Mercurial > repos > gregor.m > spyboat

annotate output_report.py @ 5:d5a4180410c4 draft default tip

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"planemo upload commit 7bc843096b70fe1c8fc149e69d8f87fceac4eb3b"
author gregor.m
date Sat, 28 Nov 2020 18:50:09 +0000
parents a4c6fcf2c456
children
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1 """ Produces plots and a summary html 'headless' """
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2 import logging
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3 import os
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4
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5 import matplotlib
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6 import matplotlib.pyplot as ppl
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7 import spyboat.plotting as spyplot
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8
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9 ppl.switch_backend('Agg')
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10 matplotlib.rcParams["text.usetex"] = False
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11 logger = logging.getLogger(__name__)
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12
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13 # figure resolution
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14 DPI = 250
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16
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17 def produce_snapshots(input_movie, results, frame, Wkwargs, img_path="."):
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18 """
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19 Takes the *input_movie* and the *results* dictionary
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20 from spyboat.processing.run_parallel and produces phase,
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21 period and amplitude snapshot png's.
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22
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23 For the period snapshot also the period range is needed,
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24 hence the analysis dictionary 'Wkwargs' also gets passed.
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25
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26 The output files name pattern is:
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27 [input, phase, period, amplitude]_frame{frame}.png
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28 and the storage location in *img_path*.
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29
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30 These get picked up by 'create_html'
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31 """
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32
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33 spyplot.input_snapshot(input_movie[frame])
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34 fig = ppl.gcf()
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35 out_path = os.path.join(img_path, f"input_frame{frame}.png")
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36 fig.savefig(out_path, dpi=DPI)
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37 ppl.close(fig)
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38
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39 spyplot.phase_snapshot(results["phase"][frame])
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40 fig = ppl.gcf()
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41 out_path = os.path.join(img_path, f"phase_frame{frame}.png")
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42 fig.savefig(out_path, dpi=DPI)
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43 ppl.close(fig)
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45 spyplot.period_snapshot(
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46 results["period"][frame], Wkwargs["Tmin"],
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47 Wkwargs["Tmax"], time_unit="a.u."
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48 )
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49
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50 fig = ppl.gcf()
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51 out_path = os.path.join(img_path, f"period_frame{frame}.png")
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52 fig.savefig(out_path, dpi=DPI)
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53 ppl.close(fig)
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54
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55 spyplot.amplitude_snapshot(results["amplitude"][frame])
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56 fig = ppl.gcf()
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57 out_path = os.path.join(img_path, f"amplitude_frame{frame}.png")
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58 fig.savefig(out_path, dpi=DPI)
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59 ppl.close(fig)
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60
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61 logger.info(f"Produced 4 snapshots for frame {frame}..")
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62
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63
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64 def produce_distr_plots(results, Wkwargs, img_path="."):
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65 """
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66 Output file names are:
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67
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68 period_distr.png, power_distr.png and phase_distr.png
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69 """
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70
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71 spyplot.period_distr_dynamics(results["period"], Wkwargs)
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72 fig = ppl.gcf()
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73 out_path = os.path.join(img_path, "period_distr.png")
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74 fig.savefig(out_path, dpi=DPI)
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75
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76 spyplot.power_distr_dynamics(results["power"], Wkwargs)
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77 fig = ppl.gcf()
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78 out_path = os.path.join(img_path, "power_distr.png")
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79 fig.savefig(out_path, dpi=DPI)
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80
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81 spyplot.phase_coherence_dynamics(results["phase"], Wkwargs)
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82 fig = ppl.gcf()
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83 out_path = os.path.join(img_path, "phase_distr.png")
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84 fig.savefig(out_path, dpi=DPI)
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85
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86 logger.info("Produced 3 distribution plots..")
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87
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88
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89 def create_html(frame_nums, html_fname="OutputReport.html"):
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90 """
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91 The html generated assumes the respective png's
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92 have been created with 'produce_snapshots' and 'produce_distr_plots'
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93 and can be found at the cwd (that's how Galaxy works..)
