Mercurial > repos > gregor.m > spyboat

annotate output_report.py @ 4:a4c6fcf2c456 draft

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"planemo upload commit 0584e8878deaf91614c6bb3c0122975300132c25"
author gregor.m
date Thu, 26 Nov 2020 16:40:47 +0000
parents 4d7f30a7e2f6
children d5a4180410c4
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1 ''' Produces plots and a summary html 'headless' '''
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2
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3 import os
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4 import matplotlib
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5 # headless plotting and disable latex
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6 matplotlib.use('Agg')
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7 matplotlib.rcParams['text.usetex'] = False
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8 import matplotlib.pyplot as ppl
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9
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10 import logging
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11
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12 import spyboat.plotting as spyplot
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13
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14 logger = logging.getLogger(__name__)
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15
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16 # figure resolution
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17 DPI=250
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18
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19 def produce_snapshots(input_movie, results, frame, Wkwargs,
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20 img_path='.'):
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21
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22 '''
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23 Takes the *input_movie* and the
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24 *results* dictionary from spyboat.processing.run_parallel
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25 and produces phase, period and amplitude snapshot png's.
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26
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27 For the period snapshot also the period range is needed,
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28 hence the analysis dictionary 'Wkwargs' also gets passed.
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29
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30 The output files name pattern is:
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31 [input, phase, period, amplitude]_frame{frame}.png
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32 and the storage location in *img_path*.
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33
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34 These get picked up by 'create_html'
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35 '''
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36
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37
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38 spyplot.input_snapshot(input_movie[frame])
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39 fig = ppl.gcf()
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40 out_path = os.path.join(img_path, f'input_frame{frame}.png')
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41 fig.savefig(out_path, dpi=DPI)
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42 ppl.close(fig)
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43
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44 spyplot.phase_snapshot(results['phase'][frame])
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45 fig = ppl.gcf()
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46 out_path = os.path.join(img_path, f'phase_frame{frame}.png')
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47 fig.savefig(out_path, dpi=DPI)
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48 ppl.close(fig)
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49
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50 spyplot.period_snapshot(results['period'][frame],
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51 Wkwargs['Tmin'],Wkwargs['Tmax'],
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52 time_unit = 'a.u.')
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53
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54 fig = ppl.gcf()
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55 out_path = os.path.join(img_path, f'period_frame{frame}.png')
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56 fig.savefig(out_path, dpi=DPI)
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57 ppl.close(fig)
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58
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59 spyplot.amplitude_snapshot(results['amplitude'][frame])
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60 fig = ppl.gcf()
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61 out_path = os.path.join(img_path, f'amplitude_frame{frame}.png')
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62 fig.savefig(out_path, dpi=DPI)
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63 ppl.close(fig)
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64
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65 logger.info(f'Produced 4 snapshots for frame {frame}..')
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66
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67 def produce_distr_plots(results, Wkwargs, img_path='.'):
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68
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69 '''
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70 Output file names are:
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71
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72 period_distr.png, power_distr.png and phase_distr.png
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73 '''
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74
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75 spyplot.period_distr_dynamics(results['period'], Wkwargs)
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76 fig = ppl.gcf()
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77 out_path = os.path.join(img_path, f'period_distr.png')
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78 fig.savefig(out_path, dpi=DPI)
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79
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80 spyplot.power_distr_dynamics(results['power'], Wkwargs)
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81 fig = ppl.gcf()
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82 out_path = os.path.join(img_path, f'power_distr.png')
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83 fig.savefig(out_path, dpi=DPI)
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84
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85 spyplot.phase_coherence_dynamics(results['phase'], Wkwargs)
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86 fig = ppl.gcf()
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87 out_path = os.path.join(img_path, f'phase_distr.png')
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88 fig.savefig(out_path, dpi=DPI)
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89
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90 logger.info(f'Produced 3 distribution plots..')
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91
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92
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93 def create_html(frame_nums, html_fname='OutputReport.html'):
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94
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95 '''
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96 The html generated assumes the respective png's
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97 have been created with 'produce_snapshots' and 'produce_distr_plots'
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98 and can be found at the cwd (that's how Galaxy works..)
