quorum 0.2.1 → 0.3.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- data/Gemfile.lock +35 -28
- data/HISTORY.md +4 -0
- data/app/assets/javascripts/quorum/application.js +1 -0
- data/app/assets/javascripts/quorum/jobs.js +5 -345
- data/app/assets/javascripts/quorum/quorum.js +275 -0
- data/app/assets/javascripts/quorum/template_settings.js +8 -0
- data/app/assets/javascripts/quorum/utilities.js +12 -0
- data/app/assets/stylesheets/quorum/application.css +0 -4
- data/app/assets/stylesheets/quorum/autohint.css +4 -0
- data/app/controllers/quorum/jobs_controller.rb +9 -9
- data/app/views/quorum/jobs/form/_blastn_form.html.erb +62 -62
- data/app/views/quorum/jobs/form/_blastp_form.html.erb +62 -62
- data/app/views/quorum/jobs/form/_blastx_form.html.erb +62 -62
- data/app/views/quorum/jobs/form/_tblastn_form.html.erb +62 -62
- data/app/views/quorum/jobs/show.html.erb +1 -1
- data/app/views/quorum/jobs/templates/_blast_detailed_report_template.html.erb +22 -22
- data/app/views/quorum/jobs/templates/_blast_template.html.erb +29 -29
- data/app/views/shared/_error_messages.html.erb +8 -8
- data/lib/quorum/version.rb +1 -1
- data/lib/tasks/jasmine.rake +8 -0
- data/quorum.gemspec +1 -0
- data/spec/data/seqs_not_fa.txt +16 -16
- data/spec/javascripts/fixtures/formatted_sequence.html +6 -0
- data/spec/javascripts/fixtures/quorum_search_form.html +461 -0
- data/spec/javascripts/fixtures/quorum_tabs.html +10 -0
- data/spec/javascripts/helpers/jasmine-jquery.js +288 -0
- data/spec/javascripts/jobs_spec.js +99 -0
- data/spec/javascripts/jquery/jquery-ui.min.js +791 -0
- data/spec/javascripts/jquery/jquery.min.js +4 -0
- data/spec/javascripts/jquery/jquery_ujs.js +373 -0
- data/spec/javascripts/quorum_spec.js +106 -0
- data/spec/javascripts/string_spec.js +18 -0
- data/spec/javascripts/support/jasmine.yml +84 -0
- data/spec/javascripts/support/jasmine_config.rb +23 -0
- data/spec/javascripts/support/jasmine_runner.rb +33 -0
- data/spec/requests/jobs_spec.rb +34 -33
- data/vendor/assets/javascripts/jquery.autohint.js +87 -0
- metadata +62 -26
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<form>
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<div>
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<textarea class="auto-hint" cols="40" id="job_sequence" name="job[sequence]" rows="20" title="Paste nucleic and amino acid FASTA sequence(s) here or upload a file below."></textarea>
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</div>
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<div>
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<input id="job_sequence_file" name="job[sequence_file]" type="file" />
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</div>
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<!-- Search Algorithms -->
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<!-- Comment out an algorithm below to remove it from the form. -->
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<!-- blastn -->
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<p>
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<strong>blastn</strong>
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<input name="job[blastn_job_attributes][queue]" type="hidden" value="0" /><input id="job_blastn_job_attributes_queue" name="job[blastn_job_attributes][queue]" type="checkbox" value="1" />
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</p>
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<div id="blastn" class="toggle">
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<table class="options">
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<tr>
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<td>
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<label>Database(s)</label>
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</td>
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<td>
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<select id="job_blastn_job_attributes_blast_dbs" multiple="multiple" name="job[blastn_job_attributes][blast_dbs][]"><option value="medp_acaau-20110120">Acacia aulacocarpa transcripts, build 20110120</option>
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<option value="medp_calan-20110119">Calophyllum antillanum transcripts, build 20110119</option>
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<option value="camptotheca_acuminata-20101112">Camptotheca acuminata transcripts, build 20101112</option>
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<option value="medp_cepha-20110617">Cephalotaxus harringtonia transcripts, build 20110617</option>
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<option value="medp_cinpu-20110618">Cinchona pubescens transcripts, build 20110618</option>
