480</span>  variable lsize = NumberByKey(<span class="stringliteral">"Lsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00481"></a><span class="lineno"> 481</span>  variable hcrop = NumberByKey(<span class="stringliteral">"Hcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00482"></a><span class="lineno"> 482</span>  variable hsize = NumberByKey(<span class="stringliteral">"Hsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00483"></a><span class="lineno"> 483</span>  variable cpos = NumberByKey(<span class="stringliteral">"Cpos"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00484"></a><span class="lineno"> 484</span>  variable csize = NumberByKey(<span class="stringliteral">"Csize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00485"></a><span class="lineno"> 485</span>  </div><div class="line"><a name="l00486"></a><span class="lineno"> 486</span>  <span class="comment">// validate parameters</span></div><div class="line"><a name="l00487"></a><span class="lineno"> 487</span>  <span class="comment">// background parameters are optional, center parameter is required.</span></div><div class="line"><a name="l00488"></a><span class="lineno"> 488</span>  <span class="keywordflow">if</span> (numtype(lcrop) != 0)</div><div class="line"><a name="l00489"></a><span class="lineno"> 489</span>  lcrop = 0</div><div class="line"><a name="l00490"></a><span class="lineno"> 490</span>  endif</div><div class="line"><a name="l00491"></a><span class="lineno"> 491</span>  <span class="keywordflow">if</span> (numtype(lsize) != 0)</div><div class="line"><a name="l00492"></a><span class="lineno"> 492</span>  lsize = 0</div><div class="line"><a name="l00493"></a><span class="lineno"> 493</span>  endif</div><div class="line"><a name="l00494"></a><span class="lineno"> 494</span>  <span class="keywordflow">if</span> (numtype(hcrop) != 0)</div><div class="line"><a name="l00495"></a><span class="lineno"> 495</span>  hcrop = 0</div><div class="line"><a name="l00496"></a><span class="lineno"> 496</span>  endif</div><div class="line"><a name="l00497"></a><span class="lineno"> 497</span>  <span class="keywordflow">if</span> (numtype(hsize) != 0)</div><div class="line"><a name="l00498"></a><span class="lineno"> 498</span>  hsize = 0</div><div class="line"><a name="l00499"></a><span class="lineno"> 499</span>  endif</div><div class="line"><a name="l00500"></a><span class="lineno"> 500</span>  <span class="keywordflow">if</span> (numtype(Cpos) != 0)</div><div class="line"><a name="l00501"></a><span class="lineno"> 501</span>  <span class="keywordflow">return</span> 1<span class="comment">// Cpos parameter missing</span></div><div class="line"><a name="l00502"></a><span class="lineno"> 502</span>  endif</div><div class="line"><a name="l00503"></a><span class="lineno"> 503</span>  <span class="keywordflow">if</span> (numtype(Csize) != 0)</div><div class="line"><a name="l00504"></a><span class="lineno"> 504</span>  <span class="keywordflow">return</span> 2<span class="comment">// Csize parameter missing</span></div><div class="line"><a name="l00505"></a><span class="lineno"> 505</span>  endif</div><div class="line"><a name="l00506"></a><span class="lineno"> 506</span> </div><div class="line"><a name="l00507"></a><span class="lineno"> 507</span>  <span class="comment">// crop boundaries</span></div><div class="line"><a name="l00508"></a><span class="lineno"> 508</span>  variable pcl = round(lcrop * nx)</div><div class="line"><a name="l00509"></a><span class="lineno"> 509</span>  variable pch = round((1 - hcrop) * nx)</div><div class="line"><a name="l00510"></a><span class="lineno"> 510</span>  <span class="comment">// fit boundaries</span></div><div class="line"><a name="l00511"></a><span class="lineno"> 511</span>  variable pfl = round((lcrop + lsize) * nx)</div><div class="line"><a name="l00512"></a><span class="lineno"> 512</span>  variable pfh = round((1 - hcrop - hsize) * nx)</div><div class="line"><a name="l00513"></a><span class="lineno"> 513</span>  <span class="comment">// integration boundaries</span></div><div class="line"><a name="l00514"></a><span class="lineno"> 514</span>  variable pil = round((cpos - csize/2) * nx)</div><div class="line"><a name="l00515"></a><span class="lineno"> 515</span>  variable pih = round((cpos + csize/2) * nx)</div><div class="line"><a name="l00516"></a><span class="lineno"> 516</span>  </div><div class="line"><a name="l00517"></a><span class="lineno"> 517</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest1, 0)</div><div class="line"><a name="l00518"></a><span class="lineno"> 518</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest2, 0)</div><div class="line"><a name="l00519"></a><span class="lineno"> 519</span>  </div><div class="line"><a name="l00520"></a><span class="lineno"> 520</span>  <span class="comment">// prepare intermediate data buffer</span></div><div class="line"><a name="l00521"></a><span class="lineno"> 521</span>  make /n=(nx) /d /free profile, mask, fit</div><div class="line"><a name="l00522"></a><span class="lineno"> 522</span>  setscale /p x dimoffset(source,0), dimdelta(source,0), waveunits(source,0), profile, mask, fit</div><div class="line"><a name="l00523"></a><span class="lineno"> 523</span>  mask = ((p >= pcl) && (p < pfl)) || ((p >= pfh) && (p < pch))</div><div class="line"><a name="l00524"></a><span class="lineno"> 524</span>  </div><div class="line"><a name="l00525"></a><span class="lineno"> 525</span>  variable qq</div><div class="line"><a name="l00526"></a><span class="lineno"> 526</span>  variable sp, sf</div><div class="line"><a name="l00527"></a><span class="lineno"> 527</span>  variable xil = x2pnt(profile, pil)</div><div class="line"><a name="l00528"></a><span class="lineno"> 528</span>  variable xih = x2pnt(profile, pih)</div><div class="line"><a name="l00529"></a><span class="lineno"> 529</span>  </div><div class="line"><a name="l00530"></a><span class="lineno"> 530</span>  make /n=3 /free /d w_coef</div><div class="line"><a name="l00531"></a><span class="lineno"> 531</span>  <span class="keywordflow">for</span> (qq = 0; qq < ny; qq += 1)</div><div class="line"><a name="l00532"></a><span class="lineno"> 532</span>  profile = source[p][qq]</div><div class="line"><a name="l00533"></a><span class="lineno"> 533</span>  curvefit /Q /NTHR=1 /W=2 poly 3, kwCWave=w_coef, profile /M=mask</div><div class="line"><a name="l00534"></a><span class="lineno"> 534</span>  fit = poly(w_coef, x)</div><div class="line"><a name="l00535"></a><span class="lineno"> 535</span>  sp = sum(profile, xil, xih)</div><div class="line"><a name="l00536"></a><span class="lineno"> 536</span>  sf = sum(fit, xil, xih)</div><div class="line"><a name="l00537"></a><span class="lineno"> 537</span>  dest1[qq] = sp - sf</div><div class="line"><a name="l00538"></a><span class="lineno"> 538</span>  dest2[qq] = sqrt(sp)</div><div class="line"><a name="l00539"></a><span class="lineno"> 539</span>  endfor</div><div class="line"><a name="l00540"></a><span class="lineno"> 540</span>  </div><div class="line"><a name="l00541"></a><span class="lineno"> 541</span>  <span class="keywordflow">return</span> 0<span class="comment">// return zero if successful, non-zero if an error occurs</span></div><div class="line"><a name="l00542"></a><span class="lineno"> 542</span> };</div><div class="line"><a name="l00543"></a><span class="lineno"> 543</span> </div><div class="line"><a name="l00544"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a09ae6058d39d76a59c862e945d512fa8"> 544</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a09ae6058d39d76a59c862e945d512fa8">scienta_norm</a>(wave w, variable x){</div><div class="line"><a name="l00545"></a><span class="lineno"> 545</span>  wave w</div><div class="line"><a name="l00546"></a><span