Mercurial > repos > davidmurphy > codonlogo

comparison weblogolib/htdocs/create_html_template.html @ 7:8d676bbd1f2d

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author davidmurphy
date Mon, 16 Jan 2012 07:03:36 -0500
parents c55bdc2fb9fa
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6:4a4aca3d57c9 7:8d676bbd1f2d
1 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01//EN"
2 "http://www.w3.org/TR/html4/transitional.dtd">
3 <html>
4 <head>
5 <link rel="stylesheet" type="text/css" href="logo.css" >
6
7
8 <title>CodonLogo 1.0- Create </title>
9 <meta name="author" content="Gavin E. Crooks" >
10
11
12 <style type="text/css">
13 td {
14 border-left : white solid 4pt
15 }
16 .error {
17 color: #900;
18 border-left: red solid +4pt;
19 }
20
21 .err_msg {
22 color: #900;
23 }
24
25 </style>
26 </head>
27
28 <body style="align:center">
29
30
31
32
33
34 <form method="post" action="create.cgi" enctype="multipart/form-data" >
35 <table width="80%" border = '0' cellspacing='0' cellpadding='1' align="center">
36 <tr><td >
37 <h1> Codonlogo 1.0 : Create</h1>
38
39 </td><td align = "right">
40 &middot;
41 <a href="./">about</a>&nbsp;&middot;
42 <a class="selected" href="create.cgi">create</a>&nbsp;&middot;
43 <a href="examples.html">examples</a>&nbsp;&middot;
44 <a href="manual.html">manual</a>&nbsp;&middot;
45 <br>
46 <span style="font-size:small">$version</span>&nbsp;&nbsp;
47 </td></tr>
48
49 <tr><td >
50 Sequence data
51 </td><td >
52 <input type="file" name="sequences_file" >
53 </td></tr>
54
55 <tr><td >
56 </td><td>
57 <span style="font-size:small ">(or paste sequence data below)</span>
58 </td></tr>
59
60
61
62 <tr><td colspan='2' ${sequences_err} >
63 <textarea name="sequences" rows="12" cols ="100" style="width:100%">${sequences}</textarea>
64 </td></tr>
65
66
67
68 <tr><td>
69 </td><td align="right">
70 <input style="font-size:large" type="submit" name="cmd_create" value="&nbsp;Create&nbsp;Logo&nbsp;&nbsp;&nbsp;&nbsp;" > <br>
71 <span style="font-size:small"><input type="checkbox" name="download" value="false" >Download</span>
72 </td></tr>
73
74
75 <!-- Reset defaults must come after create_logo so that hitting enter creates a logo-->
76 <!--
77 <tr><td>
78 <input type="submit" name="cmd_reset" value="Reset defaults" >
79 </td><td class="err_msg" rowspan="2">
80 ${error_message} &nbsp;
81 </td></tr>
82 <tr><td>&nbsp;</td></tr>
83 -->
84
85 <tr><td colspan='2' style="height:30pt;border-left-width:90pt;" class="err_msg">
86 ${error_message}
87 </td></tr>
88
89
90
91 <tr><td ${format_err} >
92 Output format </td><td>
93 <select name="format">
94 <option ${png} value="png">PNG (low res.)</option>
95 <option ${png_print} value="png_print">PNG (high res.)</option>
96 <option ${jpeg} value="jpeg">JPEG (low res.)</option>
97 <option ${eps} value="eps">EPS (vector)</option>
98 <option ${pdf} value="pdf">PDF (vector)</option>
99 <option ${txt} value="txt">Data (plain text)</option>
100 </select>
101
102 </td></tr>
103
104 <tr><td ${size_err} >
105 Logo size
106 </td><td >
107 <select name="size" >
108 <option ${small} >small</option>
109 <option ${medium}>medium</option>
110 <option ${large} >large</option>
111 </select>
112 </td></tr>
113
114
115 <tr><td ${stacks_per_line_err}>
116 Stacks per line
117 </td><td>
118 <input type="text" name="stacks_per_line" value="${stacks_per_line}" size="4" maxlength="4" >
119 </td></tr>
120
121 <tr><td ${alphabet_err}>
122 Sequence type </td><td>
123
124 <select name="alphabet">
125 <option ${alphabet_auto} value="alphabet_auto" >auto</option>
126 <option ${alphabet_protein} value="alphabet_protein">protein</option>
127 <option ${alphabet_dna} value="alphabet_dna">dna</option>