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<option value="colchicum_autumnale-20101112">Colchicum autumnale transcripts, build 20101112</option>
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<option value="medp_colfo-20110601">Coleus forskohlii transcripts, build 20110601</option>
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<option value="datura_ceratocaula-20101112">Datura ceratocaula transcripts, build 20101112</option>
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<option value="datura_innoxia-20101112">Datura innoxia transcripts, build 20101112</option>
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<option value="datura_me9-20101112">Datura metel transcripts, build 20101112</option>
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<option value="datura_stramonium-20100406">Datura stramonium transcripts, build 20100406</option>
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<option value="datura_stramonium-20101112">Datura stramonium transcripts, build 20101112</option>
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<option value="datura_wrightii-20101112">Datura wrightii transcripts, build 20101112</option>
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<option value="digitalis_lanata-20100406">Digitalis lanata transcripts, build 20100406</option>
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<option value="digitalis_lanata-20101112">Digitalis lanata transcripts, build 20101112</option>
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<option value="huperzia_lucidula-20101112">Huperzia lucidula transcripts, build 20101112</option>
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<option value="huperzia_squarrosa-20100406">Huperzia squarrosa transcripts, build 20100406</option>
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<option value="huperzia_squarrosa-20101112">Huperzia squarrosa transcripts, build 20101112</option>
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<option value="hyoscyamus_niger-20101112">Hyoscyamus niger transcripts, build 20101112</option>
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<option value="larrea_tridentata-20100406">Larrea tridentata transcripts, build 20100406</option>
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<option value="larrea_tridentata-20101112">Larrea tridentata transcripts, build 20101112</option>
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<option value="linum_flavum-20100207">Linum flavum transcripts, build 20100207</option>
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<option value="linum_flavum-20100406">Linum flavum transcripts, build 20100406</option>
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<option value="linum_flavum-20101112">Linum flavum transcripts, build 20101112</option>
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<option value="linum_usitatissimum-20101112">Linum usitatissimum transcripts, build 20101112</option>
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<option value="narcissus_9-20101112">Narcissus transcripts, build 20101112</option>
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<option value="papaver_somniferum-20100406">Papaver somniferum transcripts, build 20100406</option>
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<option value="papaver_somniferum-20101112">Papaver somniferum transcripts, build 20101112</option>
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<option value="medp_pilpe-20110620">Pilocarpus pennatifolius transcripts, build 20110620</option>
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<option value="podophyllum_hexandrum-20100406">Podophyllum hexandrum transcripts, build 20100406</option>
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<option value="podophyllum_hexandrum-20101112">Podophyllum hexandrum transcripts, build 20101112</option>
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<option value="podophyllum_peltatum-20101112">Podophyllum peltatum transcripts, build 20101112</option>
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<option value="taxus_x_media-20100126">Taxus x media transcripts, build 20100126</option>
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<option value="taxus_x_media-20100406">Taxus x media transcripts, build 20100406</option>
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<option value="taxus_x_media-20101112">Taxus x media transcripts, build 20101112</option>
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<option value="medp_trire-20110120">Tripterygium regelii transcripts, build 20110120</option></select>
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</td>
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<td>
