Commit f151457e authored by Piotr Gawron's avatar Piotr Gawron
Browse files

frontend modified to match server side changes in API regarding models in project

parent 3fb92e01
......@@ -21,6 +21,7 @@ var InvalidCredentialsError = require('./InvalidCredentialsError');
var LayoutAlias = require('./map/data/LayoutAlias');
var LayoutData = require('./map/data/LayoutData');
var LayoutReaction = require('./map/data/LayoutReaction');
var MapModel = require('./map/data/MapModel');
var MiRna = require('./map/data/MiRna');
var NetworkError = require('./NetworkError');
var Project = require('./map/data/Project');
......@@ -624,6 +625,23 @@ ServerConnector.getConfigurationParam = function(paramId) {
});
};
ServerConnector.getModels = function(projectId) {
var queryParams = {};
var filterParams = {};
var project;
var self = this;
return self.getProjectId(projectId).then(function(result) {
queryParams.projectId = result;
return self.readFile(self.getModelsUrl(queryParams, filterParams));
}).then(function(content) {
var models = [];
var parsedJson = JSON.parse(content);
for (var i = 0; i < parsedJson.length; i++) {
models.push(new MapModel(parsedJson[i]));
}
return models;
});
};
ServerConnector.getProject = function(projectId) {
var queryParams = {};
var filterParams = {};
......@@ -634,6 +652,9 @@ ServerConnector.getProject = function(projectId) {
return self.readFile(self.getProjectsUrl(queryParams, filterParams));
}).then(function(content) {
project = new Project(content);
return self.getModels(projectId);
}).then(function(models) {
project.setModel(models[0]);
return self.getOverlays(projectId);
}).then(function(overlays) {
project.getModel().addLayouts(overlays);
......
......@@ -228,7 +228,9 @@ ProjectInfoPanel.prototype.refresh = function() {
projectNameText.innerHTML = project.getName();
projectVersionText.innerHTML = project.getVersion();
projectDescriptionText.innerHTML = project.getDescription();
projectPublicationsText.innerHTML = project.getPublicationCount();
return ServerConnector.getProjectStatistics();
}).then(function(statistics) {
projectPublicationsText.innerHTML = statistics.getPublicationCount();
return ServerConnector.getLoggedUser();
}).then(function(user) {
self.showUserProfilePage(user);
......
......@@ -5,6 +5,8 @@ var ObjectWithListeners = require('../../ObjectWithListeners');
var Annotation = require("./Annotation");
var Model = require('./MapModel');
var logger = require('../../logger');
function Project(data) {
// call super constructor
ObjectWithListeners.call(this);
......@@ -53,8 +55,6 @@ Project.prototype.loadFromData = function(data) {
this.setOrganism(data.organism);
this.setPublicationCount(data.publicationCount);
this.setModel(new Model(data.map));
this.callListeners("onreload");
}
};
......
......@@ -12,6 +12,7 @@ function ProjectStatistics(data, configuration) {
this.setReactionAnnotations(data.reactionAnnotations, configuration);
this.setElementAnnotations(data.elementAnnotations, configuration);
this.setPublicationCount(data.publications, configuration);
}
ProjectStatistics.prototype = Object.create(ObjectWithListeners.prototype);
......@@ -49,4 +50,11 @@ ProjectStatistics.prototype.getElementAnnotations = function() {
return this._elementAnnotations;
};
ProjectStatistics.prototype.setPublicationCount = function(count) {
this._publicationsCount = count;
};
ProjectStatistics.prototype.getPublicationCount = function() {
return this._publicationsCount;
};
module.exports = ProjectStatistics;
......@@ -9,6 +9,7 @@ var HttpStatus = require('http-status-codes');
var Alias = require('../../main/js/map/data/Alias');
var Configuration = require('../../main/js/Configuration');
var LayoutAlias = require('../../main/js/map/data/LayoutAlias');
var MapModel = require('../../main/js/map/data/MapModel');
var NetworkError = require('../../main/js/NetworkError');
var Project = require('../../main/js/map/data/Project');
var Reaction = require('../../main/js/map/data/Reaction');
......@@ -34,6 +35,13 @@ describe('ServerConnector', function() {
});
});
it('getModels', function() {
return ServerConnector.getModels("sample").then(function(models) {
assert.equal(1, models.length);
assert.ok(models[0] instanceof MapModel);
});
});
it('getPublications', function() {
return ServerConnector.getPublications().then(function(result) {
assert.equal(result.totalSize, 1);
......
