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mendel.tpl
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%include('header',title="confirm")
<html lang=en>
<head>
<title>Mendel - web interface</title>
<script type="text/javascript" src="/static/apps/mendel/mendel.js"></script>
<style>
input[type="text"] {width:10em;}
.form-horizontal .control-label{
text-align:left;
}
.tab-content {
/*background-color: #dfdfdf;*/
border: 1px solid #ddd;
padding: 10px;
}
tr:hover {
background-color: #fff;
}
body {
/* background: #dfdfdf !important; */
/*padding-top: 65px;*/
}
tr {
background-color: #fff;
}
input[type="number"] {
width:120px;
}
</style>
</head>
%include('navbar')
%include('apps/alert')
<div id="memory" align="center" class="alert-info"></div>
<div id="danger" align="center" class="alert-danger"></div>
<div id="warning" align="center" class="alert-warning"></div>
<body onload="fxn_init()">
<div class="container-fluid">
<form role="form" class="form-horizontal" name="mendel_input"
method="post" action="/confirm" novalidate>
<input type="hidden" name="app" value="{{app}}">
<input type="hidden" name="cid" value="{{cid}}">
<div class="col-xs-12" style="height:5px"></div>
<div class="form-group">
<div class="col-xs-2">
<button type="submit" class="btn btn-success"> <!-- pull-right -->
Continue <em class="glyphicon glyphicon-forward"></em> </button>
</div>
<label for="desc" style="text-align:right" class="control-label col-xs-4">
<a href="#" data-toggle="tooltip" title="Separate labels by commas">Labels:</a></label>
<div class="col-xs-6">
<input type="text" id="desc" name="desc" class="form-control" style="width:100%"
data-role="tagsinput" title="e.g. v2.5.1,bottleneck">
</div>
</div>
<div class="tribe" id="tribediv" style="display:none">
Tribe:
<select class="form-control" name="tribe_id">
<option VALUE=".001">.001</option>
<option VALUE=".002">.002</option>
</select>
</div>
<a href="/static/apps/mendel/help.html" class="help btn btn-info" target="status">help</a>
<!-- data-toggle="modal" data-target="#myModal" -->
<div>
<!-- Nav tabs -->
<!--<ul class="nav nav-tabs" role="tablist">-->
<ul class="nav nav-pills" role="tablist">
<li role="presentation" class="active"><a href="#basic" aria-controls="home" role="tab" data-toggle="tab">Basic</a></li>
<li role="presentation"><a href="#mutation" aria-controls="profile" role="tab"
data-toggle="tab">Mutation</a></li>
<li role="presentation"><a href="#selection" aria-controls="messages" role="tab"
data-toggle="tab">Selection</a></li>
<li role="presentation"><a href="#population" aria-controls="settings" role="tab"
data-toggle="tab">Population</a></li>
<!-- <li role="presentation"><a href="#substructure" aria-controls="settings" role="tab"
data-toggle="tab">Substructure</a></li> -->
<li role="presentation"><a href="#computation" aria-controls="settings" role="tab"
data-toggle="tab">Computation</a></li>
<li role="presentation"><a href="#special" aria-controls="settings" role="tab"
data-toggle="tab">Special Applications</a></li>
</ul>
<!--*************************** BASIC TAB *******************************-->
<div class="tab-content">
<div role="tabpanel" class="tab-pane fade in active" id="basic">
<div id="mutn_rate" class="form-group">
<label for="mutn_rate" class="control-label col-xs-6">
1. Total non-neutral mutation rate:<br>
(per individual per generation)</label>
<div class="col-xs-6">
<input type="number" id="mutn_rate" name="mutn_rate"
value="{{mutn_rate}}" class="form-control"
min="0" max="10000" step="1"
onchange="compute_u(); fxn_auto_malloc(); validate(this)"
title="0 - 10,000; can be fraction e.g. 0.5">
</div>
</div>
<div class="form-group">
<label for="frac_fav_mutn" class="control-label col-xs-6">