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99 '''
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100
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101 # -- create a gallery for every frame in frame_nums --
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102
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103 galleries = ''
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104 for frame_num in frame_nums:
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105 new_gal =f'''
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106 <div class="FrameSlides">
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107 <h3 style="text-align:center; color=#363333"> Frame Nr. {frame_num} </h3>
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108
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109 <div class="snapshot_gallery">
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110
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111 <figure class=”snapshot_gallery__item snapshot_gallery__item--1">
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112 <img src="input_frame{frame_num}.png" alt="The Input" class="snapshot_gallery__img">
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113 </figure>
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114
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115 <figure class=”snapshot_gallery__item snapshot_gallery__item--2">
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116 <img src="phase_frame{frame_num}.png" alt="Phase" 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 snapshot_gallery__item--3">
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120 <img src="period_frame{frame_num}.png" alt="Period" class="snapshot_gallery__img">
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121 </figure>
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122
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123 <figure class=”snapshot_gallery__item snapshot_gallery__item--4">
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124 <img src="amplitude_frame{frame_num}.png" alt="Amplitude" class="snapshot_gallery__img">
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125 </figure>
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126 </div>
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127 </div>
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128 '''
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129 galleries += new_gal
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130
0
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131 html_string =f'''
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132 <html>
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133 <!-- this file got automatically created by 'output_report.py' -->
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134 <title>SpyBOAT Output Report</title>
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135 <head>
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136 <!-- that doesn't work with galaxy.. -->
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137 <!--link rel="stylesheet" href="styles.css"-->
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138 <style type="text/css">
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139 body{{ margin:10 100; background:whitesmoke; }}
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140 /*body{{ margin:10 100; background:darkslategrey; }}*/
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141 .center{{
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142 text-align: center;
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143 display: block;
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144 margin-left: auto;
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145 margin-right: auto;
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146 width: 100%;}}
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147
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148 /* matplotlib output at 1600x1200 */
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149 .distr_gallery {{
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150 display: grid;
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151 margin: 0 auto;
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152 text-align: center;
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153 /* border: 1px dashed rgba(4, 4, 4, 0.35); */
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154 grid-template-columns: repeat(3,1fr);
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155 grid-template-rows: 20vw;
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156 grid-gap: 0px;
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157 column-gap: 0px
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158 }}
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159 .distr_gallery__img {{
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160 width: 100%;
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161 height: 100%;
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162 object-fit: contain;
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163 }}
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164
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165
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166 /* matplotlib output at 1600x1200 */
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167 .snapshot_gallery {{
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168 display: grid;
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169 margin: 0 auto;
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170 border: 1px dashed rgba(4, 4, 4, 0.35);
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171 text-align: center;
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172 grid-template-columns: repeat(2,1fr);
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173 grid-template-rows: repeat(2,20vw);
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174 grid-gap: 5px;
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175 }}
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176 .snapshot_gallery__img {{
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177 width: 100%;
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178 height: 100%;
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179 object-fit: contain;
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180 }}
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181 .subheader{{
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182 text-align:center;
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183 font-size: 160%;
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184 color:#363333;}}
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185 </style>
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186 </head>
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187 <body>
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188 <h1 style="text-align:center; color:#363333">SpyBOAT Results Report</h1>
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189 <hr style="width:50%">
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190 <h1 class="subheader"> Distribution Dynamics </h1>
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191 <div class="distr_gallery">
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192 <figure class=”distr_gallery__item distr_gallery__item--1">
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193 <img src="period_distr.png" alt="Period" class="distr_gallery__img">
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194 </figure>
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195
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196 <figure class=”distr_gallery__item distr_gallery__item--2">
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197 <img src="power_distr.png" alt="Power" 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--3">
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201 <img src="phase_distr.png" alt="Phase" class="distr_gallery__img">
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202 </figure>
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203
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204 </div>
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205
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206 <h1 class="subheader"> Output Movie Snapshots </h1>
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207
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208 <!-- trigger the javascript at the end--->
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209 <div class="center">
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210 <button class="w3-button" onclick="plusDivs(-1)">&#10094; Prev</button>
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211 <button class="w3-button" onclick="plusDivs(1)">Next &#10095;</button>
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212 </div>
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213
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214 <!-- defines all elements of the "FrameSlides" class --->
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215 {galleries}
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216 </div>
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217
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218 <!-- javascript with escaped '{{'--->
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219 <script>
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220 var slideIndex = 1;
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221 showDivs(slideIndex);
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222
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223 function plusDivs(n) {{
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224 showDivs(slideIndex += n);
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225 }}
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226
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227 function showDivs(n) {{
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228 var i;
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229 var x = document.getElementsByClassName("FrameSlides");
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230 if (n > x.length) {{slideIndex = 1}}
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231 if (n < 1) {{slideIndex = x.length}} ;
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232 for (i = 0; i < x.length; i++) {{
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233 x[i].style.display = "none";
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234 }}
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235 x[slideIndex-1].style.display = "block";
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236 }}
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237 </script>
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238 </body>
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239 </html>
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240 '''
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241
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242 with open(html_fname, 'w') as OUT:
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243
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244 OUT.write(html_string)
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245
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246 logger.info(f'Created html report')
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247 return html_string
1d62de03829d "planemo upload commit c6cd06d44dce1eef9136017289d362f144687dc1"
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248
1d62de03829d "planemo upload commit c6cd06d44dce1eef9136017289d362f144687dc1"
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249 # for local testing
3
4d7f30a7e2f6 "planemo upload commit d070f1ba04a5141a65487f45b29c22767639e44b"
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250 # create_html([0,20,40,60,80])