Mercurial > repos > public-health-bioinformatics > blast_report_basic
comparison templates/template2.tmpl @ 0:a61ee7b075c0 draft default tip
"planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/blob/master/tools/blast_report_basic commit b9c92df78fd78bf5881ab0cc5f5692d2bc71f5f6"
| author | public-health-bioinformatics |
|---|---|
| date | Tue, 03 Mar 2020 06:11:45 -0500 |
| parents | |
| children |
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| -1:000000000000 | 0:a61ee7b075c0 |
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| 1 #silent import time | |
| 2 #set $display_m = 20 | |
| 3 #set $header = '<tr class="header"><th>Accession</th><th>Description</th><th>Score</th><th>% Coverage</th><th>% Identity</th></tr>' | |
| 4 <html> | |
| 5 <head> | |
| 6 <style> | |
| 7 body { | |
| 8 font-size:0.75em; | |
| 9 } | |
| 10 table, tr { | |
| 11 width: 100%; | |
| 12 } | |
| 13 table { | |
| 14 border-collapse: collapse; | |
| 15 border: 1px solid black; | |
| 16 } | |
| 17 tr.header { | |
| 18 background-color: lightgrey; | |
| 19 } | |
| 20 th { | |
| 21 border: 1px solid black; | |
| 22 } | |
| 23 td { | |
| 24 border-left: 1px solid black; | |
| 25 border-right: 1px solid black; | |
| 26 border-bottom: 1px dashed grey; | |
| 27 } | |
| 28 td.descr { | |
| 29 font-size: 80%; | |
| 30 } | |
| 31 h3 { | |
| 32 page-break-before: always; | |
| 33 color: blue; | |
| 34 } | |
| 35 h3.first { | |
| 36 page-break-before: avoid; | |
| 37 } | |
| 38 span.super { | |
| 39 color: navy; | |
| 40 font-size: 75%; | |
| 41 vertical-align: top; | |
| 42 } | |
| 43 </style> | |
| 44 <script> | |
| 45 function toggle(id){ | |
| 46 var element = document.getElementById(id) | |
| 47 console.log(id) | |
| 48 if (element.style.display == 'none') { | |
| 49 //console.log(element.tagName); | |
| 50 if (element.tagName == 'TBODY') element.style.display = 'table-row-group'; | |
| 51 else if (element.tagName == 'TD') element.style.display = 'table-cell'; | |
| 52 else element.style.display = 'block'; | |
| 53 } else { | |
| 54 element.style.display = 'none'; | |
| 55 } | |
| 56 } | |
| 57 </script> | |
| 58 </head> | |
| 59 <body> | |
| 60 #set $q = 0 | |
| 61 #for $query in $queries | |
| 62 #set $bin_symbols = dict([($bin,$i) for $i, $bin in enumerate($query.bins, 1)]) | |
| 63 #set $m = 0 | |
| 64 <h3 id="${query.query_id}" #if $q == 0 then'class="first"' else '' #>$query.query_id</h3> | |
| 65 <br/> | |
| 66 <table id="${query.query_id}_matches"> | |
| 67 #set $num_of_euzby = -1 | |
| 68 #if len($query.matches) == 0: | |
| 69 <tr class="header"><th colspan="5">No matches to report</th></tr> | |
| 70 </table> | |
| 71 #else: | |
| 72 $header | |
| 73 #try | |
| 74 #set $priority = $query.bins['Euzby'] | |
| 75 #set $front = [] | |
| 76 #for $i in reversed($priority) | |
| 77 #silent $front.append($query.matches.pop($i)) | |
| 78 #end for | |
| 79 #set $num_of_euzby = len($front) | |
| 80 #silent $front.reverse() | |
| 81 #silent $front.extend($query.matches) | |
| 82 #set $query.matches = $front | |
| 83 #except | |
| 84 #pass | |
| 85 #end try | |
| 86 #for $match in $query.matches: | |
| 87 #if $m == $display_m | |
| 88 <tbody id="${query.query_id}_extra" style="display:none"> | |
| 89 #end if | |
| 90 ##if $m>0 and set($match.bins)!=set($query.matches[m-1].bins) | |
| 91 ##put an empty line to separate Euzby records from other records | |
| 92 #if $m==$num_of_euzby and $m>0 | |
| 93 <tr><td align="center" colspan="6"> </td></tr> | |
| 94 #end if | |
| 95 <tr> | |
| 96 <td>$match.subject_acc <span class="super">#echo ', '.join(sorted([str($bin_symbols[$bin]) for $bin in $match.bins]))#</span></td> | |
| 97 <td class="descr">$match.subject_descr</td> | |
| 98 <td>$match.score</td> | |
| 99 <td>$match.p_cov</td> | |
| 100 <td>$match.p_ident</td> | |
| 101 </tr> | |
| 102 #set $m += 1 | |
| 103 #end for | |
| 104 #if $m >= $display_m | |
| 105 </tbody> | |
| 106 <td id="${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> | |
| 107 <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 - $display_m # results.</a></td> | |
| 108 <tr> | |
| 109 </tr> | |
| 110 #end if | |
| 111 </table> | |
| 112 #if len($bin_symbols) > 0: | |
| 113 <p>#echo ', '.join(['<span class="super">%s</span> %s'%($bin_symbols[$bin],$bin) for $bin in $query.bins])#</p> | |
| 114 #end if | |
| 115 #end if | |
| 116 #if $query.pident_filtered > 0: | |
| 117 <p>$query.pident_filtered results filtered by % Identity.</p> | |
| 118 #end if | |
| 119 #if $query.kw_filtered > 0: | |
| 120 <p>$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> | |
| 121 #end if | |
| 122 <p>Report produced on #echo time.strftime("%d/%m/%Y") #.</p> | |
| 123 <hr noshade size="1" color="blue"> | |
| 124 #set $q += 1 | |
| 125 #end for | |
| 126 </body> | |
| 127 </html> |