2. Beneficial/deleterious ratio within non-neutral mutations:</label>
<div class="col-xs-6">
<input type="number" id="frac_fav_mutn" name="frac_fav_mutn"
value="{{frac_fav_mutn}}" class="form-control"
min="0.0" max="1.0" step="0.01"
onchange="compute_u(); fxn_auto_malloc(); validate(this)"
title="0.0 - 1.0 (e.g. if 1:1000, enter 0.001)">
</div>
</div>
<div class="form-group">
<label for="uben" class="control-label col-xs-6" style="text-align:right">
beneficial mutation rate:</label>
<div class="col-xs-6">
<input type="number" name="uben" id="uben" class="form-control" readOnly=true>
</div>
</div>
<div class="form-group">
<LABEL for="udel" class="control-label col-xs-6" style="text-align:right">
deleterious mutation rate:</label>
<div class="col-xs-6">
<input type="number" name="udel" id="udel" class="form-control" readOnly=true>
</div>
</div>
<div class="form-group">
<label id="pgr_label" for="reproductive_rate" class="control-label col-xs-6">
3. Reproductive rate:</label>
<div class="col-xs-6">
<input type="number" class="form-control" id="reproductive_rate"
name="reproductive_rate" value="{{reproductive_rate}}"
onchange="fxn_auto_malloc(); validate(this)"
min="1" max="6" step="1">
</div>
</div>
<div class="form-group">
<label id="pop_size_label" for="pop_size" class="control-label col-xs-6">
4. Population size (per subpopulation):</label>
<div class="col-xs-6">
<input type="number" id="pop_size" name="pop_size" data-warning="1000"
value="{{pop_size}}" class="form-control"
onchange="fxn_auto_malloc(); validate(this)"
min="2" max="2000" step="1" title="2 - 5,000">
</div>
</div>
<div class="form-group">
<label id="gen_label" for="num_generations" class="control-label col-xs-6">
5. Generations:</label>
<div class="col-xs-6">
<input type="number" id="num_generations" name="num_generations"
min="1" max="20000" step="100" data-warning="10000"
onchange="fxn_auto_malloc(); validate(this)"
class="form-control" value="{{num_generations}}" title="1 - 100,000">
</div>
</div>
</div>
<!--*************************** MUTATION TAB *******************************-->
<div role="tabpanel" class="tab-pane fade" id="mutation">
<div class="form-group">
<label for="fitness_distrib_type" class="control-label col-xs-6">
1. Distribution type:</label>
<div class="col-xs-6">
<select id="fitness_distrib_type" name="fitness_distrib_type"
class="form-control" style="width:auto"
onchange="fxn_fitness_distrib_type_change();">
%opts = {'1': 'Natural distribution (Weibull)', '0': 'All mutations equal'}
%for key, value in opts.iteritems():
%if key == fitness_distrib_type:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end
%end
</select>
</div>
</div>
<div id="ufe_div" style="display:none">
<div class="form-group">
<label for="uniform_fitness_effect_del" class="control-label col-xs-6">
a. equal effect for each deleterious mutation:</label>
<div class="col-xs-6">
<input type="number" name="uniform_fitness_effect_del" class="form-control"
min="0" max="0.1" step="0.001" title="0 - 0.1" onchange="validate(this)"
value="{{uniform_fitness_effect_del}}">
</div>
</div>
<div class="form-group">
<label for="uniform_fitness_effect_fav" class="control-label col-xs-6">
b. equal effect for each beneficial mutation:</label>
<div class="col-xs-6">
<input type="number" name="uniform_fitness_effect_fav" class="form-control"
min="0" max="0.1" step="0.0001" title="0 - 0.1" onchange="validate(this)"
value="{{uniform_fitness_effect_fav}}">
</div>
</div>
</div>
<div id="weibull_div" style="display:none">
<div class="form-group">
<label class="control-label col-xs-12">
Parameters shaping Weibull distribution of mutation effects:</label>
</div>
<div class="form-group">
<label for="genome_size" class="control-label col-xs-6">
a. functional genome size:<br>