128 <option ${alphabet_rna} value="alphabet_rna">rna</option>
129 </select>
130 </td></tr>
131
132 <tr><td>
133 Ignore lower case
134 </td><td>
135 <input type="checkbox" name="ignore_lower_case" value="true" ${ignore_lower_case} >
136 </td></tr>
137
138 <tr><td>
139 Use codons:
140 </td><td>
141 <input type="checkbox" name="altype" value="true" ${altype} >
142 </td></tr>
143
144
145 <tr><td>
146 Units </td><td>
147 <select name="unit_name" >
148 <option ${probability} >probability</option>
149 <option ${bits} >bits</option>
150 <option ${nats} >nats</option>
151 <option ${kT} >kT</option>
152 <option ${kJ_mol} >kJ/mol</option>
153 <option ${kcal_mol} >kcal/mol</option>
154 </select>
155
156 </td></tr>
157
158 <tr><td ${first_index_err}>
159 First position number
160 </td><td>
161 <input type="text" name="first_index" value="${first_index}" size="4" maxlength="80" >
162 </td></tr>
163
164 <tr><td ${logo_range_err} >
165 Logo range </td><td>
166 <input type="text" name="logo_start" value="${logo_start}" size="4" maxlength="80" > - <input type="text" name="logo_end" value="${logo_end}" size="4" maxlength="80" >
167 </td></tr>
168
169
170
171 <tr><td ${composition_err}>
172 Composition
173 </td><td>
174 <select name="composition" >
175 <option ${comp_none} value = "comp_none" >No adjustment for composition</option>
176 <option ${comp_auto} value = "comp_auto" >auto</option>
177 <option ${comp_equiprobable} value = "comp_equiprobable" >equiprobable</option>
178 <option ${comp_CG} value="comp_CG" >Percentage CG &#8658;</option>
179 <option ${comp_Celegans} value="comp_Celegans" >C. elegans (36%) </option>
180 <option ${comp_Dmelanogaster} value="comp_Dmelanogaster" >D. melanogaster (43%)</option>
181 <option ${comp_Ecoli} value="comp_Ecoli" >E. coli (50.5%) </option>
182 <option ${comp_Hsapiens} value="comp_Hsapiens" >H. sapiens (40%) </option>
183 <option ${comp_Mmusculus} value="comp_Mmusculus" >M. musculus (42%)</option>
184 <option ${comp_Scerevisiae} value="comp_Scerevisiae" >S. cerevisiae (38%) </option>
185 </select>
186 or
187 <input type="text" name="percentCG" value="${percentCG}" size="4" maxlength="8" > % CG
188 </td></tr>
189
190 <tr><td>
191 Scale stack widths
192 </td><td>
193 <input type="checkbox" name="scale_width" value="true" ${scale_width} >
194 </td></tr>
195
196 <tr><td>
197 Error bars
198 </td><td>
199 <input type="checkbox" name="show_errorbars" value="true" ${show_errorbars} >
200 </td></tr>
201
202
203
204
205
206
207 <tr ><td ${logo_title_err}>
208 Title
209 </td><td >
210 <input type="text" name="logo_title" size="52" maxlength="80" value="${logo_title}" >
211 </td></tr>
212
213 <tr><td>
214 Figure label</td><td>
215 <input type="text" name="logo_label" value="${logo_label}" size="4" maxlength="100" >
216 </td></tr>
217
218
219 <tr><td>
220 X-axis
221 </td><td>
222 <input type="checkbox" name="show_xaxis" value="true" ${show_xaxis} >
223 Label:
224 <input type="text" name="xaxis_label" value="${xaxis_label}" size="20" maxlength="100" >
225 </td></tr>
226
227
228 <tr><td>
229 Y-axis
230 </td><td>
231 <input type="checkbox" name="show_yaxis" value="true" ${show_yaxis} >
232 Label: <input type="text" name="yaxis_label" value="${yaxis_label}" size="20" maxlength="32" >
233
234 </td></tr>
235
236 <tr><td ${yaxis_scale_err} >
237 Y-axis scale:
238 </td><td>
239 <input type="text" name="yaxis_scale" value="${yaxis_scale}" size="4" maxlength="100" >
240 </td></tr>
241
242 <tr><td ${yaxis_tic_interval_err} >
243 Y-axis tic spacing:
244 </td><td>
245 <input type="text" name="yaxis_tic_interval" value="${yaxis_tic_interval}" size="4" maxlength="100" >
246 </td></tr>
247
248
249
250 <tr><td>
251 Sequence end labels
