Mercurial > repos > iuc > quast

comparison test-data/test3_report.html @ 16:a3b35edea53a draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/quast commit 975a3b77e7a54e4c61e8bf4cd883cde01b16f0fd
author iuc
date Tue, 12 Nov 2024 12:46:19 +0000
parents 3061c8b029e5
children
comparison
equal deleted inserted replaced
15:72472698a2df 16:a3b35edea53a
4058 4058
4059 </script> 4059 </script>
4060 4060
4061 4061
4062 <script type="text/javascript"> 4062 <script type="text/javascript">
4063 var colors = ["#FF0000","#0000FF"]; 4063 var colors = ["#FF0000"];
4064 var broken_scaffolds_labels = []; 4064 var broken_scaffolds_labels = [];
4065 </script> 4065 </script>
4066 <script type="text/javascript"> 4066 <script type="text/javascript">
4067 function addRow(metric, mainMetrics, rowName, group_n, order, glossary, isExpandable, isPrimary) { 4067 function addRow(metric, mainMetrics, rowName, group_n, order, glossary, isExpandable, isPrimary) {
4068 (function(group_n) { 4068 (function(group_n) {
4179 4179
4180 if (referenceName) { 4180 if (referenceName) {
4181 $('#reference_name').show().find('.val').html(referenceName); 4181 $('#reference_name').show().find('.val').html(referenceName);
4182 } 4182 }
4183 4183
4184 if (report[0][0] == 'Genome statistics') { // if first section is empty (no reference), swap it and w/o reference statistics 4184 if (report[0][0] == 'Alignment-based statistics') { // if first section is empty (no reference), swap it and w/o reference statistics
4185 var genomeMetrics = report[0][1]; 4185 var genomeMetrics = report[0][1];
4186 var isSectionEmpty = true; 4186 var isSectionEmpty = true;
4187 for (var index = 0; index < genomeMetrics.length; index++) { 4187 for (var index = 0; index < genomeMetrics.length; index++) {
4188 if (genomeMetrics[index].isMain || $.inArray(genomeMetrics[index].metric_name, mainMetrics) > -1) 4188 if (genomeMetrics[index].isMain || $.inArray(genomeMetrics[index].metric_name, mainMetrics) > -1)
4189 isSectionEmpty = false; 4189 isSectionEmpty = false;
4500 <div class="page_title"> 4500 <div class="page_title">
4501 <h1> 4501 <h1>
4502 QUAST 4502 QUAST
4503 </h1> 4503 </h1>
4504 <p class="page_subtitle"> 4504 <p class="page_subtitle">
4505 <b>Quality Assessment Tool for Genome Assemblies</b> 4505 <b><a href="http://quast.sf.net" class='dark_bg_link'>Quality Assessment Tool for Genome Assemblies</a></b>
4506 by <a href="http://cab.spbu.ru" class='dark_bg_link'>CAB</a>
4507 </p> 4506 </p>
4508 </div> 4507 </div>
4509 </td> 4508 </td>
4510 </tr> 4509 </tr>
4511 </table> 4510 </table>
4637 <div style="clear: left"></div> 4636 <div style="clear: left"></div>
4638 <div style="clear: right"></div> 4637 <div style="clear: right"></div>
4639 4638
4640 <div class='json-code'> 4639 <div class='json-code'>
4641 <div id='total-report-json'> 4640 <div id='total-report-json'>
4642 {"date":"07 July 2022, Thursday, 16:55:14","assembliesNames":["contigs1_fna","contigs2_fna"],"referenceName":"","order":[0,1],"report":[["Genome statistics",[]],["Reads mapping",[]],["Misassemblies",[]],["Unaligned",[]],["Mismatches",[{"metricName":"# N's per 100 kbp","quality":"Less is better","values":["0.00","0.00"],"isMain":true},{"metricName":"# N's","quality":"Less is better","values":[0,0],"isMain":false}]],["Statistics without reference",[{"metricName":"# contigs","quality":"Equal","values":[3,1],"isMain":true},{"metricName":"# contigs (>= 0 bp)","quality":"Equal","values":[3,1],"isMain":false},{"metricName":"# contigs (>= 1000 bp)","quality":"Equal","values":[3,1],"isMain":false},{"metricName":"# contigs (>= 500 bp)","quality":"Equal","values":[3,1],"isMain":false},{"metricName":"Largest contig","quality":"More is better","values":[3980,6650],"isMain":true},{"metricName":"Total length","quality":"More is better","values":[6710,6650],"isMain":true},{"metricName":"Total length (>= 0 