<font size="-1">→ G<sub>functional</sub> =
G<sub>actual</sub> - G<sub>junk</sub></font> </label>
<div class="col-xs-6">
<input type="number" name="genome_size" id="hgs" accesskey="1"
value="{{genome_size}}" class="form-control"
min="100" max="1e11" step="1000" onchange="validate(this)"
title="100 - 100 billion">
</div>
</div>
<div class="form-group">
<label for="high_impact_mutn_fraction" class="control-label col-xs-6">
b. fraction of del. mutations with "major effect":</label>
<div class="col-xs-6">
<input type="number" name="high_impact_mutn_fraction"
value="{{high_impact_mutn_fraction}}" class="form-control"
min="0.0001" max="0.9" step="0.0001" title="0.0001 - 0.9"
onchange="validate(this)">
</div>
</div>
<div class="form-group">
<label for="high_impact_mutn_threshold" class="control-label col-xs-6">
c. minimum del. effect defined as "major":</label>
<div class="col-xs-6">
<input type="number" name="high_impact_mutn_threshold"
value="{{high_impact_mutn_threshold}}" class="form-control"
min="0.01" max="0.9" step="0.01" title="0.01 - 0.9"
onchange="validate(this)">
</div>
</div>
<div class="form-group">
<label for="high_impact_mutn_threshold" class="control-label col-xs-6">
d. maximum beneficial fitness effect:</label>
<div class="col-xs-6">
<input type="number" name="max_fav_fitness_gain" accesskey="2"
class="form-control" value="{{max_fav_fitness_gain}}"
min="0.000001" max="0.01" step="0.000001" title="0.000001 - 0.01"
onchange="validate(this)">
</div>
</div>
<input type="hidden" name="max_fav_fitness_gain"
value="{{max_fav_fitness_gain}}">
<input type="hidden" name="num_initial_fav_mutn"
value="{{num_initial_fav_mutn}}">
</div> <!-- weibull_div -->
<hr>
<div class="form-group">
<label class="control-label col-xs-6">
2. Mutations — dominant vs. recessive?</label>
</div>
<div id="crdiv">
<div class="form-group">
<label for="fraction_recessive" class="control-label col-xs-6">
a. fraction recessive (rest dominant):</label>
<div class="col-xs-6">
<input type="number" name="fraction_recessive"
value="{{fraction_recessive}}" min="0" max="1" step="0.1"
id="fraction_recessive" class="form-control" title="0.0 - 1.0"
onchange="validate(this)">
</div>
</div>
<div class="form-group">
<label for="recessive_hetero_expression" class="control-label col-xs-6">
b. expression of recessive mutations (in heterozygote):</label>
<div class="col-xs-6">
<input type="number" name="recessive_hetero_expression"
value="{{recessive_hetero_expression}}" class="form-control"
min="0" max="0.5" step="0.1" title="0.0 - 0.5"
onchange="validate(this)">
</div>
</div>
<div class="form-group">
<label for="dominant_hetero_expression" class="control-label col-xs-6">
c. expression of dominant mutations (in heterozygote):</label>
<div class="col-xs-6">
<input type="number" name="dominant_hetero_expression"
value="{{dominant_hetero_expression}}" class="form-control"
min="0.5" max="1.0" step="0.1" title="0.5 - 1.0"
onchange="validate(this)">
</div>
</div>
</div>
<hr>
<div class="form-group">
<label for="combine_mutns" class="control-label col-xs-6">
3. Combine mutations effects non-additively?</label>
<div class="col-xs-6">
<input type="checkbox" name="combine_mutns"
onclick="fxn_combine_mutns()" value="on"
%if float(multiplicative_weighting) > 0:
checked
%end
>
</div>
</div>
<div id="mwdiv" style="display:none">
<div class="form-group">
<label for="multiplicative_weighting" class="control-label col-xs-6">
:: fraction multiplicative effect:</label>
<div class="col-xs-6">
<input type="number" name="multiplicative_weighting"
id="multiplicative_weighting" class="form-control"
value="{{multiplicative_weighting}}"
min="0" max="1" step="0.1"
onchange="onchange=validate(this)"
title="0.0 - 1.0">
</div>
