Mercurial > repos > jankanis > blast2html

comparison blast2html.html.jinja @ 53:4217bb9cf1d3

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
depend on python 3; fix internal links with multiple iterations
author Jan Kanis <jan.code@jankanis.nl>
date Mon, 26 May 2014 13:07:13 +0200
parents 3bb5da68305e
children 19c48f2ec775
comparison
equal deleted inserted replaced
52:d6c7b5de2833 53:4217bb9cf1d3
124 padding-left: .2em; 124 padding-left: .2em;
125 padding-right: .2em; 125 padding-right: .2em;
126 max-width: 50em; 126 max-width: 50em;
127 text-align: left; 127 text-align: left;
128 height: 2.8em; 128 height: 2.8em;
129 overflow-y: hidden; 129 overflow: hidden;
130 } 130 }
131 131
132 div.legend { 132 div.legend {
133 max-width: 40em; 133 max-width: 40em;
134 } 134 }
398 {% if blast.BlastOutput_iterations.findall('Iteration') | length > 1 %} 398 {% if blast.BlastOutput_iterations.findall('Iteration') | length > 1 %}
399 <section class=index> 399 <section class=index>
400 <h1>Queries</h1> 400 <h1>Queries</h1>
401 401
402 {% for result in blast.BlastOutput_iterations.Iteration %} 402 {% for result in blast.BlastOutput_iterations.Iteration %}
403 <div class=indexentry><a href="#match{{result['Iteration_iter-num']}}"> 403 <div class=indexentry><a href="#match{{result|nodeid}}">
404 {% set hits = result|hits %} 404 {% set hits = result|hits %}
405 {{result['Iteration_query-ID']}}: {{result['Iteration_query-def']}} 405 {{result['Iteration_query-ID']}}: {{result['Iteration_query-def']}}
406 ({{result|len}} letters, {{hits|length}} hits) 406 ({{result|len}} letters, {{hits|length}} hits)
407 </a></div> 407 </a></div>
408 {% endfor %} 408 {% endfor %}
410 </section> 410 </section>
411 {% endif %} 411 {% endif %}
412 412
413 {% for result in blast.BlastOutput_iterations.Iteration %} 413 {% for result in blast.BlastOutput_iterations.Iteration %}
414 414
415 <section class=match id=match{{result['Iteration_iter-num']}}> 415 <section class=match id=match{{result|nodeid}}>
416 416
417 <h1>Nucleotide Sequence ({{result|len}} letters)</h1> 417 <h1>Nucleotide Sequence ({{result|len}} letters)</h1>
418 418
419 <section class=header> 419 <section class=header>
420 420
442 <h2>Graphic Summary</h2> 442 <h2>Graphic Summary</h2>
443 443
444 <div class=grey> 444 <div class=grey>
445 <h3 class=centered>Distribution of {{result|length}} Blast Hits on the Query Sequence</h3> 445 <h3 class=centered>Distribution of {{result|length}} Blast Hits on the Query Sequence</h3>
446 446
447 <div class=defline id=defline{{result['Iteration_iter-num']}}> 447 <div class=defline id=defline{{result|nodeid}}>
448 Mouse-over to show defline and scores, click to show alignments 448 Mouse-over to show defline and scores, click to show alignments
449 </div> 449 </div>
450 450
451 <div class=graphic> 451 <div class=graphic>
452 <h4 class=darkHeader>Color key for alignment scores</h4> 452 <h4 class=darkHeader>Color key for alignment scores</h4>
480 <div style="clear: left"></div> 480 <div style="clear: left"></div>
481 </div> 481 </div>
482 482
483 {% for line in result|match_colors %} 483 {% for line in result|match_colors %}
484 <a class=matchresult 484 <a class=matchresult
485 href="{{line.link}}" 485 href="#hit{{line.hit|nodeid}}"
486 onmouseover='document.getElementById("defline{{result['Iteration_iter-num']}}").innerHTML="{{line.defline|js_string_escape}}"' 486 onmouseover='document.getElementById("defline{{result|nodeid}}").innerHTML="{{line.defline|js_string_escape}}"'
487 onmouseout='document.getElementById("defline{{result['Iteration_iter-num']}}").innerHTML="Mouse-over to show defline and scores, click to show alignments"' 487 onmouseout='document.getElementById("defline{{result|nodeid}}").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
488 title="{{line.defline}}"> 488 title="{{line.defline}}">
489 <div class="matchrow graphicrow"> 489 <div class="matchrow graphicrow">