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<label for="job_blastn_job_attributes_filter">DUST</label>
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</td>
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<td>
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<input name="job[blastn_job_attributes][filter]" type="hidden" value="0" /><input id="job_blastn_job_attributes_filter" name="job[blastn_job_attributes][filter]" type="checkbox" value="1" />
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<tr>
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<td>
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<label for="job_blastn_job_attributes_expectation">Expectation</label>
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</td>
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<td>
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<input class="auto-hint" id="job_blastn_job_attributes_expectation" name="job[blastn_job_attributes][expectation]" size="15" title="5e-20" type="text" />
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</td>
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<td>
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<label for="job_blastn_job_attributes_min_bit_score">Min bit score</label>
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<td>
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<input class="auto-hint" id="job_blastn_job_attributes_min_bit_score" name="job[blastn_job_attributes][min_bit_score]" size="15" title="0" type="text" />
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<tr>
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<td>
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<label for="job_blastn_job_attributes_max_score">Max score</label>
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</td>
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<td>
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<input class="auto-hint" id="job_blastn_job_attributes_max_score" name="job[blastn_job_attributes][max_score]" size="15" title="25" type="text" />
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</td>
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<td>
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<label for="job_blastn_job_attributes_gapped_alignments">Gapped alignments</label>
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</td>
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<td>
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<select id="job_blastn_job_attributes_gapped_alignments" name="job[blastn_job_attributes][gapped_alignments]"><option value="false">No</option>
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<option value="true">Yes</option></select>
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</td>
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</tr>
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<tr>
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<td>
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<label for="job_blastn_job_attributes_gap_opening_extension">Gap opening extension</label>
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</td>
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<td>
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<select id="job_blastn_job_attributes_gap_opening_extension" name="job[blastn_job_attributes][gap_opening_extension]"><option value="">--Select--</option>
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<option value="32767,32767">32767, 32767</option>
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<option value="11,2">11, 2</option>
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<option value="10,2">10, 2</option>
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<option value="9,2">9, 2</option>
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<option value="8,2">8, 2</option>
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<option value="7,2">7, 2</option>
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<option value="6,2">6, 2</option>
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<option value="13,1">13, 1</option>
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<option value="12,1">12, 1</option>
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<option value="11,1">11, 1</option>
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<option value="10,1">10, 1</option>
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<option value="9,1">9, 1</option></select>
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</td>
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<td></td>
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<td></td>
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</tr>