</div>
</div>
<hr>
<div class="form-group">
<label for="synergistic_epistasis" class="control-label col-xs-6">
4. Include mutation-mutation interactions (synergistic epistasis)?</label>
<div class="col-xs-6">
<input type="checkbox" name="synergistic_epistasis"
value="on" onclick="fxn_synergistic_epistasis()"
%if synergistic_epistasis=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="se_nonlinked_scaling" class="control-label col-xs-6">
a. scaling factor for non-linked SE interactions:</label>
<div class="col-xs-6">
<input type="number" name="se_nonlinked_scaling"
value="{{se_nonlinked_scaling}}" class="form-control"
min="0.0" max="1.0" step="0.1"
onchange="validate(this)" title="0.0 - 1.0" >
</div>
</div>
<div class="form-group">
<label for="se_linked_scaling" class="control-label col-xs-6">
b. scaling factor for linked SE interactions:</label>
<div class="col-xs-6">
<input type="number" name="se_linked_scaling"
value="{{se_linked_scaling}}" class="form-control"
min="0.0" max="1.0" step="0.1"
onchange="validate(this)" title="0.0 - 1.0" >
</div>
</div>
<hr>
<div class="form-group">
<label for="upload_mutations" class="control-label col-xs-6">
5. Upload set of custom mutations?</label>
<div class="col-xs-6">
<input type="checkbox" name="upload_mutations"
value="on" onclick="show_hide_mutation_upload_form(1)" disabled="true"
%if upload_mutations=='T':
checked
%end
>
</div>
</div>
<hr>
<div class="form-group">
<label for="allow_back_mutn" class="control-label col-xs-6">
6. Allow back mutations?</label>
<div class="col-xs-6">
<input type="checkbox" name="allow_back_mutn"
value="on" onclick="check_back_mutn()"
%if allow_back_mutn=='T':
checked
%end
>
</div>
</div>
</div>
<!--*************************** SELECTION TAB *******************************-->
<div role="tabpanel" class="tab-pane fade" id="selection">
<div class="form-group">
<label for="fraction_random_death" class="control-label col-xs-6">
<ol><li>Fraction of offspring lost apart from selection ("random death"):</ol>
</label>
<div class="col-xs-6">
<input type="number" name="fraction_random_death" class="form-control"
value="{{fraction_random_death}}"
min="0" max="0.99" step="0.1"
onchange="validate(this); compute_memory()"
title="0.0 - 0.99">
</div>
</div>
<div class="form-group">
<label for="heritability" class="control-label col-xs-6">
<ol start=2><li>Heritability:</ol> </label>
<div class="col-xs-6">
<input type="number" name="heritability" title="0 - 1"
min="0" max="1" step="0.1"
onchange="validate(this)" class="form-control"
value="{{heritability}}">
</div>
</div>
<div class="form-group">
<label for="non_scaling_noise" class="control-label col-xs-6">
<ol start=3><li>Non-scaling noise:</ol></label>
<div class="col-xs-6">
<input type="number" name="non_scaling_noise" title="0 - 1"
min="0" max="1" step="0.1"
onchange="validate(this)" class="form-control"
value="{{non_scaling_noise}}">
</div>
</div>
<div class="form-group">
<label for="fitness_dependent_fertility" class="control-label col-xs-6">
<ol start=4><li>Fitness-dependent fecundity decline?</ol></label>
<div class="col-xs-6">
<input type="checkbox" name="fitness_dependent_fertility"
accesskey="4" value="on"
%if fitness_dependent_fertility=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="selection_scheme" class="control-label col-xs-6">
<ol start=5><li>Selection scheme:</ol></label>
<div class="col-xs-6">
<select id="selection_scheme" name="selection_scheme" accesskey="5"
class="form-control" style="width:auto"
onchange="fxn_selection(this.value)">
%opts = {'1': 'Truncation selection', '2': 'Unrestricted probability selection', '3': 'Strict proportionality probability selection', '4': 'Partial truncation selection'}
%for key, value in opts.iteritems():