class="lineno"> 546</span>  variable x</div><div class="line"><a name="l00547"></a><span class="lineno"> 547</span>  </div><div class="line"><a name="l00548"></a><span class="lineno"> 548</span>  <span class="keywordflow">return</span> w[0] * (x^2 - w[1]^2)</div><div class="line"><a name="l00549"></a><span class="lineno"> 549</span> };</div><div class="line"><a name="l00550"></a><span class="lineno"> 550</span> </div><div class="line"><a name="l00551"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a8536a1da8aa85e34370f384ad2ee0d5e"> 551</a></span> wave <a class="code" href="pearl-scienta-preprocess_8ipf.html#a8536a1da8aa85e34370f384ad2ee0d5e">fit_scienta_ang_transm</a>(wave data, wave params){</div><div class="line"><a name="l00552"></a><span class="lineno"> 552</span>  wave data<span class="comment">// measured angular distribution (1D)</span></div><div class="line"><a name="l00553"></a><span class="lineno"> 553</span>  wave /z params</div><div class="line"><a name="l00554"></a><span class="lineno"> 554</span>  </div><div class="line"><a name="l00555"></a><span class="lineno"> 555</span>  <span class="keywordflow">if</span> (!waveexists(params))</div><div class="line"><a name="l00556"></a><span class="lineno"> 556</span>  make /n=12 /o params</div><div class="line"><a name="l00557"></a><span class="lineno"> 557</span>  endif</div><div class="line"><a name="l00558"></a><span class="lineno"> 558</span>  redimension /n=12/d params</div><div class="line"><a name="l00559"></a><span class="lineno"> 559</span>  </div><div class="line"><a name="l00560"></a><span class="lineno"> 560</span>  variable h = wavemax(data) - wavemin(data)</div><div class="line"><a name="l00561"></a><span class="lineno"> 561</span>  params[0] = h / 2</div><div class="line"><a name="l00562"></a><span class="lineno"> 562</span>  params[1] = 0</div><div class="line"><a name="l00563"></a><span class="lineno"> 563</span>  params[2] = 7</div><div class="line"><a name="l00564"></a><span class="lineno"> 564</span>  params[3] = h / 4</div><div class="line"><a name="l00565"></a><span class="lineno"> 565</span>  params[4] = -23</div><div class="line"><a name="l00566"></a><span class="lineno"> 566</span>  params[5] = 4</div><div class="line"><a name="l00567"></a><span class="lineno"> 567</span>  params[6] = h / 4</div><div class="line"><a name="l00568"></a><span class="lineno"> 568</span>  params[7] = +23</div><div class="line"><a name="l00569"></a><span class="lineno"> 569</span>  params[8] = 4</div><div class="line"><a name="l00570"></a><span class="lineno"> 570</span>  params[9] = h / 2</div><div class="line"><a name="l00571"></a><span class="lineno"> 571</span>  params[10] = 0</div><div class="line"><a name="l00572"></a><span class="lineno"> 572</span>  params[11] = -0.001</div><div class="line"><a name="l00573"></a><span class="lineno"> 573</span>  FuncFit /NTHR=0 /q <a class="code" href="pearl-scienta-preprocess_8ipf.html#a26f46acd339fb483ce9792e06170c189">scienta_ang_transm</a> params data</div><div class="line"><a name="l00574"></a><span class="lineno"> 574</span>  </div><div class="line"><a name="l00575"></a><span class="lineno"> 575</span>  <span class="keywordflow">return</span> params</div><div class="line"><a name="l00576"></a><span class="lineno"> 576</span> };</div><div class="line"><a name="l00577"></a><span class="lineno"> 577</span> </div><div class="line"><a name="l00578"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a26f46acd339fb483ce9792e06170c189"> 578</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a26f46acd339fb483ce9792e06170c189">scienta_ang_transm</a>(wave w, variable x){</div><div class="line"><a name="l00579"></a><span class="lineno"> 579</span>  <span class="comment">// parameterized angular transmission function of the analyser</span></div><div class="line"><a name="l00580"></a><span class="lineno"> 580</span>  wave w<span class="comment">// coefficients</span></div><div class="line"><a name="l00581"></a><span class="lineno"> 581</span>  <span class="comment">// w[0] = amplitude gauss 1</span></div><div class="line"><a name="l00582"></a><span class="lineno"> 582</span>  <span class="comment">// w[1] = position gauss 1</span></div><div class="line"><a name="l00583"></a><span class="lineno"> 583</span>  <span class="comment">// w[2] = width gauss 1</span></div><div class="line"><a name="l00584"></a><span class="lineno"> 584</span>  <span class="comment">// w[3] = amplitude gauss 2</span></div><div class="line"><a name="l00585"></a><span class="lineno"> 585</span>  <span class="comment">// w[4] = position gauss 2</span></div><div class="line"><a name="l00586"></a><span class="lineno"> 586</span>  <span class="comment">// w[5] = width gauss 2</span></div><div class="line"><a name="l00587"></a><span class="lineno"> 587</span>  <span class="comment">// w[6] = amplitude gauss 3</span></div><div class="line"><a name="l00588"></a><span class="lineno"> 588</span>  <span class="comment">// w[7] = position gauss 3</span></div><div class="line"><a name="l00589"></a><span class="lineno"> 589</span>  <span class="comment">// w[8] = width gauss 3</span></div><div class="line"><a name="l00590"></a><span class="lineno"> 590</span>  <span class="comment">// w[9] = constant background</span></div><div class="line"><a name="l00591"></a><span class="lineno"> 591</span>  <span class="comment">// w[10] = linear background</span></div><div class="line"><a name="l00592"></a><span class="lineno"> 592</span>  <span class="comment">// w[11] = quadratic background</span></div><div class="line"><a name="l00593"></a><span class="lineno"> 593</span>  variable x</div><div class="line"><a name="l00594"></a><span class="lineno"> 594</span>  </div><div class="line"><a name="l00595"></a><span class="lineno"> 595</span>  make /free /n=4 /d w_int</div><div class="line"><a name="l00596"></a><span class="lineno"> 596</span>  w_int[0] = 0</div><div class="line"><a name="l00597"></a><span class="lineno"> 597</span>  w_int[1,] = w[p - 1]</div><div class="line"><a name="l00598"></a><span class="lineno"> 598</span>  variable pk1 = gauss1d(w_int, x)</div><div class="line"><a name="l00599"></a><span class="lineno"> 599</span>  w_int[1,] = w[p + 2]</div><div class="line"><a name="l00600"></a><span class="lineno"> 600</span>  variable pk2 = gauss1d(w_int, x)</div><div class="line"><a name="l00601"></a><span class="lineno"> 601</span>  w_int[1,] = w[p + 5]</div><div class="line"><a name="l00602"></a><span class="lineno"> 602</span>  variable pk3 = gauss1d(w_int, x)</div><div class="line"><a name="l00603"></a><span class="lineno"> 603</span>  w_int[0,2] = w[9 + p]</div><div class="line"><a name="l00604"></a><span class="lineno"> 604</span>  w_int[3] = 0</div><div class="line"><a name="l00605"></a><span class="lineno"> 605</span>  variable bg = poly(w_int, x)</div><div class="line"><a name="l00606"></a><span class="lineno"> 606</span>  </div><div class="line"><a name="l00607"></a><span class="lineno"> 607</span>  <span class="keywordflow">return</span> bg + pk1 + pk2 + pk3</div><div class="line"><a name="l00608"></a><span class="lineno"> 608</span> };</div><div class="line"><a name="l00609"></a><span class="lineno"> 609</span> </div><div class="line"><a name="l00610"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a4f850a816852a1d0e22deaf894765c2c"> 610</a></span> wave <a class="code" href="pearl-scienta-preprocess_8ipf.html#a4f850a816852a1d0e22deaf894765c2c">fit_scienta_poly_bg</a>(wave data, wave params, variable bgterms){</div><div class="line"><a name="l00611"></a><span class="lineno"> 611</span>  wave data<span class="comment">// measured distribution (2D)</span></div><div class="line"><a name="l00612"></a><span class="lineno"> 612</span>  wave /z params<span class="comment">// wave, will