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comparison output_report.py @ 1:639d2031d998 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/spyboat commit 88e9d9a220d160f55e0472719bb463143a4eefa5"
author iuc
date Mon, 30 Nov 2020 21:11:23 +0000
parents 76733d05d8ef
children
comparison
equal deleted inserted replaced
0:76733d05d8ef 1:639d2031d998
84 fig.savefig(out_path, dpi=DPI) 84 fig.savefig(out_path, dpi=DPI)
85 85
86 logger.info("Produced 3 distribution plots..") 86 logger.info("Produced 3 distribution plots..")
87 87
88 88
89 def create_html(frame_nums, html_fname="OutputReport.html"): 89 def create_html(frame_nums, par_str, html_fname="OutputReport.html"):
90 """ 90 """
91 The html generated assumes the respective png's 91 The html generated assumes the respective png's
92 have been created with 'produce_snapshots' and 'produce_distr_plots' 92 have been created with 'produce_snapshots' and 'produce_distr_plots'
93 and can be found at the cwd (that's how Galaxy works..) 93 and can be found at the cwd (that's how Galaxy works..)
94 """ 94 """
103 Frame Nr. {frame_num} </h3> 103 Frame Nr. {frame_num} </h3>
104 104
105 <div class="snapshot_gallery"> 105 <div class="snapshot_gallery">
106 106
107 <figure class=”snapshot_gallery__item 107 <figure class=”snapshot_gallery__item
108 snapshot_gallery__item--1"> 108 snapshot_gallery__item--1" style="margin: 0 0">
109 <img src="input_frame{frame_num}.png" alt="The Input" 109 <img src="input_frame{frame_num}.png" alt="The Input"
110 class="snapshot_gallery__img"> 110 class="snapshot_gallery__img">
111 </figure> 111 </figure>
112 112
113 <figure class=”snapshot_gallery__item 113 <figure class=”snapshot_gallery__item
114 snapshot_gallery__item--2"> 114 snapshot_gallery__item--2" style="margin: 0 0">
115 <img src="phase_frame{frame_num}.png" alt="Phase" 115 <img src="phase_frame{frame_num}.png" alt="Phase"
116 class="snapshot_gallery__img"> 116 class="snapshot_gallery__img">
117 </figure> 117 </figure>
118 118
119 <figure class=”snapshot_gallery__item 119 <figure class=”snapshot_gallery__item
120 snapshot_gallery__item--3"> 120 snapshot_gallery__item--3" style="margin: 0 0">
121 <img src="period_frame{frame_num}.png" 121 <img src="period_frame{frame_num}.png"
122 alt="Period" class="snapshot_gallery__img"> 122 alt="Period" class="snapshot_gallery__img">
123 </figure> 123 </figure>
124 124
125 <figure class=”snapshot_gallery__item 125 <figure class=”snapshot_gallery__item
126 snapshot_gallery__item--4"> 126 snapshot_gallery__item--4" style="margin: 0 0">
127 <img src="amplitude_frame{frame_num}.png" 127 <img src="amplitude_frame{frame_num}.png"
128 alt="Amplitude" class="snapshot_gallery__img"> 128 alt="Amplitude" class="snapshot_gallery__img">
129 </figure> 129 </figure>
130 </div> 130 </div>
131 </div> 131 </div>
132 """ 132 """
133 galleries += new_gal 133 galleries += new_gal
134
135 parameter_cells = ''
136 for line in par_str.split('\n'):
137 # last str is empty..
138 if not line:
139 break
140 par_name, par_val = line.split('->')
141 parameter_cells += f'''
142 <tr>
143 <td>{par_name}</td>
144 <td>{par_val}</td>
145 </tr>'''
134 146
135 html_string = f""" 147 html_string = f"""
136 <html> 148 <html>
137 <!-- this file got automatically created by 'output_report.py' --> 149 <!-- this file got automatically created by 'output_report.py' -->
138 <title>SpyBOAT Output Report</title> 150 <title>SpyBOAT Output Report</title>
139 <head> 151 <head>
140 <!-- that doesn't work with galaxy.. --> 152 <!-- that doesn't work with galaxy.. -->
141 <!--link rel="stylesheet" href="styles.css"--> 153 <!--link rel="stylesheet" href="styles.css"-->
142 <style type="text/css"> 154 <style type="text/css">
143 body{{ margin:10 100; background:whitesmoke; }} 155 body{{ margin:10 100; background:whitesmoke; }}
144 /*body{{ margin:10 100; background:darkslategrey; }}*/ 156 p{{
157 text-align: center;
158 margin-top: 0.05cm;
159 margin-bottom: .05cm;
160 color:#2c2e2e;
161 }}
145 .center{{ 162 .center{{
146 text-align: center; 163 text-align: center;
147 display: block; 164 display: block;
148 margin-left: auto; 165 margin-left: auto;
149 margin-right: auto; 166 margin-right: auto;
150 width: 100%;}} 167 width: 100%;}}
151 168
152 /* matplotlib output at 1600x1200 */ 169 /* matplotlib output at 1600x1200 */
153 .distr_gallery {{ 170 .snapshot_gallery {{