490 {% for hit in line.colors %} 490 {% for hit in line.colors %}
491 <div class="matchitem graphicitem" 491 <div class="matchitem graphicitem"
492 style="background-color: {{hit[1]}}; width: {{hit[0]}}%"></div> 492 style="background-color: {{hit[1]}}; width: {{hit[0]}}%"></div>
519 <th>Ident</th> 519 <th>Ident</th>
520 <th>Accession</th> 520 <th>Accession</th>
521 </tr> 521 </tr>
522 {% for hit in result|hit_info %} 522 {% for hit in result|hit_info %}
523 <tr> 523 <tr>
524 <td><div><a href="#hit{{hit.link_id}}" 524 <td><div><a href="#hit{{hit.hit|nodeid}}"
525 title="{{hit.title}}" 525 title="{{hit.title}}"
526 id="description{{hit.link_id}}"> 526 id="description{{hit.hit|nodeid}}">
527 {{hit.title}} 527 {{hit.title}}
528 </a></div></td> 528 </a></div></td>
529 <td>{{hit.maxscore}}</td> 529 <td>{{hit.maxscore}}</td>
530 <td>{{hit.totalscore}}</td> 530 <td>{{hit.totalscore}}</td>
531 <td>{{hit.cover}}</td> 531 <td>{{hit.cover}}</td>
544 <section class=alignments> 544 <section class=alignments>
545 <h2>Alignments</h2> 545 <h2>Alignments</h2>
546 546
547 <div class=grey><div class=white> 547 <div class=grey><div class=white>
548 {% for hit in hits %} 548 {% for hit in hits %}
549 <div class=alignment id=hit{{hit.Hit_num}}> 549 <div class=alignment id=hit{{hit|nodeid}}>
550 550
551 <div class=linkheader> 551 <div class=linkheader>
552 <div class=right><a href="#description{{hit.Hit_num}}">Descriptions</a></div> 552 <div class=right><a href="#description{{hit|nodeid}}">Descriptions</a></div>
553 <a class=linkheader href="{{genelink(hit|hitid)}}">GenBank</a> 553 <a class=linkheader href="{{genelink(hit|hitid)}}">GenBank</a>
554 <a class=linkheader href="{{genelink(hit|hitid, 'graph')}}">Graphics</a> 554 <a class=linkheader href="{{genelink(hit|hitid, 'graph')}}">Graphics</a>
555 </div> 555 </div>
556 556
557 <div class=title> 557 <div class=title>
562 <span class=b>Number of Matches:</span> {{hit.Hit_hsps.Hsp|length}} 562 <span class=b>Number of Matches:</span> {{hit.Hit_hsps.Hsp|length}}
563 </p> 563 </p>
564 </div> 564 </div>
565 565
566 {% if hit|othertitles|length %} 566 {% if hit|othertitles|length %}
567 <a class=showmoretitles onclick="toggle_visibility('moretitles{{hit.Hit_num|js_string_escape}}'); return false;" href=''> 567 <a class=showmoretitles onclick="toggle_visibility('moretitles{{hit|nodeid|js_string_escape}}'); return false;" href=''>
568 See {{hit|othertitles|length}} more title(s) 568 See {{hit|othertitles|length}} more title(s)
569 </a> 569 </a>
570 570
571 <div class=moretitles id=moretitles{{hit.Hit_num}} style="display: none"> 571 <div class=moretitles id=moretitles{{hit|nodeid}} style="display: none">
572 {% for title in hit|othertitles %} 572 {% for title in hit|othertitles %}
573 <div class=title> 573 <div class=title>
574 <p class=hittitle>{{title.title}}</p> 574 <p class=hittitle>{{title.title}}</p>
575 <p class=titleinfo> 575 <p class=titleinfo>
576 <span class=b>Sequence ID:</span> <a href="{{genelink(title.hitid)}}">{{title.id}}</a> 576 <span class=b>Sequence ID:</span> <a href="{{genelink(title.hitid)}}">{{title.id}}</a>
579 {% endfor %} 579 {% endfor %}
580 </div> 580 </div>
581 {% endif %} 581 {% endif %}
582 582
583 {% for hsp in hit.Hit_hsps.Hsp %} 583 {% for hsp in hit.Hit_hsps.Hsp %}
584 <div class=hotspot> 584 <div class=hotspot id=hotspot{{hsp|nodeid}}>
585 <p class=range> 585 <p class=range>
586 <span class=range>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</span> 586 <span class=range>Range {{hsp.Hsp_num}}: {{hsp['Hsp_hit-from']}} to {{hsp['Hsp_hit-to']}}</span>
587 <a class=range href="{{genelink(hit|hitid, 'genbank', hsp)}}">GenBank</a> 587 <a class=range href="{{genelink(hit|hitid, 'genbank', hsp)}}">GenBank</a>
588 <a class=range href="{{genelink(hit|hitid, 'graph', hsp)}}">Graphics</a> 588 <a class=range href="{{genelink(hit|hitid, 'graph', hsp)}}">Graphics</a>
589 </p> 589 </p>