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</table>
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</div>
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<!-- blastx -->
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<p>
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<strong>blastx</strong>
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<input name="job[blastx_job_attributes][queue]" type="hidden" value="0" /><input id="job_blastx_job_attributes_queue" name="job[blastx_job_attributes][queue]" type="checkbox" value="1" />
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</p>
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<div id="blastx" class="toggle">
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<table class="options">
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<label>Database(s)</label>
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</td>
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<td>
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<select id="job_blastx_job_attributes_blast_dbs" multiple="multiple" name="job[blastx_job_attributes][blast_dbs][]"><option value="medp_acaau-20110120">Acacia aulacocarpa peptides, build 20110120</option>
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<option value="medp_calan-20110119">Calophyllum antillanum peptides, build 20110119</option>
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<option value="camptotheca_acuminata-20101112">Camptotheca acuminata peptides, build 20101112</option>
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<option value="medp_cepha-20110617">Cephalotaxus harringtonia peptides, build 20110617</option>
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<option value="medp_cinpu-20110618">Cinchona pubescens peptides, build 20110618</option>
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<option value="colchicum_autumnale-20101112">Colchicum autumnale peptides, build 20101112</option>
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<option value="medp_colfo-20110601">Coleus forskohlii peptides, build 20110601</option>
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<option value="datura_ceratocaula-20101112">Datura ceratocaula peptides, build 20101112</option>
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<option value="datura_innoxia-20101112">Datura innoxia peptides transcripts, build 20101112</option>
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<option value="datura_me9-20101112">Datura metel peptides, build 20101112</option>
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<option value="datura_stramonium-20100406">Datura stramonium peptides, build 20100406</option>
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<option value="datura_stramonium-20101112">Datura stramonium peptides, build 20101112</option>
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<option value="datura_wrightii-20101112">Datura wrightii peptides, build 20101112</option>
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<option value="digitalis_lanata-20100406">Digitalis lanata peptides, build 20100406</option>
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<option value="digitalis_lanata-20101112">Digitalis lanata peptides, build 20101112</option>
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<option value="huperzia_lucidula-20101112">Huperzia lucidula peptides, build 20101112</option>
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<option value="huperzia_squarrosa-20100406">Huperzia squarrosa peptides, build 20100406</option>
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<option value="huperzia_squarrosa-20101112">Huperzia squarrosa peptides, build 20101112</option>
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<option value="hyoscyamus_niger-20101112">Hyoscyamus niger peptides, build 20101112</option>
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<option value="larrea_tridentata-20100406">Larrea tridentata peptides, build 20100406</option>
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<option value="larrea_tridentata-20101112">Larrea tridentata peptides, build 20101112</option>
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<option value="linum_flavum-20100406">Linum flavum peptides, build 20100406</option>
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<option value="linum_flavum-20101112">Linum flavum peptides, build 20101112</option>
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<option value="linum_usitatissimum-20101112">Linum usitatissimum peptides, build 20101112</option>
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<option value="narcissus_9-20101112">Narcissus peptides, build 20101112</option>