%if key == selection_scheme:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end
%end
</select>
</div>
</div>
<div id="ptv">
<div class="form-group">
<label for="partial_truncation_value" class="control-label col-xs-6">
:: partial truncation parameter, k</label>
<div class="col-xs-6">
<input type="number" name="partial_truncation_value"
class="form-control" value="{{partial_truncation_value}}"
min="0" max="1" step="0.1"
onchange="validate(this)" title="0.0 - 1.0">
</div>
</div>
</div>
</div>
<!--*************************** POPULATION TAB ******************************-->
<div role="tabpanel" class="tab-pane fade" id="population">
<div class="form-group">
<label for="recombination_model" class="control-label col-xs-6">
1. Recombination model:</label>
<div class="col-xs-6">
<select id="recombination_model" name="recombination_model"
class="form-control" style="width:auto">
%opts = {'1': 'Clonal reproduction', '2': 'Suppressed recombination', '3': 'Full sexual recombination'}
%for key, value in opts.iteritems():
%if key == recombination_model:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end
%end
</select>
</div>
</div>
<div class="form-group">
<label for="fraction_self_fertilization" class="control-label col-xs-6">
2. Fraction self fertilization:</label>
<div class="col-xs-6">
<input type="number" name="fraction_self_fertilization" title="0 - 1"
value="{{fraction_self_fertilization}}" onchange="validate(this)"
min="0" max="1" step="0.1" class="form-control">
</div>
</div>
<div class="form-group">
<label for="dynamic_linkage" class="control-label col-xs-6">
3. Dynamic linkage?</label>
<div class="col-xs-6">
<input type="checkbox" name="dynamic_linkage" accesskey="2"
value="on" onclick="fxn_dynamic_linkage()"
%if dynamic_linkage=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="haploid_chromosome_number" style="left:20px" class="control-label col-xs-6">
:: haploid chromosome number:</label>
<div class="col-xs-6">
<input type="number" name="haploid_chromosome_number" title="1 - 100"
min="1" max="100" step="1" onchange="validate(this)" class="form-control"
value="{{haploid_chromosome_number}}">
</div>
</div>
<div class="form-group">
<label id="num_linkage_subunits" style="left:20px" for="num_linkage_subunits"
class="control-label col-xs-6">
:: number of linkage subunits:</label>
<div class="col-xs-6">
<input type="number" name="num_linkage_subunits" title="1 - 10,000"
min="1" max="10000" data-warning="1000" step="1"
onchange="fxn_auto_malloc(); validate(this)"
class="form-control" value="{{num_linkage_subunits}}">
</div>
</div>
<div class="form-group">
<label for="num_linkage_subunits" class="control-label col-xs-12">
4. Dynamic population size:</label>
</div>
<div class="form-group">
<label for="pop_growth_model" style="left:20px" class="control-label col-xs-6">
:: population growth model:</label>
<div class="col-xs-6">
<select id="pop_growth_model" name="pop_growth_model" accesskey="5"
class="form-control" style="width:auto"
onchange="fxn_pop_growth_model(this.value)">
%opts = {'0': 'Off (fixed population size)', '1': 'Exponential growth', '2': 'Carrying capacity model'}
%for key, value in opts.iteritems():
%if key == pop_growth_model:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end
%end
</select>
</div>
</div>
<div class="form-group">
<label for="pop_growth_rate" style="left:20px" class="control-label col-xs-6">
:: population growth rate:</label>
<div class="col-xs-6">
<input type="number" name="pop_growth_rate" class="form-control"
min="1" max="1.26" step="0.02" onchange="validate(this)"
value="{{pop_growth_rate}}">
</div>
</div>
<div class="form-group">
<label for="bottleneck_yes" class="control-label col-xs-6">
5. Bottleneck?</label>
<div class="col-xs-6">
