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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,188 +0,0 @@ | ||
| /** | ||
| * Module dependencies. | ||
| */ | ||
| var mongoose = require('mongoose'), | ||
| config = require('../../config/config'), | ||
| Schema = mongoose.Schema; | ||
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| /** | ||
| * Experiment Schema | ||
| */ | ||
| var ExperimentSchema = new Schema({ | ||
| created: { | ||
| type: Date, | ||
| default: Date.now | ||
| }, | ||
| EXPERIMENT_ID: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| STUDY_ID: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| STUDY_NAME: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| CENTER_NAME: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| FIRST_SUBMISSION_DATE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SEQ_RUNS_COUNT: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SAMPLE_ID: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SAMPLE_NAME: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| INSTRUMENT_PLATFORM: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| INSTRUMENT_MODEL: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| LIBRARY_NAME: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| LIBRARY_LAYOUT: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| LIBRARY_STRATEGY: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| EXPERIMENT_TYPE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| DISEASE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| BIOMATERIAL_PROVIDER: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| BIOMATERIAL_TYPE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| CELL_TYPE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SPECIMEN_PROCESSING: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SPECIMEN_STORAGE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| READ_QUALITIES: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| MOLECULE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| RUN_ID: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| READ_COUNT: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| BASE_COUNT: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| READ_LENGTH: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| FILE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| WITHDRAWN: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| TYPE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| FILE_MD5: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| FILE_SIZE: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| SUBMISSION_ID: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| RUN_NAME: { | ||
| type: String, | ||
| default: '', | ||
| trim: true | ||
| }, | ||
| user: { | ||
| type: Schema.ObjectId, | ||
| ref: 'User' | ||
| } | ||
| }); | ||
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| mongoose.model('Experiment', ExperimentSchema); | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,124 +1,6 @@ | ||
| /** | ||
| * Module dependencies. | ||
| */ | ||
| var mongoose = require('mongoose'), | ||
| Schema = mongoose.Schema, | ||
| crypto = require('crypto'), | ||
| var crypto = require('crypto'), | ||
| _ = require('underscore'), | ||
| authTypes = ['github', 'twitter', 'facebook', 'google']; | ||
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| /** | ||
| * User Schema | ||
| */ | ||
| var UserSchema = new Schema({ | ||
| name: String, | ||
| email: String, | ||
| username: { | ||
| type: String, | ||
| unique: true | ||
| }, | ||
| provider: String, | ||
| hashed_password: String, | ||
| salt: String, | ||
| facebook: {}, | ||
| twitter: {}, | ||
| github: {}, | ||
| google: {} | ||
| }); | ||
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| /** | ||
| * Virtuals | ||
| */ | ||
| UserSchema.virtual('password').set(function(password) { | ||
| this._password = password; | ||
| this.salt = this.makeSalt(); | ||
| this.hashed_password = this.encryptPassword(password); | ||
| }).get(function() { | ||
| return this._password; | ||
| }); | ||
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| /** | ||
| * Validations | ||
| */ | ||
| var validatePresenceOf = function(value) { | ||
| return value && value.length; | ||
| }; | ||
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| // the below 4 validations only apply if you are signing up traditionally | ||
| UserSchema.path('name').validate(function(name) { | ||
| // if you are authenticating by any of the oauth strategies, don't validate | ||
| if (authTypes.indexOf(this.provider) !== -1) return true; | ||
| return name.length; | ||
| }, 'Name cannot be blank'); | ||
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| UserSchema.path('email').validate(function(email) { | ||
| // if you are authenticating by any of the oauth strategies, don't validate | ||
| if (authTypes.indexOf(this.provider) !== -1) return true; | ||
| return email.length; | ||
| }, 'Email cannot be blank'); | ||
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| UserSchema.path('username').validate(function(username) { | ||
| // if you are authenticating by any of the oauth strategies, don't validate | ||
| if (authTypes.indexOf(this.provider) !== -1) return true; | ||
| return username.length; | ||
| }, 'Username cannot be blank'); | ||
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| UserSchema.path('hashed_password').validate(function(hashed_password) { | ||
| // if you are authenticating by any of the oauth strategies, don't validate | ||
| if (authTypes.indexOf(this.provider) !== -1) return true; | ||
| return hashed_password.length; | ||
| }, 'Password cannot be blank'); | ||
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| /** | ||
| * Pre-save hook | ||
| */ | ||
| UserSchema.pre('save', function(next) { | ||
| if (!this.isNew) return next(); | ||
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| if (!validatePresenceOf(this.password) && authTypes.indexOf(this.provider) === -1) | ||
| next(new Error('Invalid password')); | ||
| else | ||
| next(); | ||
| }); | ||
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| /** | ||
| * Methods | ||
| */ | ||
| UserSchema.methods = { | ||
| /** | ||
| * Authenticate - check if the passwords are the same | ||
| * | ||
| * @param {String} plainText | ||
| * @return {Boolean} | ||
| * @api public | ||
| */ | ||
| authenticate: function(plainText) { | ||
| return this.encryptPassword(plainText) === this.hashed_password; | ||
| }, | ||
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| /** | ||
| * Make salt | ||
| * | ||
| * @return {String} | ||
| * @api public | ||
| */ | ||
| makeSalt: function() { | ||
| return Math.round((new Date().valueOf() * Math.random())) + ''; | ||
| }, | ||
|
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| /** | ||
| * Encrypt password | ||
| * | ||
| * @param {String} password | ||
| * @return {String} | ||
| * @api public | ||
| */ | ||
| encryptPassword: function(password) { | ||
| if (!password) return ''; | ||
| return crypto.createHmac('sha1', this.salt).update(password).digest('hex'); | ||
| } | ||
| }; | ||
|
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| mongoose.model('User', UserSchema); |
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