bp)","quality":"More is better","values":[6710,6650],"isMain":false},{"metricName":"Total length (>= 1000 bp)","quality":"More is better","values":[6710,6650],"isMain":true},{"metricName":"Total length (>= 500 bp)","quality":"More is better","values":[6710,6650],"isMain":false},{"metricName":"N50","quality":"More is better","values":[3980,6650],"isMain":false},{"metricName":"N90","quality":"More is better","values":[1120,6650],"isMain":false},{"metricName":"auN","quality":"More is better","values":["2934.0","6650.0"],"isMain":false},{"metricName":"L50","quality":"Less is better","values":[1,1],"isMain":false},{"metricName":"L90","quality":"Less is better","values":[3,1],"isMain":false},{"metricName":"GC (%)","quality":"Equal","values":["51.28","52.00"],"isMain":false}]],["K-mer-based statistics",[]],["Predicted genes",[]],["Similarity statistics",[]],["Reference statistics",[]]],"subreferences":[],"subreports":[],"minContig":500} 4641 {"date":"12 November 2024, Tuesday, 11:22:11","assembliesNames":["contigs1_fna"],"referenceName":"","order":[0],"report":[["Alignment-based statistics",[]],["Reads mapping",[]],["Misassemblies",[]],["Unaligned",[]],["Per base quality",[{"metricName":"# N's per 100 kbp","quality":"Less is better","values":["0.00"],"isMain":true},{"metricName":"# N's","quality":"Less is better","values":[0],"isMain":false}]],["Statistics without reference",[{"metricName":"# contigs","quality":"Equal","values":[3],"isMain":true},{"metricName":"# contigs (>= 0 bp)","quality":"Equal","values":[3],"isMain":false},{"metricName":"# contigs (>= 1000 bp)","quality":"Equal","values":[3],"isMain":false},{"metricName":"# contigs (>= 500 bp)","quality":"Equal","values":[3],"isMain":false},{"metricName":"Largest contig","quality":"More is better","values":[3980],"isMain":true},{"metricName":"Total length","quality":"More is better","values":[6710],"isMain":true},{"metricName":"Total length (>= 0 bp)","quality":"More is better","values":[6710],"isMain":false},{"metricName":"Total length (>= 1000 bp)","quality":"More is better","values":[6710],"isMain":true},{"metricName":"Total length (>= 500 bp)","quality":"More is better","values":[6710],"isMain":false},{"metricName":"N50","quality":"More is better","values":[3980],"isMain":false},{"metricName":"N90","quality":"More is better","values":[1120],"isMain":false},{"metricName":"auN","quality":"More is better","values":["2934.0"],"isMain":false},{"metricName":"L50","quality":"Less is better","values":[1],"isMain":false},{"metricName":"L90","quality":"Less is better","values":[3],"isMain":false},{"metricName":"GC (%)","quality":"Equal","values":["51.28"],"isMain":false}]],["K-mer-based statistics",[]],["BUSCO completeness",[]],["Predicted genes",[]],["Similarity statistics",[]],["Reference statistics",[]]],"subreferences":[],"subreports":[],"minContig":500}
4643 </div> 4642 </div>
4644 <div id='qualities-json'> 4643 <div id='qualities-json'>
4645 {{ qualities }} 4644 {{ qualities }}
4646 </div> 4645 </div>
4647 <div id='main-metrics-json'> 4646 <div id='main-metrics-json'>
4648 {{ mainMetrics }} 4647 {{ mainMetrics }}
4649 </div> 4648 </div>
4650 4649
4651 <div id="contigs-lengths-json"> 4650 <div id="contigs-lengths-json">
4652 {"filenames":["contigs1_fna","contigs2_fna"],"lists_of_lengths":[[3980,1610,1120],[6650]]} 4651 {"filenames":["contigs1_fna"],"lists_of_lengths":[[3980,1610,1120]]}
4653 </div> 4652 </div>
4654 <div id='assemblies-lengths-json'> 4653 <div id='assemblies-lengths-json'>
4655 {{ assembliesLengths }} 4654 {{ assembliesLengths }}
4656 </div> 4655 </div>
4657 <div id='reference-length-json'> 4656 <div id='reference-length-json'>
4659 </div> 4658 </div>
4660 <div id='tick-x-json'> 4659 <div id='tick-x-json'>
4661 {"tickX":1} 4660 {"tickX":1}
4662 </div> 4661 </div>
4663 <div id='coord-nx-json'> 4662 <div id='coord-nx-json'>