<input type="checkbox" name="bottleneck_yes" value="on"
class="checkbox" onclick="fxn_bottleneck()"
% if bottleneck_yes == 'T':
CHECKED
%end
>
</div>
</div>
<div id="bydiv" style="display:none">
<div class="form-group">
<label for="bottleneck_generation" class="control-label col-xs-6">
:: generation when bottleneck starts:<br>
<font size="-2"><em>note: negative values enable cyclic
bottlenecking</em></font></label>
<div class="col-xs-6">
<input type="number" name="bottleneck_generation"
value="{{bottleneck_generation}}" class="form-control"
min="-50000" max="50000" step="10"
onchange="check_bottleneck(); validate(this)" title="2 - 50,000">
</div>
</div>
<div class="form-group">
<label for="bottleneck_pop_size" class="control-label col-xs-6">
:: population size during bottleneck:</label>
<div class="col-xs-6">
<input type="text" class="form-control" name="bottleneck_pop_size"
value="{{bottleneck_pop_size}}" title="2 - 1,000">
</div>
</div>
<div class="form-group">
<label for="num_bottleneck_generations" class="control-label col-xs-6">
:: duration of bottleneck - generations:</label>
<div class="col-xs-6">
<input type="number" name="num_bottleneck_generations" class="form-control"
min="1" max="5000" step="10" onchange="validate(this)"
value="{{num_bottleneck_generations}}" title="1 - 5,000">
</div>
</div>
</div>
</div>
<!--*************************** SUBSTRUCTURE TAB ****************************-->
<div role="tabpanel" class="tab-pane fade" id="substructure">
<div class="form-group">
<label for="is_parallel" class="control-label col-xs-6">
Population substructure?</label>
<div class="col-xs-6">
<input type="checkbox" name="is_parallel" onclick="fxn_is_parallel()"
value="on"
%if is_parallel=='T':
checked
%end
>
</div>
</div>
<div id="psdiv" style="display:none">
<div class="form-group">
<label for="homogenous_tribes" class="control-label col-xs-6">
1. Homogeneous subpopulations?</label>
<div class="col-xs-6">
<input type="checkbox" name="homogenous_tribes"
onclick="fxn_tribes(8)" value="on"
%if homogenous_tribes=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="num_tribes" class="control-label col-xs-6">
2. Number of subpopulations:</label>
<div class="col-xs-6">
<input type="number" name="num_tribes" class="form-control"
min="2" max="100" step="1" onchange="fxn_tribes(8)"
value="{{num_tribes}}" title="2 - 100">
</div>
</div>
<div class="form-group">
<label for="migration_model" class="control-label col-xs-6">
3. Migration model:</label>
<div class="col-xs-6">
<select class="form-control" id="migration_model" style="width:auto"
name="migration_model">
%opts = {'1': 'Ring pass', '2': 'Stepping-stone model', '3': 'Island model'}
%for key, value in opts.iteritems():
%if key == migration_model:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end
%end
</select>
</div>
</div>
<div class="form-group">
<label for="num_tribes" class="control-label col-xs-6">
4. Migrate:</label>
<div class="input-group col-xs-6" style="width:320px; padding-left:15px">
<input class="form-control" type="number" name="num_indiv_exchanged"
title="1 to Pop Size" onchange="fxn_migration()";
min="1" size=2 value="{{num_indiv_exchanged}}">
<span class="input-group-addon">individual(s) per</span>
<input type="number" name="migration_generations" class="form-control"
min="1" size=2 value="{{migration_generations}}">
<span class="input-group-addon">gens</span>
</div>
</div>
<div class="form-group">
<label for="tribal_competition" class="control-label col-xs-6">
5. Competition between subpopulations?</label>
<div class="col-xs-6">
<input type="checkbox" name="tribal_competition"
id="tribal_competition" onchange="fxn_tribes(8)" value="on"