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94 """
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95
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96 # -- create a gallery for every frame in frame_nums --
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97
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98 galleries = ""
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99 for frame_num in frame_nums:
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100 new_gal = f"""
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101 <div class="FrameSlides">
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102 <h3 style="text-align:center; color=#363333">
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103 Frame Nr. {frame_num} </h3>
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104
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105 <div class="snapshot_gallery">
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106
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107 <figure class=”snapshot_gallery__item
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108 snapshot_gallery__item--1">
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109 <img src="input_frame{frame_num}.png" alt="The Input"
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110 class="snapshot_gallery__img">
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111 </figure>
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112
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113 <figure class=”snapshot_gallery__item
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114 snapshot_gallery__item--2">
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115 <img src="phase_frame{frame_num}.png" alt="Phase"
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116 class="snapshot_gallery__img">
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117 </figure>
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118
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119 <figure class=”snapshot_gallery__item
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120 snapshot_gallery__item--3">
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121 <img src="period_frame{frame_num}.png"
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122 alt="Period" class="snapshot_gallery__img">
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123 </figure>
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124
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125 <figure class=”snapshot_gallery__item
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126 snapshot_gallery__item--4">
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127 <img src="amplitude_frame{frame_num}.png"
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128 alt="Amplitude" class="snapshot_gallery__img">
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129 </figure>
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130 </div>
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131 </div>
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132 """
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133 galleries += new_gal
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134
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135 html_string = f"""
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136 <html>
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137 <!-- this file got automatically created by 'output_report.py' -->
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138 <title>SpyBOAT Output Report</title>
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139 <head>
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140 <!-- that doesn't work with galaxy.. -->
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141 <!--link rel="stylesheet" href="styles.css"-->
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142 <style type="text/css">
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143 body{{ margin:10 100; background:whitesmoke; }}
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144 /*body{{ margin:10 100; background:darkslategrey; }}*/
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145 .center{{
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146 text-align: center;
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147 display: block;
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148 margin-left: auto;
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149 margin-right: auto;
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150 width: 100%;}}
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151
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152 /* matplotlib output at 1600x1200 */
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153 .distr_gallery {{
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154 display: grid;
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155 margin: 0 auto;
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156 text-align: center;
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157 /* border: 1px dashed rgba(4, 4, 4, 0.35); */
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158 grid-template-columns: repeat(3,1fr);
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159 grid-template-rows: 20vw;
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160 grid-gap: 0px;
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161 column-gap: 0px
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162 }}
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163 .distr_gallery__img {{
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164 width: 100%;
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165 height: 100%;
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166 object-fit: contain;
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167 }}
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168
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169
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170 /* matplotlib output at 1600x1200 */
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171 .snapshot_gallery {{
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172 display: grid;
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173 margin: 0 auto;
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174 border: 1px dashed rgba(4, 4, 4, 0.35);
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175 text-align: center;
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176 grid-template-columns: repeat(2,1fr);
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177 grid-template-rows: repeat(2,20vw);
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178 grid-gap: 5px;
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179 }}
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180 .snapshot_gallery__img {{
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181 width: 100%;
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182 height: 100%;
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183 object-fit: contain;
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184 }}
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185 .subheader{{
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186 text-align:center;
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187 font-size: 160%;
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188 color:#363333;}}
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189 </style>
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190 </head>
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191 <body>
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192 <h1 style="text-align:center; color:#363333">SpyBOAT Results Report</h1>
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193 <hr style="width:50%">
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194 <h1 class="subheader"> Distribution Dynamics </h1>
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195 <div class="distr_gallery">
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196 <figure class=”distr_gallery__item distr_gallery__item--1">
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197 <img src="period_distr.png" alt="Period" class="distr_gallery__img">
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198 </figure>
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199
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200 <figure class=”distr_gallery__item distr_gallery__item--2">
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201 <img src="power_distr.png" alt="Power" class="distr_gallery__img">
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202 </figure>
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203
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204 <figure class=”distr_gallery__item distr_gallery__item--3">
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205 <img src="phase_distr.png" alt="Phase" class="distr_gallery__img">
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206 </figure>
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207
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208 </div>
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209
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210 <h1 class="subheader"> Output Movie Snapshots </h1>
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211
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212 <!-- trigger the javascript at the end--->
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213 <div class="center">
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214 <button class="w3-button" onclick="plusDivs(-1)">&#10094; Prev</button>
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215 <button class="w3-button" onclick="plusDivs(1)">Next &#10095;</button>
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216 </div>
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217
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218 <!-- defines all elements of the "FrameSlides" class --->
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219 {galleries}
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220 </div>
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221
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222 <!-- javascript with escaped '{{'--->
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223 <script>
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224 var slideIndex = 1;
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225 showDivs(slideIndex);
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226
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227 function plusDivs(n) {{
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228 showDivs(slideIndex += n);
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229 }}
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230
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231 function showDivs(n) {{
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232 var i;
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233 var x = document.getElementsByClassName("FrameSlides");
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234 if (n > x.length) {{slideIndex = 1}}
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235 if (n < 1) {{slideIndex = x.length}} ;
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236 for (i = 0; i < x.length; i++) {{
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237 x[i].style.display = "none";
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238 }}
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239 x[slideIndex-1].style.display = "block";
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240 }}
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241 </script>
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242 </body>
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243 </html>
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244 """
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245
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246 with open(html_fname, "w") as OUT:
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247 OUT.write(html_string)
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248
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249 logger.info("Created html report")
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250 return html_string
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251
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252 # for local testing
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253 # create_html([0,20,40,60,80])