252 </td><td>
253 <input type="checkbox" name="show_ends" value="true" ${show_ends} >
254 </td></tr>
255
256 <tr><td>
257 Version fineprint
258 </td><td>
259 <input type="checkbox" name="show_fineprint" value="true" ${show_fineprint} >
260 </td></tr>
261
262
263
264
265 <tr><td ${color_scheme_err}>Color scheme
266 </td><td>
267 <select name="color_scheme" >
268 <option ${color_auto} value="color_auto">Auto</option>
269 <option ${color_monochrome} value="color_monochrome" >Monochrome</option>
270 <option ${color_base_pairing} value="color_base_pairing">Base pairing (NA default)</option>
271 <option ${color_classic} value="color_classic">Classic (NA)</option>
272 <option ${color_hydrophobicity} value="color_hydrophobicity">Hydrophobicity (AA default)</option>
273 <option ${color_chemistry} value="color_chemistry">Chemistry (AA)</option>
274 <option ${color_charge} value="color_charge">Charge (AA)</option>
275 <option ${color_custom} value="color_custom">Custom (Specify below)</option>
276 </select>
277 <!--&nbsp; Color key:
278 <input type="checkbox" name="show_color_key" value="true" ${show_color_key} disabled >
279 -->
280 </td></tr>
281
282 <tr><td></td><td>
283 <table cellpadding="0" cellspacing="0" style="font-size:small">
284 <tr>
285 <td>Symbols</td><td>Color</td> <!--<td>Description</td>-->
286 </tr>
287
288 <tr >
289 <td ${color0_err}><input name="symbols0" type="text" size="16" maxlength="64" value="${symbols0}"></td>
290 <td><input name="color0" type="text" size="16" maxlength="64" value="${color0}"></td>
291 <!--<td><input name="desc0" size="16" maxlength="64" value="${desc0}"></td> -->
292 </tr>
293
294 <tr >
295 <td ${color1_err}><input name="symbols1" type="text" size="16" maxlength="64" value="${symbols1}"></td>
296 <td><input name="color1" type="text" size="16" maxlength="64" value="${color1}"></td>
297 <!--<td><input name="desc1" size="16" maxlength="64" value="${desc1}"></td>-->
298 </tr>
299
300 <tr>
301 <td ${color2_err}><input name="symbols2" type="text" size="16" maxlength="64" value="${symbols2}"></td>
302 <td><input name="color2" type="text" size="16" maxlength="64" value="${color2}"></td>
303 <!--<td><input name="desc2" size="16" maxlength="64" value="${desc2}"></td>-->
304 </tr>
305
306 <tr>
307 <td ${color3_err}><input name="symbols3" type="text" size="16" maxlength="64" value="${symbols3}"></td>
308 <td><input name="color3" type="text" size="16" maxlength="64" value="${color3}"></td>
309 <!--<td><input name="desc3" size="16" maxlength="64" value="${desc3}"></td>-->
310 </tr>
311
312 <tr>
313 <td ${color4_err}><input name="symbols4" type="text" size="16" maxlength="64" value="${symbols4}"></td>
314 <td><input name="color4" type="text" size="16" maxlength="64" value="${color4}"></td>
315 <!--<td><input name="desc4" size="16" maxlength="64" value="${desc4}"></td>-->
316 </tr>
317
318
319
320 </table>
321 </td></tr>
322
323 <tr><td>
324 &nbsp;
325 </td><td>
326 &nbsp;
327 </td></tr>
328
329 <tr><td>
330 <input type="submit" name="cmd_reset" value="Reset defaults" >
331 </td><td align="right">
332 <input style="font-size:large" type="submit" name="cmd_create" value="&nbsp;Create&nbsp;Logo&nbsp;&nbsp;&nbsp;&nbsp;" >
333 </td></tr>
334
335
336
337
338 </table>
339 </form>
340
341 <script type="text/javascript">
342 var gaJsHost = (("https:" == document.location.protocol) ? "https://ssl." : "http://www.");
343 document.write(unescape("%3Cscript src='" + gaJsHost + "google-analytics.com/ga.js' type='text/javascript'%3E%3C/script%3E"));
344 </script>
345 <script type="text/javascript">
346 var pageTracker = _gat._getTracker("UA-5951066-1");
347 pageTracker._trackPageview();
348 </script>
349 </body>
350 </html>