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Merge pull request #350 from ENCODE-DCC/fix-search
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Corrected error if replicate array is empty.
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@nikhilRP
nikhilRP committed Jul 21, 2014
2 parents 136efdb + 2728163 commit 3dd9191
Showing 1 changed file with 32 additions and 74 deletions.
106 changes: 32 additions & 74 deletions src/encoded/static/components/search.js
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Original file line number Diff line number Diff line change
Expand Up @@ -3,6 +3,7 @@
var React = require('react');
var cloneWithProps = require('react/lib/cloneWithProps');
var url = require('url');
var _ = require('underscore');
var globals = require('./globals');
var image = require('./image');
var search = module.exports;
Expand Down Expand Up @@ -163,81 +164,38 @@ var Dbxref = dbxref.Dbxref;
var result = this.props.context;
var columns = this.props.columns;

// See if all life stage, age, and age_unit arrays are all homogeneous
var name, lifeStage, age, ageUnits, homogenous;

// See if all scientific names are the same
homogenous = result.replicates.every(function(replicate) {
if (replicate.library && replicate.library.biosample && replicate.library.biosample.organism &&
replicate.library.biosample.organism.scientific_name) {
if (name) {
return name === replicate.library.biosample.organism.scientific_name;
} else {
// First time, so just seed the name. End if the name exists but is empty
name = replicate.library.biosample.organism.scientific_name;
return name !== '' && name != 'unknown';
}
} else {
// replicate doesn't have data, so we're done.
return false;
}
});
name = homogenous ? name : '';

// See if all life stages are the same
homogenous = result.replicates.every(function(replicate) {
if (replicate.library && replicate.library.biosample && replicate.library.biosample.life_stage) {
if (lifeStage) {
return lifeStage === replicate.library.biosample.life_stage;
} else {
// First time, so just seed the name. End if the name exists but is empty
lifeStage = replicate.library.biosample.life_stage;
return lifeStage !== '' && lifeStage != 'unknown';
}
} else {
// replicate doesn't have data, so we're done.
return false;
}
});
lifeStage = homogenous ? lifeStage : '';

// See if all ages are the same
homogenous = result.replicates.every(function(replicate) {
if (replicate.library && replicate.library.biosample && replicate.library.biosample.age) {
if (age) {
return age === replicate.library.biosample.age;
} else {
// First time, so just seed the name. End if the name exists but is empty
age = replicate.library.biosample.age;
return age !== '' && age != 'unknown';
}
} else {
// replicate doesn't have data, so we're done.
return false;
}
});
age = homogenous ? ' ' + age : '';

// See if all age units are the same
homogenous = result.replicates.every(function(replicate) {
if (replicate.library && replicate.library.biosample && replicate.library.biosample.age_units) {
if (ageUnits) {
return ageUnits === replicate.library.biosample.age_units;
} else {
// First time, so just seed the name. End if the name exists but is empty
ageUnits = replicate.library.biosample.age_units;
return ageUnits !== '';
}
} else {
// replicate doesn't have data, so we're done.
return false;
}
});
ageUnits = homogenous ? ' ' + ageUnits : '';
// Make array of scientific names from replicates; remove all duplicates
var names = _.uniq(result.replicates.map(function(replicate) {
return (replicate.library && replicate.library.biosample && replicate.library.biosample.organism &&
replicate.library.biosample.organism) ? replicate.library.biosample.organism.scientific_name : undefined;
}));
var name = (names.length === 1 && names[0] && names[0] !== 'unknown') ? names[0] : '';

// Make array of life stages from replicates; remove all duplicates
var lifeStages = _.uniq(result.replicates.map(function(replicate) {
return (replicate.library && replicate.library.biosample) ? replicate.library.biosample.life_stage : undefined;
}));
var lifeStage = (lifeStages.length === 1 && lifeStages[0] && lifeStages[0] !== 'unknown') ? ' ' + lifeStages[0] : '';

// Make array of ages from replicates; remove all duplicates
var ages = _.uniq(result.replicates.map(function(replicate) {
return (replicate.library && replicate.library.biosample) ? replicate.library.biosample.age : undefined;
}));
var age = (ages.length === 1 && ages[0] && ages[0] !== 'unknown') ? ' ' + ages[0] : '';

// Make array of age units from replicates; remove all duplicates
var ageUnit = '';
if (age) {
var ageUnits = _.uniq(result.replicates.map(function(replicate) {
return (replicate.library && replicate.library.biosample) ? replicate.library.biosample.age_units : undefined;
}));
ageUnit = (ageUnits.length === 1 && ageUnits[0] && ageUnits[0] !== 'unknown') ? ' ' + ageUnits[0] : '';
}

// If we have life stage or age, need to separate from scientific name with comma
var separator = (lifeStage || age) ? ', ' : '';

// Get the first treatment
// Get the first treatment if it's there
var treatment = (result.replicates[0] && result.replicates[0].library && result.replicates[0].library.biosample &&
result.replicates[0].library.biosample.treatments[0]) ? result.replicates[0].library.biosample.treatments[0].treatment_term_name : '';

Expand All @@ -252,11 +210,11 @@ var Dbxref = dbxref.Dbxref;
<div className="accession">
<a href={result['@id']}>
{result['assay_term_name']}<span>{result['biosample_term_name'] ? ' of ' + result['biosample_term_name'] : ''}</span>
{name || lifeStage || age || ageUnits ?
{name || lifeStage || age || ageUnit ?
<span>
{' ('}
{name ? <em>{name}</em> : ''}
{separator + lifeStage + age + ageUnits + ')'}
{separator + lifeStage + age + ageUnit + ')'}
</span>
: ''}
</a>
Expand Down

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