be redimensioned for the correct size</span></div><div class="line"><a name="l00613"></a><span class="lineno"> 613</span>  variable bgterms<span class="comment">// number of terms in the polynomial background: 2, 3, or 4</span></div><div class="line"><a name="l00614"></a><span class="lineno"> 614</span>  </div><div class="line"><a name="l00615"></a><span class="lineno"> 615</span>  <span class="keywordflow">if</span> (!waveexists(params))</div><div class="line"><a name="l00616"></a><span class="lineno"> 616</span>  make /n=15 /o params</div><div class="line"><a name="l00617"></a><span class="lineno"> 617</span>  endif</div><div class="line"><a name="l00618"></a><span class="lineno"> 618</span>  redimension /n=15 /d params</div><div class="line"><a name="l00619"></a><span class="lineno"> 619</span>  </div><div class="line"><a name="l00620"></a><span class="lineno"> 620</span>  variable wmax = wavemax(data)</div><div class="line"><a name="l00621"></a><span class="lineno"> 621</span>  variable wmin = wavemin(data)</div><div class="line"><a name="l00622"></a><span class="lineno"> 622</span>  params[0] = 0</div><div class="line"><a name="l00623"></a><span class="lineno"> 623</span>  params[1] = 7</div><div class="line"><a name="l00624"></a><span class="lineno"> 624</span>  params[2] = 1 / 2</div><div class="line"><a name="l00625"></a><span class="lineno"> 625</span>  params[3] = -23</div><div class="line"><a name="l00626"></a><span class="lineno"> 626</span>  params[4] = 4</div><div class="line"><a name="l00627"></a><span class="lineno"> 627</span>  params[5] = 1 / 2</div><div class="line"><a name="l00628"></a><span class="lineno"> 628</span>  params[6] = +23</div><div class="line"><a name="l00629"></a><span class="lineno"> 629</span>  params[7] = 4</div><div class="line"><a name="l00630"></a><span class="lineno"> 630</span>  params[8] = 1</div><div class="line"><a name="l00631"></a><span class="lineno"> 631</span>  params[9] = 0</div><div class="line"><a name="l00632"></a><span class="lineno"> 632</span>  params[10] = -0.001</div><div class="line"><a name="l00633"></a><span class="lineno"> 633</span>  params[11] = wmin</div><div class="line"><a name="l00634"></a><span class="lineno"> 634</span>  params[12] = (wmax - wmin) / dimdelta(data,1) / dimsize(data,1)</div><div class="line"><a name="l00635"></a><span class="lineno"> 635</span>  params[13] = 0</div><div class="line"><a name="l00636"></a><span class="lineno"> 636</span>  params[14] = 0</div><div class="line"><a name="l00637"></a><span class="lineno"> 637</span>  </div><div class="line"><a name="l00638"></a><span class="lineno"> 638</span>  <span class="keywordtype">string</span> h = <span class="stringliteral">"0000000000000"</span></div><div class="line"><a name="l00639"></a><span class="lineno"> 639</span>  <span class="keywordflow">if</span> (bgterms < 3)</div><div class="line"><a name="l00640"></a><span class="lineno"> 640</span>  h = h + <span class="stringliteral">"1"</span></div><div class="line"><a name="l00641"></a><span class="lineno"> 641</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00642"></a><span class="lineno"> 642</span>  h = h + <span class="stringliteral">"0"</span></div><div class="line"><a name="l00643"></a><span class="lineno"> 643</span>  endif</div><div class="line"><a name="l00644"></a><span class="lineno"> 644</span>  <span class="keywordflow">if</span> (bgterms < 4)</div><div class="line"><a name="l00645"></a><span class="lineno"> 645</span>  h = h + <span class="stringliteral">"1"</span></div><div class="line"><a name="l00646"></a><span class="lineno"> 646</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00647"></a><span class="lineno"> 647</span>  h = h + <span class="stringliteral">"0"</span></div><div class="line"><a name="l00648"></a><span class="lineno"> 648</span>  endif</div><div class="line"><a name="l00649"></a><span class="lineno"> 649</span>  FuncFitMD /NTHR=1 /q /h=h <a class="code" href="pearl-scienta-preprocess_8ipf.html#a26e51aa77d5f416d613f1c5df82b6f5c">scienta_poly_bg</a> params data</div><div class="line"><a name="l00650"></a><span class="lineno"> 650</span>  </div><div class="line"><a name="l00651"></a><span class="lineno"> 651</span>  <span class="keywordflow">return</span> params</div><div class="line"><a name="l00652"></a><span class="lineno"> 652</span> };</div><div class="line"><a name="l00653"></a><span class="lineno"> 653</span> </div><div class="line"><a name="l00654"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a26e51aa77d5f416d613f1c5df82b6f5c"> 654</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a26e51aa77d5f416d613f1c5df82b6f5c">scienta_poly_bg</a>(wave w, variable e, variable a){</div><div class="line"><a name="l00655"></a><span class="lineno"> 655</span>  <span class="comment">// polynomial background with</span></div><div class="line"><a name="l00656"></a><span class="lineno"> 656</span>  <span class="comment">// parameterized angular transmission function of the analyser</span></div><div class="line"><a name="l00657"></a><span class="lineno"> 657</span>  wave w<span class="comment">// coefficients</span></div><div class="line"><a name="l00658"></a><span class="lineno"> 658</span>  <span class="comment">// angular transmission, varies with a</span></div><div class="line"><a name="l00659"></a><span class="lineno"> 659</span>  <span class="comment">// amplitude of gauss 1 = 1 constant</span></div><div class="line"><a name="l00660"></a><span class="lineno"> 660</span>  <span class="comment">// other peak amplitudes and linear terms are relative to gauss 1</span></div><div class="line"><a name="l00661"></a><span class="lineno"> 661</span>  <span class="comment">// w[0] = position gauss 1</span></div><div class="line"><a name="l00662"></a><span class="lineno"> 662</span>  <span class="comment">// w[1] = width gauss 1</span></div><div class="line"><a name="l00663"></a><span class="lineno"> 663</span>  <span class="comment">// w[2] = amplitude gauss 2, relative to gauss 1</span></div><div class="line"><a name="l00664"></a><span class="lineno"> 664</span>  <span class="comment">// w[3] = position gauss 2</span></div><div class="line"><a name="l00665"></a><span class="lineno"> 665</span>  <span class="comment">// w[4] = width gauss 2</span></div><div class="line"><a name="l00666"></a><span class="lineno"> 666</span>  <span class="comment">// w[5] = amplitude gauss 3, relative to gauss 1</span></div><div class="line"><a name="l00667"></a><span class="lineno"> 667</span>  <span class="comment">// w[6] = position gauss 3</span></div><div class="line"><a name="l00668"></a><span class="lineno"> 668</span>  <span class="comment">// w[7] = width gauss 3</span></div><div class="line"><a name="l00669"></a><span class="lineno"> 669</span>  <span class="comment">// w[8] = constant term</span></div><div class="line"><a name="l00670"></a><span class="lineno"> 670</span>  <span class="comment">// w[9] = linear term</span></div><div class="line"><a name="l00671"></a><span class="lineno"> 671</span>  <span class="comment">// w[10] = quadratic term</span></div><div class="line"><a name="l00672"></a><span class="lineno"> 672</span>  <span class="comment">// spectral background, varies with e</span></div><div class="line"><a name="l00673"></a><span class="lineno"> 673</span>  <span class="comment">// w[11] = constant term</span></div><div class="line"><a name="l00674"></a><span class="lineno"> 674</span>  <span class="comment">// w[12] = linear term</span></div><div class="line"><a name="l00675"></a><span class="lineno"> 675</span>  <span class="comment">// w[13] = quadratic term</span></div><div class="line"><a name="l00676"></a><span class="lineno"> 676</span>  <span class="comment">// w[14] = cubic term</span></div><div class="line"><a