......@@ -15,8 +15,8 @@ var logger = require('../logger');
describe('OverviewDialog', function() {
it('open image', function() {
return ServerConnector.readFile("testFiles/projectWithImages.json").then(function(fileContent) {
var project = new Project(JSON.parse(fileContent));
helper.setUrl("http://test/?id=complex_model_with_images");
return ServerConnector.getProject().then(function(project) {
var options = helper.createOptions(project);
var map = new CustomMap(options);
......@@ -31,8 +31,8 @@ describe('OverviewDialog', function() {
});
it('open invalid image', function() {
return ServerConnector.readFile("testFiles/projectWithImages.json").then(function(fileContent) {
var project = new Project(JSON.parse(fileContent));
helper.setUrl("http://test/?id=complex_model_with_images");
return ServerConnector.getProject().then(function(project) {
var options = helper.createOptions(project);
var map = new CustomMap(options);
......@@ -48,8 +48,8 @@ describe('OverviewDialog', function() {
describe('openLink', function() {
it('link to map', function() {
return ServerConnector.readFile("testFiles/projectWithImages.json").then(function(fileContent) {
var project = new Project(JSON.parse(fileContent));
helper.setUrl("http://test/?id=complex_model_with_images");
return ServerConnector.getProject().then(function(project) {
var options = helper.createOptions(project);
var map = new CustomMap(options);
......
......@@ -8,70 +8,38 @@ var chai = require('chai');
var assert = chai.assert;
describe('Project', function() {
it("contructor", function() {
return ServerConnector.readFile("testFiles/project.json").then(function(res) {
var project = new Project(res);
assert.ok(project);
assert.equal(project.getVersion(), "0");
assert.equal(project.getId(), 14898);
assert.equal(project.getName(), "UNKNOWN DISEASE MAP");
assert.equal(project.getProjectId(), "sample");
assert.equal(project.getDescription(), "");
assert.deepEqual(project.getOverviewImages(), []);
var model = project.getModel();
assert.equal(model.getName(), "UNKNOWN DISEASE MAP2");
assert.equal(model.getId(), 15781);
assert.equal(model.getTileSize(), 256);
assert.equal(model.getWidth(), 1305);
assert.equal(model.getHeight(), 473);
assert.equal(model.getMinZoom(), 2);
assert.equal(model.getMaxZoom(), 5);
assert.equal(model.getLayoutsData().length, 3);
assert.equal(model.getCenterLatLng().lat(), 79.18277721779353);
assert.equal(model.getCenterLatLng().lng(), -135.06093781915757);
assert.equal(model.getTopLeftLatLng().lat(), 85.05112877980659);
assert.equal(model.getTopLeftLatLng().lng(), -180.0);
assert.equal(model.getBottomRightLatLng().lat(), 81.26928406550978);
assert.equal(model.getBottomRightLatLng().lng(), -90.0);
assert.equal(logger.getWarnings().length, 0);
describe("constructor", function() {
it("default", function() {
return ServerConnector.readFile("testFiles/apiCalls/projects/sample/token=MOCK_TOKEN_ID&").then(function(res) {
var project = new Project(res);
assert.ok(project);
assert.equal(project.getVersion(), "0");
assert.equal(project.getId(), 14898);
assert.equal(project.getName(), "UNKNOWN DISEASE MAP");
assert.equal(project.getProjectId(), "sample");
assert.equal(project.getDescription(), "");
assert.deepEqual(project.getOverviewImages(), []);
assert.equal(logger.getWarnings().length, 0);
});
});
});
it("contructor from Project obj", function() {
return ServerConnector.readFile("testFiles/project.json").then(function(res) {
var tmpProject = new Project(res);
var project = new Project(tmpProject);
assert.ok(project);
assert.equal(project.getVersion(), "0");
assert.equal(project.getId(), 14898);
assert.equal(project.getName(), "UNKNOWN DISEASE MAP");
assert.equal(project.getProjectId(), "sample");
assert.equal(project.getDescription(), "");
assert.deepEqual(project.getOverviewImages(), []);
var model = project.getModel();
assert.equal(model.getName(), "UNKNOWN DISEASE MAP2");
assert.equal(model.getId(), 15781);
assert.equal(model.getTileSize(), 256);
assert.equal(model.getWidth(), 1305);
assert.equal(model.getHeight(), 473);
assert.equal(model.getMinZoom(), 2);
assert.equal(model.getMaxZoom(), 5);
assert.equal(model.getLayoutsData().length, 3);
assert.equal(model.getCenterLatLng().lat(), 79.18277721779353);
assert.equal(model.getCenterLatLng().lng(), -135.06093781915757);
assert.equal(model.getTopLeftLatLng().lat(), 85.05112877980659);
