Mercurial > repos > dfornika > blast_report_basic

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author dfornika
date Tue, 03 Mar 2020 10:55:25 +0000
parents 5dfd84907521
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
dfornika
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1 #silent import time
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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2 #set $display_m = 20
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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3 #set $header = '<tr class="header"><th>Accession</th><th>Description</th><th>Score</th><th>% Coverage</th><th>% Identity</th></tr>'
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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4 <html>
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5 <head>
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6 <style>
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7 body {
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8 font-size:0.75em;
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9 }
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10 table, tr {
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11 width: 100%;
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12 }
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13 table {
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14 border-collapse: collapse;
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15 border: 1px solid black;
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16 }
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17 tr.header {
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18 background-color: lightgrey;
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19 }
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20 th {
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21 border: 1px solid black;
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22 }
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23 td {
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24 border-left: 1px solid black;
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25 border-right: 1px solid black;
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26 border-bottom: 1px dashed grey;
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27 }
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28 td.descr {
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29 font-size: 80%;
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30 }
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31 h3 {
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32 page-break-before: always;
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33 color: blue;
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34 }
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35 h3.first {
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36 page-break-before: avoid;
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37 }
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38 span.super {
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39 color: navy;
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40 font-size: 75%;
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41 vertical-align: top;
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42 }
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43 </style>
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44 <script>
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45 function toggle(id){
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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46 var element = document.getElementById(id)
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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47 console.log(id)
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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48 if (element.style.display == 'none') {
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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49 //console.log(element.tagName);
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50 if (element.tagName == 'TBODY') element.style.display = 'table-row-group';
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51 else if (element.tagName == 'TD') element.style.display = 'table-cell';
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52 else element.style.display = 'block';
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53 } else {
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54 element.style.display = 'none';
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55 }
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56 }
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57 </script>
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58 </head>
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59 <body>
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60 #set $q = 0
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61 #for $query in $queries
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62 #set $bin_symbols = dict([($bin,$i) for $i, $bin in enumerate($query.bins, 1)])
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63 #set $m = 0
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64 <h3 id="${query.query_id}" #if $q == 0 then'class="first"' else '' #>$query.query_id</h3>
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65 <br/>
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66 <table id="${query.query_id}_matches">
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67 #if len($query.matches) == 0:
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68 <tr class="header"><th colspan="5">No matches to report</th></tr>
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69 </table>
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70 #else:
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71 $header
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72 #for $match in $query.matches:
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73 #if $m == $display_m
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74 <tbody id="${query.query_id}_extra" style="display:none">
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75 #end if
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76 <tr>
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77 <td>$match.subject_acc <span class="super">#echo ', '.join(sorted([str($bin_symbols[$bin]) for $bin in $match.bins]))#</span></td>
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78 <td class="descr">$match.subject_descr</td>
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79 <td>$match.score</td>
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80 <td>$match.p_cov</td>
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81 <td>$match.p_ident</td>
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82 </tr>
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83 #set $m += 1
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84 #end for
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85 #if $m >= $display_m
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86 </tbody>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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87 <td id="${query.query_id}_show" align="center" colspan="6" >Displaying ${display_m}/$m matches. <a href="#${query.query_id}_extra" onclick="toggle('${query.query_id}_extra'); toggle('${query.query_id}_show'); toggle('${query.query_id}_hide');">Show the remaining results.</a></td>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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88 <td id="${query.query_id}_hide" align="center" colspan="6" style="display:none"><a href="#${query.query_id}" onclick="toggle('${query.query_id}_extra'); toggle('${query.query_id}_show'); toggle('${query.query_id}_hide');">Hide the last #echo $m - $display_m # results.</a></td>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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89 <tr>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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90 </tr>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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91 #end if
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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92 </table>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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93 #if len($bin_symbols) > 0:
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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94 <p>#echo ', '.join(['<span class="super">%s</span> %s'%($bin_symbols[$bin],$bin) for $bin in $query.bins])#</p>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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95 #end if
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96 #end if
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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97 #if $query.pident_filtered > 0:
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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98 <p>$query.pident_filtered results filtered by % Identity.</p>
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99 #end if
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100 #if $query.kw_filtered > 0:
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101 <p>$query.kw_filtered results filtered by description keywords: #echo ', '.join(list(["%s matches to '%s'" % (str($query.kw_filtered_breakdown[$kw]),$kw) for $kw in $query.kw_filtered_breakdown])) #.</p>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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102 #end if
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103 <p>Report produced on #echo time.strftime("%d/%m/%Y") #.</p>
5dfd84907521 planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit bc359460bb66db7946cc68ccbd47cd479624c4a1-dirty
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104 <hr noshade size="1" color="blue">
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105 #set $q += 1
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106 #end for
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107 </body>
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108 </html>