%if tribal_competition=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="tc_scaling_factor" class="control-label col-xs-6">
a. group selection scaling factor:</label>
<div class="col-xs-6">
<input type="number" name="tc_scaling_factor" id="tc_scaling_factor"
min="0" max="1" step="0.1" onchange="validate(this)"
class="form-control" value="{{tc_scaling_factor}}"
title="0 - 1." readOnly=true>
</div>
</div>
<div class="form-group">
<label for="group_heritability" class="control-label col-xs-6">
b. group heritability:</label>
<div class="col-xs-6">
<input type="number" name="group_heritability"
title="0-1, 0: max noise 1: no noise"
min="0" max="1" step="0.1" value="{{group_heritability}}"
onchange="validate(this)" class="form-control">
</div>
</div>
<div class="form-group">
<label for="tribal_fission" class="control-label col-xs-6">
6. Fission tribe?</label>
<div class="col-xs-6">
<input type="checkbox" name="tribal_fission" value="on"
%if tribal_fission=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="altruistic" class="control-label col-xs-6">
7. Upload altruistic mutations?</label>
<div class="col-xs-6">
<input type="checkbox" name="altruistic" value="on"
onclick="show_hide_mutation_upload_form(2)" ></td>
</div>
</div>
<div class="form-group">
<label for="social_bonus_factor" class="control-label col-xs-6">
a. social bonus scaling factor:</label>
<div class="col-xs-6">
<input type="number" style="width:7em;" name="social_bonus_factor"
class="form-control" min="0" max="1" step="0.1"
value="1.0" onchange="validate(this)" title="0 - 1"></td>
</div>
</div>
</div>
</div>
<!--*************************** COMPUTATION TAB *****************************-->
<div role="tabpanel" class="tab-pane fade" id="computation">
<div class="form-group">
<label for="auto_malloc" class="control-label col-xs-6">
1. Automatically allocate memory?</label>
<div class="col-xs-6">
<input type="checkbox" name="auto_malloc" value="on"
onclick="fxn_auto_malloc()"
%if auto_malloc=='T':
checked
%end
>
</div>
</div>
<div id="max_del_mutn_per_indiv" class="form-group">
<label for="max_del_mutn_per_indiv" class="control-label col-xs-6">
:: maximum deleterious mutations per individual:</label>
<div class="col-xs-6">
<input type="number" name="max_del_mutn_per_indiv"
onchange="compute_memory(); validate(this)"
min="1000" max="5000000" step="1000"
value="{{max_del_mutn_per_indiv}}" class="form-control">
</div>
</div>
<div id="max_fav_mutn_per_indiv" class="form-group">
<label for="max_fav_mutn_per_indiv" class="control-label col-xs-6">
:: maximum favorable mutations per individual:</label>
<div class="col-xs-6">
<input type="number" name="max_fav_mutn_per_indiv" accesskey="0"
onchange="compute_memory(); validate(this)"
min="1000" max="5000000" step="1000"
value="{{max_fav_mutn_per_indiv}}" class="form-control">
</div>
</div>
<div id="max_neu_mutn_per_indiv" class="form-group">
<label for="max_neu_mutn_per_indiv" class="control-label col-xs-6">
:: maximum neutral mutations per individual:</label>
<div class="col-xs-6">
<input type="number" name="max_neu_mutn_per_indiv" accesskey="0"
onchange="compute_memory(); validate(this)"
min="1000" max="5000000" step="1000"
value="{{max_neu_mutn_per_indiv}}" class="form-control">
</div>
</div>
<div class="form-group">
<label for="track_neutrals" class="control-label col-xs-6">
2. Track all mutations?<br>
<font size="-1">(Note: must be checked if allele statistics
are needed)</font></label>
<div class="col-xs-6">
<input type="checkbox" name="track_all_mutn" value="on"
onclick="fxn_track_all_mutn()"
%if tracking_threshold==1:
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="tracking_threshold" class="control-label col-xs-6">
To conserve memory and speed up runs, <br>
do not track mutations with fitness effects less than:
</label>
<div class="col-xs-6">
<input type="number" name="tracking_threshold"
onchange="validate(this)" class="form-control"
min="0" max="1" step="0.0001"
title="1e-4 ~ 1e-8" value="{{tracking_threshold}}">
</div>
</div>
<div class="form-group">
<label for="extinction_threshold" class="control-label col-xs-6">
3. Go extinct when mean fitness reaches:</label>
<div class="col-xs-6">
<input type="number" name="extinction_threshold"
min="0" max="1" step="0.1"
onchange="validate(this)" class="form-control"
title="0-1" value="{{extinction_threshold}}">
</div>
</div>
<div class="form-group">
<label for="random_number_seed" class="control-label col-xs-6">
4. Random number generator (RNG) seed:</label>
<div class="col-xs-6">
<input type="number" name="random_number_seed" title="1 - 1000"
min="1" max="1e9" step="1" onchange="validate(this)"
class="form-control" value="{{random_number_seed}}">
</div>
</div>
<div class="form-group">
<label for="reseed_rng" class="control-label col-xs-6">
:: Reseed the RNG every gen using PID⊕Time:<br>
<font size="-1">(Warning: if checked, runs will not be repeatable)</font>
</label>
<div class="col-xs-6">
<input type="checkbox" name="reseed_rng" value="on"
%if reseed_rng=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="write_dump" class="control-label col-xs-6">
5. Allow this run to be later re-started with new parameters?<br>
<font size="-1">
(Note: these restart files are very large ~1GB)</font></label>
<div class="col-xs-6">
<input type="checkbox" name="write_dump" accesskey="3" value="on"
%if write_dump=='T':
checked
%end
>
</div>
</div>
<div class="form-group">
<label for="restart_case" class="control-label col-xs-6">
6. Restart second (third, fourth) phase of run
with these new parameters?</label>
<div class="col-xs-6">
<input type="checkbox" name="restart_case" accesskey="4"
onclick="fxn_restart_case()" value="on"
%if restart_case=='T':
checked
%end
>
</div>
</div>
<div id="rddiv" style="display:none">
<div class="form-group">
<label for="restart_dump_number" class="control-label col-xs-6">
:: restart from which phase of run:</label>
<div class="col-xs-6">
<input type="number" name="restart_dump_number" title="1 - 100"
min="1" max="100" step="1" onchange="validate(this)"
value="{{restart_dump_number}}" class="form-control">
</div>
</div>
<div class="form-group">
<label for="restart_case_id" class="control-label col-xs-6">
:: restart from which case ID:</label>
<div class="col-xs-6">
<input type="text" name="restart_case_id"
title="must be six letters" value="{{restart_case_id}}">
</div>
</div>
<div class="form-group">
<label for="restart_append" class="control-label col-xs-6">
:: append data to previous case:</label>
<div class="col-xs-6">
<input type="checkbox" name="restart_append" value="on"
%if restart_append=='T':
CHECKED
%end
>
</div>
</div>
</div>
<div class="form-group">
<label for="plot_allele_gens" class="control-label col-xs-6">
7. Compute allele frequencies every:</label>
<div class="input-group col-xs-6" style="width:200px; padding-left:15px">
<input type="number" name="plot_allele_gens"
class="form-control" min="1" max="10000" step="1"
onchange="validate(this)"
title="0-1" value="{{plot_allele_gens}}">
<span class="input-group-addon">gens</span>
</div>
</div>
<div class="form-group">
<label for="verbosity" class="control-label col-xs-6">
8. Output verbosity level:</label>
<div class="col-xs-6">
<select name="verbosity" class="form-control" style="width:auto" id="verbosity">
%opts = {'0': '0-Output only history', '1': '1-Output necessary files', '2': '2-Output everything' }
%for key, value in opts.iteritems():
%if key == verbosity:
<option selected value="{{key}}">{{value}}
%else:
<option value="{{key}}">{{value}}
%end