name="l00677"></a><span class="lineno"> 677</span>  variable a<span class="comment">// detection angle</span></div><div class="line"><a name="l00678"></a><span class="lineno"> 678</span>  variable e<span class="comment">// electron energy</span></div><div class="line"><a name="l00679"></a><span class="lineno"> 679</span>  </div><div class="line"><a name="l00680"></a><span class="lineno"> 680</span>  make /free /n=4 /d w_int</div><div class="line"><a name="l00681"></a><span class="lineno"> 681</span>  variable p0 = 0</div><div class="line"><a name="l00682"></a><span class="lineno"> 682</span>  </div><div class="line"><a name="l00683"></a><span class="lineno"> 683</span>  w_int[0] = 0</div><div class="line"><a name="l00684"></a><span class="lineno"> 684</span>  w_int[1] = 1</div><div class="line"><a name="l00685"></a><span class="lineno"> 685</span>  w_int[2,] = w[p0 + p - 2]</div><div class="line"><a name="l00686"></a><span class="lineno"> 686</span>  variable pk1 = gauss1d(w_int, a)</div><div class="line"><a name="l00687"></a><span class="lineno"> 687</span>  p0 += 2</div><div class="line"><a name="l00688"></a><span class="lineno"> 688</span> </div><div class="line"><a name="l00689"></a><span class="lineno"> 689</span>  w_int[1,] = w[p0 + p - 1]</div><div class="line"><a name="l00690"></a><span class="lineno"> 690</span>  variable pk2 = gauss1d(w_int, a)</div><div class="line"><a name="l00691"></a><span class="lineno"> 691</span>  p0 += 3</div><div class="line"><a name="l00692"></a><span class="lineno"> 692</span> </div><div class="line"><a name="l00693"></a><span class="lineno"> 693</span>  w_int[1,] = w[p0 + p - 1]</div><div class="line"><a name="l00694"></a><span class="lineno"> 694</span>  variable pk3 = gauss1d(w_int, a)</div><div class="line"><a name="l00695"></a><span class="lineno"> 695</span>  p0 += 3</div><div class="line"><a name="l00696"></a><span class="lineno"> 696</span> </div><div class="line"><a name="l00697"></a><span class="lineno"> 697</span>  w_int[0,2] = w[p0 + p]</div><div class="line"><a name="l00698"></a><span class="lineno"> 698</span>  w_int[3] = 0</div><div class="line"><a name="l00699"></a><span class="lineno"> 699</span>  variable base = poly(w_int, a)</div><div class="line"><a name="l00700"></a><span class="lineno"> 700</span>  p0 += 3</div><div class="line"><a name="l00701"></a><span class="lineno"> 701</span> </div><div class="line"><a name="l00702"></a><span class="lineno"> 702</span>  w_int[0,3] = w[p0 + p]</div><div class="line"><a name="l00703"></a><span class="lineno"> 703</span>  variable bg = poly(w_int, e)</div><div class="line"><a name="l00704"></a><span class="lineno"> 704</span>  </div><div class="line"><a name="l00705"></a><span class="lineno"> 705</span>  <span class="keywordflow">return</span> bg * (base + pk1 + pk2 + pk3)</div><div class="line"><a name="l00706"></a><span class="lineno"> 706</span> };</div><div class="line"><a name="l00707"></a><span class="lineno"> 707</span> </div><div class="line"><a name="l00716"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a6e7de6441bbcba217760448babaca827"> 716</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a6e7de6441bbcba217760448babaca827">prompt_redim_linbg_reduction</a>(<span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00717"></a><span class="lineno"> 717</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00718"></a><span class="lineno"> 718</span> </div><div class="line"><a name="l00719"></a><span class="lineno"> 719</span>  variable Lcrop = NumberByKey(<span class="stringliteral">"Lcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00720"></a><span class="lineno"> 720</span>  variable Lsize = NumberByKey(<span class="stringliteral">"Lsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00721"></a><span class="lineno"> 721</span>  variable Hcrop = NumberByKey(<span class="stringliteral">"Hcrop"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00722"></a><span class="lineno"> 722</span>  variable Hsize = NumberByKey(<span class="stringliteral">"Hsize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00723"></a><span class="lineno"> 723</span>  variable Cpos = NumberByKey(<span class="stringliteral">"Cpos"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00724"></a><span class="lineno"> 724</span>  variable Csize = NumberByKey(<span class="stringliteral">"Csize"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00725"></a><span class="lineno"> 725</span>  </div><div class="line"><a name="l00726"></a><span class="lineno"> 726</span>  prompt Lcrop, <span class="stringliteral">"Lower cropping region"</span></div><div class="line"><a name="l00727"></a><span class="lineno"> 727</span>  prompt Hcrop, <span class="stringliteral">"Upper cropping region"</span></div><div class="line"><a name="l00728"></a><span class="lineno"> 728</span>  prompt Lsize, <span class="stringliteral">"Lower background region"</span></div><div class="line"><a name="l00729"></a><span class="lineno"> 729</span>  prompt Hsize, <span class="stringliteral">"Upper background region"</span></div><div class="line"><a name="l00730"></a><span class="lineno"> 730</span>  prompt Cpos, <span class="stringliteral">"Center position"</span></div><div class="line"><a name="l00731"></a><span class="lineno"> 731</span>  prompt Csize, <span class="stringliteral">"Center integration region"</span></div><div class="line"><a name="l00732"></a><span class="lineno"> 732</span>  </div><div class="line"><a name="l00733"></a><span class="lineno"> 733</span>  doprompt <span class="stringliteral">"redim_linbg_reduction Parameters"</span>, lcrop, hcrop, lsize, hsize, cpos, csize</div><div class="line"><a name="l00734"></a><span class="lineno"> 734</span>  <span class="keywordflow">if</span> (v_flag == 0)</div><div class="line"><a name="l00735"></a><span class="lineno"> 735</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lcrop"</span>, param, Lcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00736"></a><span class="lineno"> 736</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Lsize"</span>, param, Lsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00737"></a><span class="lineno"> 737</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hcrop"</span>, param, Hcrop, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00738"></a><span class="lineno"> 738</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Hsize"</span>, param, Hsize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00739"></a><span class="lineno"> 739</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Cpos"</span>, param, Cpos, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00740"></a><span class="lineno"> 740</span>  param = ReplaceNumberByKey(<span class="stringliteral">"Csize"</span>, param, Csize, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00741"></a><span class="lineno"> 741</span>  endif</div><div class="line"><a name="l00742"></a><span class="lineno"> 742</span> </div><div class="line"><a name="l00743"></a><span class="lineno"> 743</span>  <span class="keywordflow">return</span> v_flag</div><div class="line"><a name="l00744"></a><span class="lineno"> 744</span> };</div><div class="line"><a name="l00745"></a><span class="lineno"> 745</span> </div><div class="line"><a name="l00787"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a9b3321b9ed876ff50e260fa311ebf4be"> 787</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a9b3321b9ed876ff50e260fa311ebf4be">redim_linbg_reduction</a>(wave source, wave dest1, wave dest2, <span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00788"></a><span class="lineno"> 788</span>  wave source</div><div class="line"><a name="l00789"></a><span class="lineno"> 789</span>  wave dest1, dest2</div><div class="line"><a name="l00790"></a><span