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<option value="papaver_somniferum-20100406">Papaver somniferum peptides, build 20100406</option>
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<option value="papaver_somniferum-20101112">Papaver somniferum peptides, build 20101112</option>
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<option value="medp_pilpe-20110620">Pilocarpus pennatifolius peptides, build 20110620</option>
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<option value="podophyllum_hexandrum-20100406">Podophyllum hexandrum peptides, build 20100406</option>
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<option value="podophyllum_hexandrum-20101112">Podophyllum hexandrum peptides, build 20101112</option>
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<option value="podophyllum_peltatum-20101112">Podophyllum peltatum peptides, build 20101112</option>
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<option value="taxus_x_media-20100406">Taxus x media peptides, build 20100406</option>
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<option value="taxus_x_media-20101112">Taxus x media peptides, build 20101112</option>
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<option value="medp_trire-20110120">Tripterygium regelii peptides, build 20110120</option></select>
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<label for="job_blastx_job_attributes_filter">SEG</label>
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<input name="job[blastx_job_attributes][filter]" type="hidden" value="0" /><input id="job_blastx_job_attributes_filter" name="job[blastx_job_attributes][filter]" type="checkbox" value="1" />
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<label for="job_blastx_job_attributes_expectation">Expectation</label>
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<input class="auto-hint" id="job_blastx_job_attributes_expectation" name="job[blastx_job_attributes][expectation]" size="15" title="5e-20" type="text" />
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<label for="job_blastx_job_attributes_min_bit_score">Min bit score</label>
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<input class="auto-hint" id="job_blastx_job_attributes_min_bit_score" name="job[blastx_job_attributes][min_bit_score]" size="15" title="0" type="text" />
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<label for="job_blastx_job_attributes_max_score">Max score</label>
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<input class="auto-hint" id="job_blastx_job_attributes_max_score" name="job[blastx_job_attributes][max_score]" size="15" title="25" type="text" />
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<label for="job_blastx_job_attributes_gapped_alignments">Gapped alignments</label>
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</td>
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<select id="job_blastx_job_attributes_gapped_alignments" name="job[blastx_job_attributes][gapped_alignments]"><option value="false">No</option>
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<option value="true">Yes</option></select>
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</td>
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209
|
+
<td>
|
|
210
|
+
<label for="job_blastx_job_attributes_gap_opening_extension">Gap opening extension</label>
|
|
211
|
+
</td>
|
|
212
|
+
<td>
|
|
213
|
+
<select id="job_blastx_job_attributes_gap_opening_extension" name="job[blastx_job_attributes][gap_opening_extension]"><option value="">--Select--</option>
|
|
214
|
+
<option value="32767,32767">32767, 32767</option>
|
|
215
|
+
<option value="11,2">11, 2</option>
|
|
216
|
+
<option value="10,2">10, 2</option>
|
|
217
|
+
<option value="9,2">9, 2</option>
|
|
218
|
+
<option value="8,2">8, 2</option>
|
|
219
|
+
<option value="7,2">7, 2</option>
|
|
220
|
+
<option value="6,2">6, 2</option>
|
|
221
|
+
<option value="13,1">13, 1</option>
|
|
222
|
+
<option value="12,1">12, 1</option>
|
|
223
|
+
<option value="11,1">11, 1</option>
|
|
224
|
+
<option value="10,1">10, 1</option>
|
|
225
|
+
<option value="9,1">9, 1</option></select>
|
|
226
|
+
</td>
|
|
227
|
+
<td></td>
|
|
228
|
+
<td></td>
|
|
229
|
+
</tr>
|
|
230
|
+
</table>
|
|
231
|
+
</div>
|
|
232
|
+
|
|
233
|
+
|
|
234
|
+
<!-- tblastn -->
|
|
235
|
+
|
|
236
|
+
<p>
|
|
237
|
+
<strong>tblastn</strong>
|
|
238
|
+
<input name="job[tblastn_job_attributes][queue]" type="hidden" value="0" /><input id="job_tblastn_job_attributes_queue" name="job[tblastn_job_attributes][queue]" type="checkbox" value="1" />
|
|
239
|
+
</p>
|
|
240
|
+
<div id="tblastn" class="toggle">
|
|
241
|
+
<table class="options">
|
|
242
|
+