171 margin: 0 0;
172 text-align: center;
154 display: grid; 173 display: grid;
155 margin: 0 auto;
156 text-align: center;
157 /* border: 1px dashed rgba(4, 4, 4, 0.35); */
158 grid-template-columns: repeat(3,1fr);
159 grid-template-rows: 20vw;
160 grid-gap: 0px;
161 column-gap: 0px
162 }}
163 .distr_gallery__img {{
164 width: 100%;
165 height: 100%;
166 object-fit: contain;
167 }}
168
169
170 /* matplotlib output at 1600x1200 */
171 .snapshot_gallery {{
172 display: grid;
173 margin: 0 auto;
174 border: 1px dashed rgba(4, 4, 4, 0.35);
175 text-align: center;
176 grid-template-columns: repeat(2,1fr); 174 grid-template-columns: repeat(2,1fr);
177 grid-template-rows: repeat(2,20vw); 175 grid-template-rows: repeat(2,27vw);
178 grid-gap: 5px; 176 grid-gap: 5px;
179 }} 177 }}
178
180 .snapshot_gallery__img {{ 179 .snapshot_gallery__img {{
181 width: 100%; 180 width: 100%;
182 height: 100%; 181 height: 100%;
183 object-fit: contain; 182 object-fit: contain;
183 margin-top: 5px;
184 margin-bottom: 15px;
184 }} 185 }}
185 .subheader{{ 186 .subheader{{
186 text-align:center; 187 text-align:center;
187 font-size: 160%; 188 font-size: 160%;
188 color:#363333;}} 189 color:#363333;}}
190 .centerimg{{
191 text-align: center;
192 width: 65%;
193 max-width: 400px;
194 display: block;
195 padding: 10px;
196 margin-left: auto;
197 margin-right: auto;
198 }}
199
200 .div_distr{{
201 text-align: center;
202 border-radius: 25px;
203 margin-top: 1cm;
204 margin: auto;
205 margin-bottom: 0.5cm;
206 background-color: #cce1e3;
207 max-width: 550px;
208 }}
209
210 .partable{{
211 width: 70%;
212 margin-left: auto;
213 margin-right: auto;
214 }}
215
216 tr, td{{
217 color:#2c2e2e;
218 font-size: 110%;
219 }}
220
189 </style> 221 </style>
190 </head> 222 </head>
191 <body> 223 <body>
192 <h1 style="text-align:center; color:#363333">SpyBOAT Results Report</h1> 224 <h1 style="text-align:center; color:#363333">SpyBOAT Results Report</h1>
193 <hr style="width:50%"> 225 <hr style="width:70%">
194 <h1 class="subheader"> Distribution Dynamics </h1> 226
195 <div class="distr_gallery"> 227 <h1 class="subheader"> Spatial Summary Statistics </h1>
196 <figure class=”distr_gallery__item distr_gallery__item--1"> 228 <div class="div_distr">
197 <img src="period_distr.png" alt="Period" class="distr_gallery__img"> 229 <img src="period_distr.png" alt="Period"
198 </figure> 230 class="centerimg">
199 231 <p> Median and quartiles of the estimated periods for each frame </p>
200 <figure class=”distr_gallery__item distr_gallery__item--2"> 232 </div>
201 <img src="power_distr.png" alt="Power" class="distr_gallery__img"> 233
202 </figure> 234
203 235 <div class="div_distr">
204 <figure class=”distr_gallery__item distr_gallery__item--3"> 236 <img src="power_distr.png" alt="Period"
205 <img src="phase_distr.png" alt="Phase" class="distr_gallery__img"> 237 class="centerimg">
206 </figure> 238 <p> Median and quartiles of the ridge wavelet power for each frame </p>
239 </div>
240 <div class="div_distr">
241 <img src="phase_distr.png" alt="Period"
242 class="centerimg">
243 <p> Kuramoto order parameter for the phases estimated for each frame </p>
207 244
208 </div> 245 </div>
209 246
210 <h1 class="subheader"> Output Movie Snapshots </h1> 247 <h1 class="subheader"> Output Movie Snapshots </h1>
211 248
215 <button class="w3-button" onclick="plusDivs(1)">Next &#10095;</button> 252 <button class="w3-button" onclick="plusDivs(1)">Next &#10095;</button>
216 </div> 253 </div>
217 254
218 <!-- defines all elements of the "FrameSlides" class ---> 255 <!-- defines all elements of the "FrameSlides" class --->
219 {galleries} 256 {galleries}
257 </div>
258
259 <h1 class="subheader"> Parameters </h1>
260 <div class="div_distr">
261 <table border = "1" class="partable">
262 <tr>
263 <th>Name</th>
264 <th>Value</th>
265 </tr>
266 {parameter_cells}
267 </table>
220 </div> 268 </div>
221 269
222 <!-- javascript with escaped '{{'---> 270 <!-- javascript with escaped '{{'--->
223 <script> 271 <script>
224 var slideIndex = 1; 272 var slideIndex = 1;
248 296
249 logger.info("Created html report") 297 logger.info("Created html report")
250 return html_string 298 return html_string
251 299
252 # for local testing 300 # for local testing
253 # create_html([0,20,40,60,80]) 301 # create_html([0,20], 'par1 -> val1\n verylongpar2 -> val2')