class="lineno"> 790</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00791"></a><span class="lineno"> 791</span>  </div><div class="line"><a name="l00792"></a><span class="lineno"> 792</span>  variable nx = dimsize(source, 0)</div><div class="line"><a name="l00793"></a><span class="lineno"> 793</span>  variable ny = dimsize(source, 1)</div><div class="line"><a name="l00794"></a><span class="lineno"> 794</span>  </div><div class="line"><a name="l00795"></a><span class="lineno"> 795</span>  duplicate /free source, source_redim</div><div class="line"><a name="l00796"></a><span class="lineno"> 796</span>  redimension /n=(nx * ny) source_redim</div><div class="line"><a name="l00797"></a><span class="lineno"> 797</span>  nx += 1</div><div class="line"><a name="l00798"></a><span class="lineno"> 798</span>  redimension /n=(nx, ny) source_redim</div><div class="line"><a name="l00799"></a><span class="lineno"> 799</span>  </div><div class="line"><a name="l00800"></a><span class="lineno"> 800</span>  <span class="keywordflow">return</span> <a class="code" href="pearl-scienta-preprocess_8ipf.html#a4e5ae4a68d9caa4710db477d71e2b9e0">int_linbg_reduction</a>(source_redim, dest1, dest2, param)</div><div class="line"><a name="l00801"></a><span class="lineno"> 801</span> };</div><div class="line"><a name="l00802"></a><span class="lineno"> 802</span> </div><div class="line"><a name="l00803"></a><span class="lineno"> 803</span> <span class="comment">// DblGaussLinBG function fit reduction</span></div><div class="line"><a name="l00804"></a><span class="lineno"> 804</span> </div><div class="line"><a name="l00810"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a57308c99b9e4dd48d139f6613a8a9f40"> 810</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a57308c99b9e4dd48d139f6613a8a9f40">test_gauss2_reduction</a>(wave image){</div><div class="line"><a name="l00811"></a><span class="lineno"> 811</span>  wave image</div><div class="line"><a name="l00812"></a><span class="lineno"> 812</span>  </div><div class="line"><a name="l00813"></a><span class="lineno"> 813</span>  <span class="keywordtype">string</span> param = <span class="stringliteral">""</span></div><div class="line"><a name="l00814"></a><span class="lineno"> 814</span>  param = ReplaceNumberByKey(<span class="stringliteral">"rngl"</span>, param, -inf, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00815"></a><span class="lineno"> 815</span>  param = ReplaceNumberByKey(<span class="stringliteral">"rngh"</span>, param, inf, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00816"></a><span class="lineno"> 816</span>  param = ReplaceNumberByKey(<span class="stringliteral">"pos1"</span>, param, 113.70, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00817"></a><span class="lineno"> 817</span>  param = ReplaceNumberByKey(<span class="stringliteral">"wid1"</span>, param, 1.46, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00818"></a><span class="lineno"> 818</span>  param = ReplaceNumberByKey(<span class="stringliteral">"pos2"</span>, param, 126.53, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00819"></a><span class="lineno"> 819</span>  param = ReplaceNumberByKey(<span class="stringliteral">"wid2"</span>, param, 1.63, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00820"></a><span class="lineno"> 820</span>  param = ReplaceNumberByKey(<span class="stringliteral">"ybox"</span>, param, 1, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00821"></a><span class="lineno"> 821</span>  param = ReplaceStringByKey(<span class="stringliteral">"return"</span>, param, <span class="stringliteral">"amp1"</span>, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00822"></a><span class="lineno"> 822</span> </div><div class="line"><a name="l00823"></a><span class="lineno"> 823</span>  make /o test1</div><div class="line"><a name="l00824"></a><span class="lineno"> 824</span>  make /o test2</div><div class="line"><a name="l00825"></a><span class="lineno"> 825</span>  </div><div class="line"><a name="l00826"></a><span class="lineno"> 826</span>  <a class="code" href="pearl-scienta-preprocess_8ipf.html#af9ea97d870f53a70583c53328599ff14">gauss2_reduction</a>(image, test1, test2, param)</div><div class="line"><a name="l00827"></a><span class="lineno"> 827</span> };</div><div class="line"><a name="l00828"></a><span class="lineno"> 828</span> </div><div class="line"><a name="l00834"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#a79eb4d0d4902a549bf92553840b884e8"> 834</a></span> variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#a79eb4d0d4902a549bf92553840b884e8">prompt_gauss2_reduction</a>(<span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00835"></a><span class="lineno"> 835</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00836"></a><span class="lineno"> 836</span> </div><div class="line"><a name="l00837"></a><span class="lineno"> 837</span>  variable rngl = NumberByKey(<span class="stringliteral">"rngl"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00838"></a><span class="lineno"> 838</span>  variable rngh = NumberByKey(<span class="stringliteral">"rngh"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00839"></a><span class="lineno"> 839</span>  variable pos1 = NumberByKey(<span class="stringliteral">"pos1"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00840"></a><span class="lineno"> 840</span>  variable wid1 = NumberByKey(<span class="stringliteral">"wid1"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00841"></a><span class="lineno"> 841</span>  variable pos2 = NumberByKey(<span class="stringliteral">"pos2"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00842"></a><span class="lineno"> 842</span>  variable wid2 = NumberByKey(<span class="stringliteral">"wid2"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00843"></a><span class="lineno"> 843</span>  variable ybox = NumberByKey(<span class="stringliteral">"ybox"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00844"></a><span class="lineno"> 844</span>  <span class="keywordtype">string</span> retpar = StringByKey(<span class="stringliteral">"return"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00845"></a><span class="lineno"> 845</span> </div><div class="line"><a name="l00846"></a><span class="lineno"> 846</span>  prompt rngl, <span class="stringliteral">"range low"</span></div><div class="line"><a name="l00847"></a><span class="lineno"> 847</span>  prompt rngh, <span class="stringliteral">"range high"</span></div><div class="line"><a name="l00848"></a><span class="lineno"> 848</span>  prompt pos1, <span class="stringliteral">"position 1"</span></div><div class="line"><a name="l00849"></a><span class="lineno"> 849</span>  prompt wid1, <span class="stringliteral">"width 1"</span></div><div class="line"><a name="l00850"></a><span class="lineno"> 850</span>  prompt pos2, <span class="stringliteral">"position 2"</span></div><div class="line"><a name="l00851"></a><span class="lineno"> 851</span>  prompt wid2, <span class="stringliteral">"width 2"</span></div><div class="line"><a name="l00852"></a><span class="lineno"> 852</span>  prompt ybox, <span class="stringliteral">"ybox (1 or 3)"</span></div><div class="line"><a name="l00853"></a><span class="lineno"> 853</span>  prompt retpar, <span class="stringliteral">"return"</span>, popup <span class="stringliteral">"amp1;amp2;"</span></div><div class="line"><a name="l00854"></a><span class="lineno"> 854</span>  </div><div class="line"><a name="l00855"></a><span class="lineno"> 855</span>  doprompt <span class="stringliteral">"gauss2_reduction reduction parameters"</span>, rngl, rngh, pos1, wid1, pos2, wid2, ybox, retpar</div><div class="line"><a name="l00856"></a><span class="lineno"> 856</span>  <span class="keywordflow">if</span> (v_flag == 0)</div><div class="line"><a name="l00857"></a><span class="lineno"> 857</span>  param = ReplaceNumberByKey(<span class="stringliteral">"rngl"</span>, param, rngl, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00858"></a><span class="lineno"> 858</span>  param = ReplaceNumberByKey(<span class="stringliteral">"rngh"</span>, param, rngh, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00859"></a><span class="lineno"> 859</span>  param = ReplaceNumberByKey(<span class="stringliteral">"pos1"</span>, param, pos1, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00860"></a><span class="lineno"> 860</span>  param = ReplaceNumberByKey(<span class="stringliteral">"wid1"</span>, param, wid1, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00861"></a><span class="lineno"> 861</span>  param = ReplaceNumberByKey(<span class="stringliteral">"pos2"</span>, param, pos2, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00862"></a><span class="lineno"> 862</span>  param = ReplaceNumberByKey(<span class="stringliteral">"wid2"</span>, param, wid2, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00863"></a><span class="lineno"> 863</span>  param = ReplaceStringByKey(<span class="stringliteral">"return"</span>, param, retpar, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00864"></a><span class="lineno"> 864</span>  param = ReplaceNumberByKey(<span class="stringliteral">"ybox"</span>, param, ybox, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00865"></a><span class="lineno"> 865</span>  endif</div><div class="line"><a name="l00866"></a><span class="lineno"> 866</span>  </div><div class="line"><a name="l00867"></a><span class="lineno"> 867</span>  <span class="keywordflow">return</span> v_flag</div><div class="line"><a name="l00868"></a><span class="lineno"> 868</span> };</div><div class="line"><a name="l00869"></a><span class="lineno"> 869</span> </div><div class="line"><a name="l00903"></a><span class="lineno"><a class="line" href="pearl-scienta-preprocess_8ipf.html#af9ea97d870f53a70583c53328599ff14"> 903</a></span> threadsafe variable <a class="code" href="pearl-scienta-preprocess_8ipf.html#af9ea97d870f53a70583c53328599ff14">gauss2_reduction</a>(wave source, wave dest1, wave dest2, <span class="keywordtype">string</span>* param){</div><div class="line"><a name="l00904"></a><span class="lineno"> 904</span>  wave source</div><div class="line"><a name="l00905"></a><span class="lineno"> 905</span>  wave dest1, dest2</div><div class="line"><a name="l00906"></a><span class="lineno"> 906</span>  <span class="keywordtype">string</span> &param</div><div class="line"><a name="l00907"></a><span class="lineno"> 907</span>  </div><div class="line"><a name="l00908"></a><span class="lineno"> 908</span>  variable nx = dimsize(source, 0)</div><div class="line"><a name="l00909"></a><span class="lineno"> 909</span>  variable ny = dimsize(source, 1)</div><div class="line"><a name="l00910"></a><span class="lineno"> 910</span>  </div><div class="line"><a name="l00911"></a><span class="lineno"> 911</span>  <span class="comment">// prepare output</span></div><div class="line"><a name="l00912"></a><span class="lineno"> 912</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest1, 1)</div><div class="line"><a name="l00913"></a><span class="lineno"> 913</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, dest2, 1)</div><div class="line"><a name="l00914"></a><span class="lineno"> 914</span>  dest1 = 0</div><div class="line"><a name="l00915"></a><span class="lineno"> 915</span>  dest2 = 0</div><div class="line"><a name="l00916"></a><span class="lineno"> 916</span> </div><div class="line"><a name="l00917"></a><span class="lineno"> 917</span>  <span class="comment">// read parameters</span></div><div class="line"><a name="l00918"></a><span class="lineno"> 918</span>  variable rngl = NumberByKey(<span class="stringliteral">"rngl"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00919"></a><span class="lineno"> 919</span>  variable rngh = NumberByKey(<span class="stringliteral">"rngh"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00920"></a><span class="lineno"> 920</span>  variable pos1 = NumberByKey(<span class="stringliteral">"pos1"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00921"></a><span class="lineno"> 921</span>  variable wid1 = NumberByKey(<span class="stringliteral">"wid1"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00922"></a><span class="lineno"> 922</span>  variable pos2 = NumberByKey(<span class="stringliteral">"pos2"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00923"></a><span class="lineno"> 923</span>  variable wid2 = NumberByKey(<span class="stringliteral">"wid2"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00924"></a><span class="lineno"> 924</span>  variable ybox = NumberByKey(<span class="stringliteral">"ybox"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00925"></a><span class="lineno"> 925</span>  <span class="keywordtype">string</span> retpar = StringByKey(<span class="stringliteral">"return"</span>, param, <span class="stringliteral">"="</span>, <span class="stringliteral">";"</span>)</div><div class="line"><a name="l00926"></a><span class="lineno"> 926</span> </div><div class="line"><a name="l00927"></a><span class="lineno"> 927</span>  variable idestcoef</div><div class="line"><a name="l00928"></a><span class="lineno"> 928</span>  <span class="keywordflow">if</span> (cmpstr(retpar, <span class="stringliteral">"amp2"</span>) == 0)</div><div class="line"><a name="l00929"></a><span class="lineno"> 929</span>  idestcoef = 3</div><div class="line"><a name="l00930"></a><span class="lineno"> 930</span>  <span class="keywordflow">else</span></div><div class="line"><a name="l00931"></a><span class="lineno"> 931</span>  idestcoef = 0</div><div class="line"><a name="l00932"></a><span class="lineno"> 932</span>  endif</div><div class="line"><a name="l00933"></a><span class="lineno"> 933</span> </div><div class="line"><a name="l00934"></a><span class="lineno"> 934</span>  <span class="comment">// prepare curve fit</span></div><div class="line"><a name="l00935"></a><span class="lineno"> 935</span>  make /free xprof</div><div class="line"><a name="l00936"></a><span class="lineno"> 936</span>  <a class="code" href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a>(source, xprof, 0)</div><div class="line"><a name="l00937"></a><span class="lineno"> 937</span>  duplicate /free xprof, xprof_sig</div><div class="line"><a name="l00938"></a><span class="lineno"> 938</span>  make /free /d /n=8 w_coef, W_sigma</div><div class="line"><a name="l00939"></a><span class="lineno"> 939</span>  w_coef[0] = {1, pos1, wid1, 1, pos2, wid2, 0, 0}</div><div class="line"><a name="l00940"></a><span class="lineno"> 940</span>  </div><div class="line"><a name="l00941"></a><span class="lineno"> 941</span>  variable pl = max(x2pnt(xprof, rngl), 0)</div><div class="line"><a name="l00942"></a><span class="lineno"> 942</span>  variable ph = min(x2pnt(xprof, rngh), numpnts(xprof) - 1)</div><div class="line"><a name="l00943"></a><span class="lineno"> 943</span>  </div><div class="line"><a name="l00944"></a><span class="lineno"> 944</span>  <span class="comment">// text constraints cannot be used in threadsafe functions.