4664 {"coord_x":[[0.0,1e-10,59.31445603576751,59.314456035867515,83.30849478390462,83.30849478400462,100.0,100.0000000001],[0.0,1e-10,100.0,100.0000000001]],"coord_y":[[3980,3980,3980,1610,1610,1120,1120,0.0],[6650,6650,6650,0.0]],"filenames":["contigs1_fna","contigs2_fna"]} 4663 {"coord_x":[[0.0,1e-10,59.31445603576751,59.314456035867515,83.30849478390462,83.30849478400462,100.0,100.0000000001]],"coord_y":[[3980,3980,3980,1610,1610,1120,1120,0.0]],"filenames":["contigs1_fna"]}
4665 </div> 4664 </div>
4666 <div id='coord-ngx-json'> 4665 <div id='coord-ngx-json'>
4667 {{ coordNGx }} 4666 {{ coordNGx }}
4668 </div> 4667 </div>
4669 <div id='coord-nax-json'> 4668 <div id='coord-nax-json'>
4699 </div> 4698 </div>
4700 <div id='krona-json'> 4699 <div id='krona-json'>
4701 {{ krona }} 4700 {{ krona }}
4702 </div> 4701 </div>
4703 <div id='gc-json'> 4702 <div id='gc-json'>
4704 {"filenames":["contigs1_fna","contigs2_fna"],"reference_index":null,"list_of_GC_distributions":[[[0.0,1.0,2.0,3.0,4.0,5.0,6.0,7.0,8.0,9.0,10.0,11.0,12.0,13.0,14.0,15.0,16.0,17.0,18.0,19.0,20.0,21.0,22.0,23.0,24.0,25.0,26.0,27.0,28.0,29.0,30.0,31.0,32.0,33.0,34.0,35.0,36.0,37.0,38.0,39.0,40.0,41.0,42.0,43.0,44.0,45.0,46.0,47.0,48.0,49.0,50.0,51.0,52.0,53.0,54.0,55.0,56.0,57.0,58.0,59.0,60.0,61.0,62.0,63.0,64.0,65.0,66.0,67.0,68.0,69.0,70.0,71.0,72.0,73.0,74.0,75.0,76.0,77.0,78.0,79.0,80.0,81.0,82.0,83.0,84.0,85.0,86.0,87.0,88.0,89.0,90.0,91.0,92.0,93.0,94.0,95.0,96.0,97.0,98.0,99.0,100.0],[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,1,0,1,0,0,3,1,0,1,2,1,5,5,5,2,5,4,4,7,1,6,2,5,1,0,1,1,1,0,0,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]],[[0.0,1.0,2.0,3.0,4.0,5.0,6.0,7.0,8.0,9.0,10.0,11.0,12.0,13.0,14.0,15.0,16.0,17.0,18.0,19.0,20.0,21.0,22.0,23.0,24.0,25.0,26.0,27.0,28.0,29.0,30.0,31.0,32.0,33.0,34.0,35.0,36.0,37.0,38.0,39.0,40.0,41.0,42.0,43.0,44.0,45.0,46.0,47.0,48.0,49.0,50.0,51.0,52.0,53.0,54.0,55.0,56.0,57.0,58.0,59.0,60.0,61.0,62.0,63.0,64.0,65.0,66.0,67.0,68.0,69.0,70.0,71.0,72.0,73.0,74.0,75.0,76.0,77.0,78.0,79.0,80.0,81.0,82.0,83.0,84.0,85.0,86.0,87.0,88.0,89.0,90.0,91.0,92.0,93.0,94.0,95.0,96.0,97.0,98.0,99.0,100.0],[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,1,0,0,0,0,0,0,3,2,1,0,0,5,3,4,4,7,3,5,2,4,7,0,10,1,1,2,0,0,0,0,0,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]]],"list_of_GC_contigs_distributions":[[[0,5,10,15,20,25,30,35,40,45,50,55,60,65,70,75,80,85,90,95,100],[0,0,0,0,0,0,0,0,0,0,3,0,0,0,0,0,0,0,0,0,0]],[[0,5,10,15,20,25,30,35,40,45,50,55,60,65,70,75,80,85,90,95,100],[0,0,0,0,0,0,0,0,0,0,1,0,0,0,0,0,0,0,0,0,0]]],"lists_of_gc_info":null} 4703 {"filenames":["contigs1_fna"],"reference_index":null,"list_of_GC_distributions":[[[0.0,1.0,2.0,3.0,4.0,5.0,6.0,7.0,8.0,9.0,10.0,11.0,12.0,13.0,14.0,15.0,16.0,17.0,18.0,19.0,20.0,21.0,22.0,23.0,24.0,25.0,26.0,27.0,28.0,29.0,30.0,31.0,32.0,33.0,34.0,35.0,36.0,37.0,38.0,39.0,40.0,41.0,42.0,43.0,44.0,45.0,46.0,47.0,48.0,49.0,50.0,51.0,52.0,53.0,54.0,55.0,56.0,57.0,58.0,59.0,60.0,61.0,62.0,63.0,64.0,65.0,66.0,67.0,68.0,69.0,70.0,71.0,72.0,73.0,74.0,75.0,76.0,77.0,78.0,79.0,80.0,81.0,82.0,83.0,84.0,85.0,86.0,87.0,88.0,89.0,90.0,91.0,92.0,93.0,94.0,95.0,96.0,97.0,98.0,99.0,100.0],[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1,0,0,0,1,0,1,0,0,3,1,0,1,2,1,5,5,5,2,5,4,4,7,1,6,2,5,1,0,1,1,1,0,0,0,0,1,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0]]],"list_of_GC_contigs_distributions":[[[0,5,10,15,20,25,30,35,40,45,50,55,60,65,70,75,80,85,90,95,100],[0,0,0,0,0,0,0,0,0,0,3,0,0,0,0,0,0,0,0,0,0]]],"lists_of_gc_info":null}
4705 </div> 4704 </div>
4706 <div id='icarus-json'> 4705 <div id='icarus-json'>
4707 {"links":["icarus_viewers/contig_size_viewer.html"],"links_names":["View in Icarus contig browser"]} 4706 {"links":["icarus_viewers/contig_size_viewer.html"],"links_names":["View in Icarus contig browser"]}
4708 </div> 4707 </div>
4709 </div> 4708 </div>