<tr>
|
|
243
|
+
<td>
|
|
244
|
+
<label>Database(s)</label>
|
|
245
|
+
</td>
|
|
246
|
+
<td>
|
|
247
|
+
<select id="job_tblastn_job_attributes_blast_dbs" multiple="multiple" name="job[tblastn_job_attributes][blast_dbs][]"><option value="medp_acaau-20110120">Acacia aulacocarpa transcripts, build 20110120</option>
|
|
248
|
+
<option value="medp_calan-20110119">Calophyllum antillanum transcripts, build 20110119</option>
|
|
249
|
+
<option value="camptotheca_acuminata-20101112">Camptotheca acuminata transcripts, build 20101112</option>
|
|
250
|
+
<option value="medp_cepha-20110617">Cephalotaxus harringtonia transcripts, build 20110617</option>
|
|
251
|
+
<option value="medp_cinpu-20110618">Cinchona pubescens transcripts, build 20110618</option>
|
|
252
|
+
<option value="colchicum_autumnale-20101112">Colchicum autumnale transcripts, build 20101112</option>
|
|
253
|
+
<option value="medp_colfo-20110601">Coleus forskohlii transcripts, build 20110601</option>
|
|
254
|
+
<option value="datura_ceratocaula-20101112">Datura ceratocaula transcripts, build 20101112</option>
|
|
255
|
+
<option value="datura_innoxia-20101112">Datura innoxia transcripts, build 20101112</option>
|
|
256
|
+
<option value="datura_me9-20101112">Datura metel transcripts, build 20101112</option>
|
|
257
|
+
<option value="datura_stramonium-20100406">Datura stramonium transcripts, build 20100406</option>
|
|
258
|
+
<option value="datura_stramonium-20101112">Datura stramonium transcripts, build 20101112</option>
|
|
259
|
+
<option value="datura_wrightii-20101112">Datura wrightii transcripts, build 20101112</option>
|
|
260
|
+
<option value="digitalis_lanata-20100406">Digitalis lanata transcripts, build 20100406</option>
|
|
261
|
+
<option value="digitalis_lanata-20101112">Digitalis lanata transcripts, build 20101112</option>
|
|
262
|
+
<option value="huperzia_lucidula-20101112">Huperzia lucidula transcripts, build 20101112</option>
|
|
263
|
+
<option value="huperzia_squarrosa-20100406">Huperzia squarrosa transcripts, build 20100406</option>
|
|
264
|
+
<option value="huperzia_squarrosa-20101112">Huperzia squarrosa transcripts, build 20101112</option>
|
|
265
|
+
<option value="hyoscyamus_niger-20101112">Hyoscyamus niger transcripts, build 20101112</option>
|
|
266
|
+
<option value="larrea_tridentata-20100406">Larrea tridentata transcripts, build 20100406</option>
|
|
267
|
+
<option value="larrea_tridentata-20101112">Larrea tridentata transcripts, build 20101112</option>
|
|
268
|
+
<option value="linum_flavum-20100207">Linum flavum transcripts, build 20100207</option>
|
|
269
|
+
<option value="linum_flavum-20100406">Linum flavum transcripts, build 20100406</option>
|
|
270
|
+
<option value="linum_flavum-20101112">Linum flavum transcripts, build 20101112</option>
|
|
271
|
+
<option value="linum_usitatissimum-20101112">Linum usitatissimum transcripts, build 20101112</option>
|
|
272
|
+
<option value="narcissus_9-20101112">Narcissus transcripts, build 20101112</option>
|
|
273
|
+
<option value="papaver_somniferum-20100406">Papaver somniferum transcripts, build 20100406</option>
|
|
274
|
+
<option value="papaver_somniferum-20101112">Papaver somniferum transcripts, build 20101112</option>
|
|
275
|
+
<option value="medp_pilpe-20110620">Pilocarpus pennatifolius transcripts, build 20110620</option>
|
|
276
|
+
<option value="podophyllum_hexandrum-20100406">Podophyllum hexandrum transcripts, build 20100406</option>
|
|
277
|
+
<option value="podophyllum_hexandrum-20101112">Podophyllum hexandrum transcripts, build 20101112</option>
|
|
278
|
+
<option value="podophyllum_peltatum-20101112">Podophyllum peltatum transcripts, build 20101112</option>
|
|
279
|
+
<option value="taxus_x_media-20100126">Taxus x media transcripts, build 20100126</option>
|
|
280
|
+
<option value="taxus_x_media-20100406">Taxus x media transcripts, build 20100406</option>
|
|
281
|
+
<option value="taxus_x_media-20101112">Taxus x media transcripts, build 20101112</option>
|
|
282
|
+
<option value="medp_trire-20110120">Tripterygium regelii transcripts, build 20110120</option></select>
|
|
283
|
+
</td>
|
|
284
|
+
<td>
|
|
285
|
+
<label for="job_tblastn_job_attributes_filter">SEG</label>
|
|
286
|
+
</td>
|
|
287
|
+
<td>
|
|
288
|
+
<input name="job[tblastn_job_attributes][filter]" type="hidden" value="0" /><input id="job_tblastn_job_attributes_filter" name="job[tblastn_job_attributes][filter]" type="checkbox" value="1" />
|
|
289
|
+
</td>
|
|
290
|
+
</tr>
|
|
291
|
+
<tr>
|
|
292
|
+
<td>
|
|
293
|
+
<label for="job_tblastn_job_attributes_expectation">Expectation</label>
|
|
294
|
+
</td>
|
|
295
|
+
<td>
|
|
296
|
+
<input class="auto-hint" id="job_tblastn_job_attributes_expectation" name="job[tblastn_job_attributes][expectation]" size="15" title="5e-20" type="text" />