</span></div><div class="line"><a name="l00945"></a><span class="lineno"> 945</span>  <span class="comment">// the following matrix-vector forumlation is equivalent to:</span></div><div class="line"><a name="l00946"></a><span class="lineno"> 946</span>  <span class="comment">// make /free /T /N=4 constraints</span></div><div class="line"><a name="l00947"></a><span class="lineno"> 947</span>  <span class="comment">// constraints[0] = {"K0 >= 0", "K3 >= 0", "K6 <= 0", "K7 => 0"}</span></div><div class="line"><a name="l00948"></a><span class="lineno"> 948</span>  make /free /n=(4,8) cmat</div><div class="line"><a name="l00949"></a><span class="lineno"> 949</span>  make /free /n=4 cvec</div><div class="line"><a name="l00950"></a><span class="lineno"> 950</span>  cmat = 0</div><div class="line"><a name="l00951"></a><span class="lineno"> 951</span>  cmat[0][0] = -1</div><div class="line"><a name="l00952"></a><span class="lineno"> 952</span>  cmat[1][3] = -1</div><div class="line"><a name="l00953"></a><span class="lineno"> 953</span>  cmat[2][6] = 1</div><div class="line"><a name="l00954"></a><span class="lineno"> 954</span>  cmat[3][7] = -1</div><div class="line"><a name="l00955"></a><span class="lineno"> 955</span>  cvec = 0</div><div class="line"><a name="l00956"></a><span class="lineno"> 956</span> </div><div class="line"><a name="l00957"></a><span class="lineno"> 957</span>  <span class="comment">// loop over angle scale </span></div><div class="line"><a name="l00958"></a><span class="lineno"> 958</span>  variable p0 = 0</div><div class="line"><a name="l00959"></a><span class="lineno"> 959</span>  variable p1 = numpnts(dest1) - 1</div><div class="line"><a name="l00960"></a><span class="lineno"> 960</span>  variable pp</div><div class="line"><a name="l00961"></a><span class="lineno"> 961</span>  variable wmin</div><div class="line"><a name="l00962"></a><span class="lineno"> 962</span>  variable wmax</div><div class="line"><a name="l00963"></a><span class="lineno"> 963</span>  <span class="keywordflow">if</span> (ybox > 1)</div><div class="line"><a name="l00964"></a><span class="lineno"> 964</span>  p0 += ceil((ybox - 1) / 2)</div><div class="line"><a name="l00965"></a><span class="lineno"> 965</span>  p1 -= ceil((ybox - 1) / 2)</div><div class="line"><a name="l00966"></a><span class="lineno"> 966</span>  endif</div><div class="line"><a name="l00967"></a><span class="lineno"> 967</span>  variable V_FitNumIters</div><div class="line"><a name="l00968"></a><span class="lineno"> 968</span>  </div><div class="line"><a name="l00969"></a><span class="lineno"> 969</span>  <span class="keywordflow">for</span> (pp = p0; pp <= p1; pp += 1)</div><div class="line"><a name="l00970"></a><span class="lineno"> 970</span>  xprof = source[p][pp]</div><div class="line"><a name="l00971"></a><span class="lineno"> 971</span>  <span class="keywordflow">if</span> (ybox > 1)</div><div class="line"><a name="l00972"></a><span class="lineno"> 972</span>  xprof += source[p][pp-1] + source[p][pp+1]</div><div class="line"><a name="l00973"></a><span class="lineno"> 973</span>  endif</div><div class="line"><a name="l00974"></a><span class="lineno"> 974</span>  xprof_sig = max(sqrt(xprof), 1)</div><div class="line"><a name="l00975"></a><span class="lineno"> 975</span>  xprof /= ybox</div><div class="line"><a name="l00976"></a><span class="lineno"> 976</span>  xprof_sig /= ybox</div><div class="line"><a name="l00977"></a><span class="lineno"> 977</span>  </div><div class="line"><a name="l00978"></a><span class="lineno"> 978</span>  wmin = wavemin(xprof)</div><div class="line"><a name="l00979"></a><span class="lineno"> 979</span>  wmax = wavemax(xprof)</div><div class="line"><a name="l00980"></a><span class="lineno"> 980</span>  w_coef[0] = wmax - wmin</div><div class="line"><a name="l00981"></a><span class="lineno"> 981</span>  w_coef[3] = w_coef[0]</div><div class="line"><a name="l00982"></a><span class="lineno"> 982</span>  w_coef[6] = 0</div><div class="line"><a name="l00983"></a><span class="lineno"> 983</span>  w_coef[7] = wmin</div><div class="line"><a name="l00984"></a><span class="lineno"> 984</span>  FuncFit /H=<span class="stringliteral">"01101100"</span> /Q /NTHR=1 /N /W=2 DblGaussLinBG w_coef xprof[pl,ph] /C={cmat, cvec} /I=1 /W=xprof_sig[pl,ph]</div><div class="line"><a name="l00985"></a><span class="lineno"> 985</span>  wave w_sigma</div><div class="line"><a name="l00986"></a><span class="lineno"> 986</span>  </div><div class="line"><a name="l00987"></a><span class="lineno"> 987</span>  <span class="keywordflow">if</span> (V_FitNumIters < 40)</div><div class="line"><a name="l00988"></a><span class="lineno"> 988</span>  dest1[pp] = max(w_coef[idestcoef], 0)</div><div class="line"><a name="l00989"></a><span class="lineno"> 989</span>  dest2[pp] = max(w_sigma[idestcoef], 0)</div><div class="line"><a name="l00990"></a><span class="lineno"> 990</span>  endif</div><div class="line"><a name="l00991"></a><span class="lineno"> 991</span>  endfor</div><div class="line"><a name="l00992"></a><span class="lineno"> 992</span>  </div><div class="line"><a name="l00993"></a><span class="lineno"> 993</span>  dest1 *= w_coef[idestcoef+2] * sqrt(pi)</div><div class="line"><a name="l00994"></a><span class="lineno"> 994</span>  dest2 *= w_coef[idestcoef+2] * sqrt(pi)</div><div class="line"><a name="l00995"></a><span class="lineno"> 995</span>  </div><div class="line"><a name="l00996"></a><span class="lineno"> 996</span>  <span class="keywordflow">return</span> 0</div><div class="line"><a name="l00997"></a><span class="lineno"> 997</span> };</div><div class="line"><a name="l00998"></a><span class="lineno"> 998</span> </div><div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a8536a1da8aa85e34370f384ad2ee0d5e"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a8536a1da8aa85e34370f384ad2ee0d5e">fit_scienta_ang_transm</a></div><div class="ttdeci">wave fit_scienta_ang_transm(wave data, wave params)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00551">pearl-scienta-preprocess.ipf:551</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a01fdc27931518dc988500b3cba409e57"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a01fdc27931518dc988500b3cba409e57">test_int_linbg</a></div><div class="ttdeci">variable test_int_linbg(wave image)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00180">pearl-scienta-preprocess.ipf:180</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_adc472d56286afd855109d561fbf633bd"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#adc472d56286afd855109d561fbf633bd">Shockley_anglefit</a></div><div class="ttdeci">threadsafe variable Shockley_anglefit(wave source, wave dest1, wave dest2, string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00337">pearl-scienta-preprocess.ipf:337</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a79eb4d0d4902a549bf92553840b884e8"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a79eb4d0d4902a549bf92553840b884e8">prompt_gauss2_reduction</a></div><div class="ttdeci">variable prompt_gauss2_reduction(string *param)</div><div class="ttdoc">prompt for the gauss2_reduction parameters </div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00834">pearl-scienta-preprocess.ipf:834</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a9b3321b9ed876ff50e260fa311ebf4be"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a9b3321b9ed876ff50e260fa311ebf4be">redim_linbg_reduction</a></div><div class="ttdeci">threadsafe variable redim_linbg_reduction(wave source, wave dest1, wave dest2, string *param)</div><div class="ttdoc">linear background reduction function for incorrectly dimensioned scienta image </div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00787">pearl-scienta-preprocess.ipf:787</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a26e51aa77d5f416d613f1c5df82b6f5c"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a26e51aa77d5f416d613f1c5df82b6f5c">scienta_poly_bg</a></div><div class="ttdeci">variable scienta_poly_bg(wave w, variable e, variable a)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00654">pearl-scienta-preprocess.ipf:654</a></div></div>
