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Commit 02503365 authored by Michael Baudis's avatar Michael Baudis
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arrayMap instead of ArrayMap 

lowercasing, mostly for git setup test
parent 021728ca
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.DS_Store 0 → 100644
View file @ 02503365
File added
beacon-app/arraymap-beacon/v0.2/beacon-info.js
View file @ 02503365
......@@ -2,9 +2,9 @@ var object = {
info: { "info": {
"id": "arraymap-beacon",
"name": "Beacon ArrayMap",
"name": "Beacon arrayMap",
"organization": "SIB Swiss Institute of Bioinformatics",
"description": "First Prototype of a Beacon v0.2 implementation for ArrayMap.",
"description": "First Prototype of a Beacon v0.2 implementation for arrayMap.",
"datasets": [
{"id": "9962/3", "description": "Essential thrombocythemia", "reference": "reference genome", "size": { "variants": "-1", "samples": "45"}},
......
beacon-app/arraymap-beacon/v0.3/beacon-info.js
View file @ 02503365
......@@ -2,9 +2,9 @@ var object = {
info: { "info": {
"id": "arraymap-beacon",
"name": "Beacon ArrayMap",
"name": "Beacon arrayMap",
"organization": "SIB Swiss Institute of Bioinformatics",
"description": "First Prototype of a Beacon v0.3 implementation for ArrayMap.",
"description": "First Prototype of a Beacon v0.3 implementation for arrayMap.",
"datasets": [
{"id": "9962/3", "description": "Essential thrombocythemia", "reference": "reference genome", "size": { "variants": "-1", "samples": "45"}},
......
beacon-app/arraymap-beacon/v0.4/beacon-info.js
View file @ 02503365
......@@ -32,7 +32,7 @@ function getDatasets(json) {
var infoinfo = {};
infoinfo.id = "arraymap-beacon";
infoinfo.name = "Beacon ArrayMap";
infoinfo.name = "arrayMap Beacon";
infoinfo.organization = "SIB Swiss Institute of Bioinformatics";
infoinfo.description = "First Prototype of a Beacon v0.4 implementation for arrayMap";
infoinfo.api = "v0.4";
......@@ -64,4 +64,4 @@ function getDatasets(json) {
object.info = info;
return object;
}
\ No newline at end of file
}
beacon-app/public/index.html
View file @ 02503365
......@@ -4,7 +4,7 @@
<meta charset="utf-8">
<meta http-equiv="X-UA-Compatible" content="IE=edge">
<meta name="viewport" content="width=device-width, initial-scale=1">
<title>Beacon ArrayMap</title>
<title>arrayMap Beacon</title>
<link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.6/css/bootstrap.min.css" integrity="sha384-1q8mTJOASx8j1Au+a5WDVnPi2lkFfwwEAa8hDDdjZlpLegxhjVME1fgjWPGmkzs7" crossorigin="anonymous">
<link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.6/css/bootstrap-theme.min.css" integrity="sha384-fLW2N01lMqjakBkx3l/M9EahuwpSfeNvV63J5ezn3uZzapT0u7EYsXMjQV+0En5r" crossorigin="anonymous">
......@@ -25,4 +25,4 @@
<body ng-app="beaconArrayApp">
<div ng-view />
</body>
</html>
\ No newline at end of file
</html>
beacon-app/public/partials/beacon-home.html
View file @ 02503365
<div ng-controller="BeaconController" ng-cloak class="container">
<div class="jumbotron">
<h1>Beacon ArrayMap</h1>
<h1>Beacon arrayMap</h1>
<p><a target="_blank" href="https://genomicsandhealth.org/work-products-demonstration-projects/beacon-project-0">Beacon</a>
<a target="_blank" href="https://docs.google.com/document/d/1n7qtCBFwsExP_k2GPfWS_PN53Xeh8YxeCBOgyZ5itOw/edit#"> v0.4</a> implementation for <a target="_blank" href="http://arraymap.org/">ArrayMap</a>.</p>
<a target="_blank" href="https://docs.google.com/document/d/1n7qtCBFwsExP_k2GPfWS_PN53Xeh8YxeCBOgyZ5itOw/edit#"> v0.4</a> implementation for <a target="_blank" href="http://arraymap.org/">arrayMap</a>.</p>
</div>
<form class="form-horizontal">
<div class="form-group">
......@@ -34,7 +34,7 @@
</div>
</div>
<div class="form-group">
<label style="color:green" for="alternateBases" class="col-sm-2 control-label">Alternate bases</label>
<label for="alternateBases" class="col-sm-2 control-label">Alternate bases</label>
<div class="col-sm-4">
<select id="alternateBases" ng-model="config.alternateBases" class="form-control">
<option value="DEL">DEL (Deletion)</option>
......@@ -96,4 +96,4 @@
</div>
</form>
</div>
\ No newline at end of file
</div>
beacon-app/views/index.jade
View file @ 02503365
extends layout
block content
h1 ArrayMap data accessed using node express (experimental)
h1 arrayMap data accessed using node express (experimental)
p The are samples here
a(href='/samples?limit=10') Samples (first 10)
p
......
mongo-queries/aggregate-query.js
View file @ 02503365
......@@ -105,7 +105,7 @@ query2.forEach(function (match) {
matches.push('\n{"id": "' + match._id + '", "description": "' + description+ '", "reference": "' + genome + '", "size": { "variants": "-1", "samples": "' + samples.length + '"}}');
});
print ('{ "info": {\n "id": "arraymap-beacon",\n "name": "Beacon ArrayMap", \n "organization": "SIB Swiss Institute of Bioinformatics",\n "description": "First Prototype of a Beacon v0.2 implementation for ArrayMap.",\n "datasets": [');
print ('{ "info": {\n "id": "arraymap-beacon",\n "name": "Beacon arrayMap", \n "organization": "SIB Swiss Institute of Bioinformatics",\n "description": "First Prototype of a Beacon v0.2 implementation for arrayMap.",\n "datasets": [');
print(matches);
print ('],\n "api": "v0.2",\n "homepage": "http://beacon-arraymap.vital-it.ch/",\n "email": "SIB-Technology@isb-sib.ch"\n }\n}');
......
mongo-queries/build-info.js
View file @ 02503365
......@@ -19,7 +19,7 @@ groupByQuery.forEach(function (match) {
matches.push('\n{"id": "' + match._id + '", "description": "' + description+ '", "reference": "' + genome + '", "size": { "variants": "-1", "samples": "' + samples.length + '"}}');
});
print ('var object = {\n\tinfo: { "info": {\n\t\t"id": "arraymap-beacon",\n\t\t"name": "Beacon ArrayMap",\n\t\t"organization": "SIB Swiss Institute of Bioinformatics",\n\t\t"description": "First Prototype of a Beacon v0.4 implementation for arrayMap",\n\t\t"api": "v0.4",\n\t\t"homepage": "http://beacon.arraymap.org/",\n\t\t"email": "SIB-Technology@isb-sib.ch",\n\t\t"datasets": [');
print ('var object = {\n\tinfo: { "info": {\n\t\t"id": "arraymap-beacon",\n\t\t"name": "Beacon arrayMap",\n\t\t"organization": "SIB Swiss Institute of Bioinformatics",\n\t\t"description": "First Prototype of a Beacon v0.4 implementation for arrayMap",\n\t\t"api": "v0.4",\n\t\t"homepage": "http://beacon.arraymap.org/",\n\t\t"email": "SIB-Technology@isb-sib.ch",\n\t\t"datasets": [');
print(matches);
print ('\t\t]\n\t}\n\t}\n};');
print ('module.exports.info = object;\n');
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