|
|
297
|
+
</td>
|
|
298
|
+
<td>
|
|
299
|
+
<label for="job_tblastn_job_attributes_min_bit_score">Min bit score</label>
|
|
300
|
+
</td>
|
|
301
|
+
<td>
|
|
302
|
+
<input class="auto-hint" id="job_tblastn_job_attributes_min_bit_score" name="job[tblastn_job_attributes][min_bit_score]" size="15" title="0" type="text" />
|
|
303
|
+
</td>
|
|
304
|
+
</tr>
|
|
305
|
+
<tr>
|
|
306
|
+
<td>
|
|
307
|
+
<label for="job_tblastn_job_attributes_max_score">Max score</label>
|
|
308
|
+
</td>
|
|
309
|
+
<td>
|
|
310
|
+
<input class="auto-hint" id="job_tblastn_job_attributes_max_score" name="job[tblastn_job_attributes][max_score]" size="15" title="25" type="text" />
|
|
311
|
+
</td>
|
|
312
|
+
<td>
|
|
313
|
+
<label for="job_tblastn_job_attributes_gapped_alignments">Gapped alignments</label>
|
|
314
|
+
</td>
|
|
315
|
+
<td>
|
|
316
|
+
<select id="job_tblastn_job_attributes_gapped_alignments" name="job[tblastn_job_attributes][gapped_alignments]"><option value="false">No</option>
|
|
317
|
+
<option value="true">Yes</option></select>
|
|
318
|
+
</td>
|
|
319
|
+
</tr>
|
|
320
|
+
<tr>
|
|
321
|
+
<td>
|
|
322
|
+
<label for="job_tblastn_job_attributes_gap_opening_extension">Gap opening extension</label>
|
|
323
|
+
</td>
|
|
324
|
+
<td>
|
|
325
|
+
<select id="job_tblastn_job_attributes_gap_opening_extension" name="job[tblastn_job_attributes][gap_opening_extension]"><option value="">--Select--</option>
|
|
326
|
+
<option value="32767,32767">32767, 32767</option>
|
|
327
|
+
<option value="11,2">11, 2</option>
|
|
328
|
+
<option value="10,2">10, 2</option>
|
|
329
|
+
<option value="9,2">9, 2</option>
|
|
330
|
+
<option value="8,2">8, 2</option>
|
|
331
|
+
<option value="7,2">7, 2</option>
|
|
332
|
+
<option value="6,2">6, 2</option>
|
|
333
|
+
<option value="13,1">13, 1</option>
|
|
334
|
+
<option value="12,1">12, 1</option>
|
|
335
|
+
<option value="11,1">11, 1</option>
|
|
336
|
+
<option value="10,1">10, 1</option>
|
|
337
|
+
<option value="9,1">9, 1</option></select>
|
|
338
|
+
</td>
|
|
339
|
+
<td></td>
|
|
340
|
+
<td></td>
|
|
341
|
+
</tr>
|
|
342
|
+
</table>
|
|
343
|
+
</div>
|
|
344
|
+
|
|
345
|
+
|
|
346
|
+
<!-- blastp -->
|
|
347
|
+
|
|
348
|
+
<p>
|
|
349
|
+
<strong>blastp</strong>
|
|
350
|
+
<input name="job[blastp_job_attributes][queue]" type="hidden" value="0" /><input id="job_blastp_job_attributes_queue" name="job[blastp_job_attributes][queue]" type="checkbox" value="1" />
|
|
351
|
+
</p>
|
|
352
|
+
<div id="blastp" class="toggle">
|
|
353
|
+
<table class="options">
|
|
354
|
+
<tr>
|
|
355
|
+
<td>
|
|
356
|
+
<label>Database(s)</label>
|
|
357
|
+
</td>
|
|
358
|
+
<td>
|
|
359
|
+
<select id="job_blastp_job_attributes_blast_dbs" multiple="multiple" name="job[blastp_job_attributes][blast_dbs][]"><option value="medp_acaau-20110120">Acacia aulacocarpa peptides, build 20110120</option>
|
|
360
|
+
<option value="medp_calan-20110119">Calophyllum antillanum peptides, build 20110119</option>
|
|
361
|
+
<option value="camptotheca_acuminata-20101112">Camptotheca acuminata peptides, build 20101112</option>
|
|
362
|
+
<option value="medp_cepha-20110617">Cephalotaxus harringtonia peptides, build 20110617</option>
|
|
363
|
+
<option value="medp_cinpu-20110618">Cinchona pubescens peptides, build 20110618</option>
|
|
364
|
+
<option value="colchicum_autumnale-20101112">Colchicum autumnale peptides, build 20101112</option>
|
|
365
|
+
<option value="medp_colfo-20110601">Coleus forskohlii peptides, build 20110601</option>
|
|
366
|
+
<option value="datura_ceratocaula-20101112">Datura ceratocaula peptides, build 20101112</option>
|
|
367
|
+
<option value="datura_innoxia-20101112">Datura innoxia peptides, build 20101112</option>
|
|
368
|
+
<option value="datura_me9-20101112">Datura metel peptides, build 20101112</option>
|
|
369
|
+
<option value="datura_stramonium-20100406">Datura stramonium peptides, build 20100406</option>
|
|
370
|
+
<option value="datura_stramonium-20101112">Datura stramonium peptides, build 20101112</option>
|
|
371
|
+
<option value="datura_wrightii-20101112">Datura wrightii peptides, build 20101112</option>
|
|
372
|
+
<option value="digitalis_lanata-20100406">Digitalis lanata peptides, build 20100406</option>
|
|
373
|
+
<option value="digitalis_lanata-20101112">Digitalis lanata peptides, build 20101112</option>
|
|
374
|
+
<option value="huperzia_lucidula-20101112">Huperzia lucidula peptides, build 20101112</option>
|
|
375
|
+
<option value="huperzia_squarrosa-20100406">Huperzia squarrosa peptides, build 20100406</option>
|
|
376
|
+
<option value="huperzia_squarrosa-20101112">Huperzia squarrosa peptides, build 20101112</option>
|
|
377
|
+