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<div class="ttc" id="pearl-area-profiles_8ipf_html_aa40fd5049f993e72fd52a66a6cdde7cc"><div class="ttname"><a href="pearl-area-profiles_8ipf.html#aa40fd5049f993e72fd52a66a6cdde7cc">ad_profile_x_w</a></div><div class="ttdeci">threadsafe wave ad_profile_x_w(wave dataset, variable q1, variable q2, wave destwave, variable noavg=defaultValue)</div><div class="ttdoc">1D cut through 2D dataset along X dimension, existing destination wave. </div><div class="ttdef"><b>Definition:</b> <a href="pearl-area-profiles_8ipf_source.html#l00504">pearl-area-profiles.ipf:504</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a4f850a816852a1d0e22deaf894765c2c"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a4f850a816852a1d0e22deaf894765c2c">fit_scienta_poly_bg</a></div><div class="ttdeci">wave fit_scienta_poly_bg(wave data, wave params, variable bgterms)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00610">pearl-scienta-preprocess.ipf:610</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_ab3e0823a6ec7d85e08276cd32d0ffd21"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#ab3e0823a6ec7d85e08276cd32d0ffd21">prompt_Shockley_anglefit</a></div><div class="ttdeci">variable prompt_Shockley_anglefit(string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00322">pearl-scienta-preprocess.ipf:322</a></div></div>
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<div class="ttc" id="pearl-area-import_8ipf_html_a9439de3b676e686eeca4e6b2588c01a6"><div class="ttname"><a href="pearl-area-import_8ipf.html#a9439de3b676e686eeca4e6b2588c01a6">adh5_setup_profile</a></div><div class="ttdeci">threadsafe variable adh5_setup_profile(wave image, wave profile, variable dim)</div><div class="ttdoc">set up a one-dimensional wave for a line profile based on a 2D original wave. </div><div class="ttdef"><b>Definition:</b> <a href="pearl-area-import_8ipf_source.html#l01113">pearl-area-import.ipf:1113</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a6d06ea5a11ba79160efeea7fe673af8c"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a6d06ea5a11ba79160efeea7fe673af8c">prompt_int_quadbg_reduction</a></div><div class="ttdeci">variable prompt_int_quadbg_reduction(string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00410">pearl-scienta-preprocess.ipf:410</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a26f46acd339fb483ce9792e06170c189"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a26f46acd339fb483ce9792e06170c189">scienta_ang_transm</a></div><div class="ttdeci">threadsafe variable scienta_ang_transm(wave w, variable x)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00578">pearl-scienta-preprocess.ipf:578</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_aa5ac074dd3e405d13d3c4401d96e4743"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#aa5ac074dd3e405d13d3c4401d96e4743">int_quadbg_reduction</a></div><div class="ttdeci">threadsafe variable int_quadbg_reduction(wave source, wave dest1, wave dest2, string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00457">pearl-scienta-preprocess.ipf:457</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_af9ea97d870f53a70583c53328599ff14"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#af9ea97d870f53a70583c53328599ff14">gauss2_reduction</a></div><div class="ttdeci">threadsafe variable gauss2_reduction(wave source, wave dest1, wave dest2, string *param)</div><div class="ttdoc">fit horizontal cuts of an image with two gaussian peaks on a linear background </div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00903">pearl-scienta-preprocess.ipf:903</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_ad9c09259aaaf32246fe9391dfb3e2c93"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#ad9c09259aaaf32246fe9391dfb3e2c93">test_shockley_anglefit</a></div><div class="ttdeci">variable test_shockley_anglefit(wave image, variable branch)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00297">pearl-scienta-preprocess.ipf:297</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a4e5ae4a68d9caa4710db477d71e2b9e0"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a4e5ae4a68d9caa4710db477d71e2b9e0">int_linbg_reduction</a></div><div class="ttdeci">threadsafe variable int_linbg_reduction(wave source, wave dest1, wave dest2, string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00197">pearl-scienta-preprocess.ipf:197</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a09ae6058d39d76a59c862e945d512fa8"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a09ae6058d39d76a59c862e945d512fa8">scienta_norm</a></div><div class="ttdeci">variable scienta_norm(wave w, variable x)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00544">pearl-scienta-preprocess.ipf:544</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a6e7de6441bbcba217760448babaca827"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a6e7de6441bbcba217760448babaca827">prompt_redim_linbg_reduction</a></div><div class="ttdeci">variable prompt_redim_linbg_reduction(string *param)</div><div class="ttdoc">parameter dialog for the redim_linbg_reduction() function </div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00716">pearl-scienta-preprocess.ipf:716</a></div></div>
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<div class="ttc" id="pearl-area-profiles_8ipf_html_a8b09e13162fa47cc076e1e661e80b002"><div class="ttname"><a href="pearl-area-profiles_8ipf.html#a8b09e13162fa47cc076e1e661e80b002">ad_profile_y_w</a></div><div class="ttdeci">threadsafe wave ad_profile_y_w(wave dataset, variable p1, variable p2, wave destwave, variable noavg=defaultValue)</div><div class="ttdoc">1D cut through 2D dataset along X dimension, existing destination wave. </div><div class="ttdef"><b>Definition:</b> <a href="pearl-area-profiles_8ipf_source.html#l00567">pearl-area-profiles.ipf:567</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a145c7275b8809c5e789b932ef46e4811"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a145c7275b8809c5e789b932ef46e4811">prompt_int_linbg_reduction</a></div><div class="ttdeci">variable prompt_int_linbg_reduction(string *param)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00036">pearl-scienta-preprocess.ipf:36</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a1b1f473b96119afa602759a51e0c5b4c"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a1b1f473b96119afa602759a51e0c5b4c">test_int_quadbg</a></div><div class="ttdeci">variable test_int_quadbg(wave image)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00440">pearl-scienta-preprocess.ipf:440</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a95fbd22f52f61d2bff0625b7b8e159d1"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a95fbd22f52f61d2bff0625b7b8e159d1">csr_int_linbg_reduction</a></div><div class="ttdeci">string csr_int_linbg_reduction(string win)</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00076">pearl-scienta-preprocess.ipf:76</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_ae6877c51ad15c2ba8a69c65356cb34b8"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#ae6877c51ad15c2ba8a69c65356cb34b8">capture_int_linbg_cursors</a></div><div class="ttdeci">string capture_int_linbg_cursors()</div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00066">pearl-scienta-preprocess.ipf:66</a></div></div>
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<div class="ttc" id="pearl-scienta-preprocess_8ipf_html_a57308c99b9e4dd48d139f6613a8a9f40"><div class="ttname"><a href="pearl-scienta-preprocess_8ipf.html#a57308c99b9e4dd48d139f6613a8a9f40">test_gauss2_reduction</a></div><div class="ttdeci">variable test_gauss2_reduction(wave image)</div><div class="ttdoc">apply the gauss2_reduction function to a single image </div><div class="ttdef"><b>Definition:</b> <a href="pearl-scienta-preprocess_8ipf_source.html#l00810">pearl-scienta-preprocess.ipf:810</a></div></div>
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