<option value="hyoscyamus_niger-20101112">Hyoscyamus niger peptides, build 20101112</option>
|
|
378
|
+
<option value="larrea_tridentata-20100406">Larrea tridentata peptides, build 20100406</option>
|
|
379
|
+
<option value="larrea_tridentata-20101112">Larrea tridentata peptides, build 20101112</option>
|
|
380
|
+
<option value="linum_flavum-20100406">Linum flavum peptides, build 20100406</option>
|
|
381
|
+
<option value="linum_flavum-20101112">Linum flavum peptides, build 20101112</option>
|
|
382
|
+
<option value="linum_usitatissimum-20101112">Linum usitatissimum peptides, build 20101112</option>
|
|
383
|
+
<option value="narcissus_9-20101112">Narcissus peptides, build 20101112</option>
|
|
384
|
+
<option value="papaver_somniferum-20100406">Papaver somniferum peptides, build 20100406</option>
|
|
385
|
+
<option value="papaver_somniferum-20101112">Papaver somniferum peptides, build 20101112</option>
|
|
386
|
+
<option value="medp_pilpe-20110620">Pilocarpus pennatifolius peptides, build 20110620</option>
|
|
387
|
+
<option value="podophyllum_hexandrum-20100406">Podophyllum hexandrum peptides, build 20100406</option>
|
|
388
|
+
<option value="podophyllum_hexandrum-20101112">Podophyllum hexandrum peptides, build 20101112</option>
|
|
389
|
+
<option value="podophyllum_peltatum-20101112">Podophyllum peltatum peptides, build 20101112</option>
|
|
390
|
+
<option value="taxus_x_media-20100406">Taxus x media peptides, build 20100406</option>
|
|
391
|
+
<option value="taxus_x_media-20101112">Taxus x media peptides, build 20101112</option>
|
|
392
|
+
<option value="medp_trire-20110120">Tripterygium regelii peptides, build 20110120</option></select>
|
|
393
|
+
</td>
|
|
394
|
+
<td>
|
|
395
|
+
<label for="job_blastp_job_attributes_filter">SEG</label>
|
|
396
|
+
</td>
|
|
397
|
+
<td>
|
|
398
|
+
<input name="job[blastp_job_attributes][filter]" type="hidden" value="0" /><input id="job_blastp_job_attributes_filter" name="job[blastp_job_attributes][filter]" type="checkbox" value="1" />
|
|
399
|
+
</td>
|
|
400
|
+
</tr>
|
|
401
|
+
<tr>
|
|
402
|
+
<td>
|
|
403
|
+
<label for="job_blastp_job_attributes_expectation">Expectation</label>
|
|
404
|
+
</td>
|
|
405
|
+
<td>
|
|
406
|
+
<input class="auto-hint" id="job_blastp_job_attributes_expectation" name="job[blastp_job_attributes][expectation]" size="15" title="5e-20" type="text" />
|
|
407
|
+
</td>
|
|
408
|
+
<td>
|
|
409
|
+
<label for="job_blastp_job_attributes_min_bit_score">Min bit score</label>
|
|
410
|
+
</td>
|
|
411
|
+
<td>
|
|
412
|
+
<input class="auto-hint" id="job_blastp_job_attributes_min_bit_score" name="job[blastp_job_attributes][min_bit_score]" size="15" title="0" type="text" />
|
|
413
|
+
</td>
|
|
414
|
+
</tr>
|
|
415
|
+
<tr>
|
|
416
|
+
<td>
|
|
417
|
+
<label for="job_blastp_job_attributes_max_score">Max score</label>
|
|
418
|
+
</td>
|
|
419
|
+
<td>
|
|
420
|
+
<input class="auto-hint" id="job_blastp_job_attributes_max_score" name="job[blastp_job_attributes][max_score]" size="15" title="25" type="text" />
|
|
421
|
+
</td>
|
|
422
|
+
<td>
|
|
423
|
+
<label for="job_blastp_job_attributes_gapped_alignments">Gapped alignments</label>
|
|
424
|
+
</td>
|
|
425
|
+
<td>
|
|
426
|
+
<select id="job_blastp_job_attributes_gapped_alignments" name="job[blastp_job_attributes][gapped_alignments]"><option value="false">No</option>
|
|
427
|
+
<option value="true">Yes</option></select>
|
|
428
|
+
</td>
|
|
429
|
+
</tr>
|
|
430
|
+
<tr>
|
|
431
|
+
<td>
|
|
432
|
+
<label for="job_blastp_job_attributes_gap_opening_extension">Gap opening extension</label>
|
|
433
|
+
</td>
|
|
434
|
+
<td>
|
|
435
|
+
<select id="job_blastp_job_attributes_gap_opening_extension" name="job[blastp_job_attributes][gap_opening_extension]"><option value="">--Select--</option>
|
|
436
|
+
<option value="32767,32767">32767, 32767</option>
|
|
437
|
+
<option value="11,2">11, 2</option>
|
|
438
|
+
<option value="10,2">10, 2</option>
|
|
439
|
+
<option value="9,2">9, 2</option>
|
|
440
|
+
<option value="8,2">8, 2</option>
|
|
441
|
+
<option value="7,2">7, 2</option>
|
|
442
|
+
<option value="6,2">6, 2</option>
|
|
443
|
+
<option value="13,1">13, 1</option>
|
|
444
|
+
<option value="12,1">12, 1</option>
|
|
445
|
+
<option value="11,1">11, 1</option>
|
|
446
|
+
<option value="10,1">10, 1</option>
|
|
447
|
+
<option value="9,1">9, 1</option></select>
|
|
448
|
+
</td>
|
|
449
|
+
<td></td>
|
|
450
|
+
<td></td>
|
|
451
|
+
</tr>
|
|
452
|
+
</table>
|
|
453
|
+
</div>
|
|
454
|
+
|
|
455
|
+
|
|
456
|
+
<!-- End Search Algorithms -->
|
|
457
|
+
<div>
|
|
458
|
+
<input name="commit" type="submit" value="Submit" />
|
|
459
|
+
<input id="quorum_job_reset" name="reset" type="button" value="Reset" />
|
|
460
|
+
</div>
|
|
461
|
+
</form>
|