assert.equal(model.getTopLeftLatLng().lng(), -180.0);
assert.equal(model.getBottomRightLatLng().lat(), 81.26928406550978);
assert.equal(model.getBottomRightLatLng().lng(), -90.0);
assert.equal(logger.getWarnings().length, 0);
it("from Project obj", function() {
return ServerConnector.readFile("testFiles/apiCalls/projects/sample/token=MOCK_TOKEN_ID&").then(function(res) {
var tmpProject = new Project(res);
var project = new Project(tmpProject);
assert.ok(project);
assert.equal(project.getVersion(), "0");
assert.equal(project.getId(), 14898);
assert.equal(project.getName(), "UNKNOWN DISEASE MAP");
assert.equal(project.getProjectId(), "sample");
assert.equal(project.getDescription(), "");
assert.deepEqual(project.getOverviewImages(), []);
assert.equal(logger.getWarnings().length, 0);
});
});
});
});
......@@ -55,8 +55,8 @@ describe('minerva global', function() {
});
it('create with overview', function() {
return ServerConnectorMock.readFile("testFiles/projectWithImages.json").then(function(fileContent) {
var project = new Project(JSON.parse(fileContent));
helper.setUrl("http://test/?id=complex_model_with_images");
return ServerConnectorMock.getProject().then(function(project) {
var options = helper.createOptions(project);
return minerva.create(options);
......
[{"version":null,"name":"main","idObject":19397,"tileSize":256,"width":495,"height":357,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17987,"modelId":19397,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested0","creator":"","inputDataAvailable":"false"},{"idObject":17988,"modelId":19397,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal0","creator":"","inputDataAvailable":"false"},{"idObject":17989,"modelId":19397,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty0","creator":"","inputDataAvailable":"false"}],"submodels":[{"version":null,"name":"s3","idObject":19399,"tileSize":256,"width":421,"height":315,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17978,"modelId":19399,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested3","creator":"","inputDataAvailable":"false"},{"idObject":17979,"modelId":19399,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal3","creator":"","inputDataAvailable":"false"},{"idObject":17980,"modelId":19399,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty3","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.19139766235872,"lng":-135.10688836104512},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":74.06362505154212,"lng":-90.0},"submodelType":"UNKNOWN"},{"version":null,"name":"s2","idObject":19400,"tileSize":256,"width":451,"height":253,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17984,"modelId":19400,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested2","creator":"","inputDataAvailable":"false"},{"idObject":17985,"modelId":19400,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal2","creator":"","inputDataAvailable":"false"},{"idObject":17986,"modelId":19400,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty2","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.19006423440219,"lng":-135.09977827050997},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":78.0903352323621,"lng":-90.0},"submodelType":"UNKNOWN"},{"version":null,"name":"s1","idObject":19398,"tileSize":256,"width":571,"height":276,"minZoom":2,"maxZoom":4,"layouts":[{"idObject":17981,"modelId":19398,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested1","creator":"","inputDataAvailable":"false"},{"idObject":17982,"modelId":19398,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal1","creator":"","inputDataAvailable":"false"},{"idObject":17983,"modelId":19398,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty1","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.18613072613702,"lng":-135.07880910683014},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":79.44906929997262,"lng":-90.0},"submodelType":"PATHWAY"}],"centerLatLng":{"lat":79.18840067864828,"lng":-135.0909090909091},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":74.71754541589858,"lng":-90.0},"submodelType":"UNKNOWN"},{"version":null,"name":"s3","idObject":19399,"tileSize":256,"width":421,"height":315,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17978,"modelId":19399,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested3","creator":"","inputDataAvailable":"false"},{"idObject":17979,"modelId":19399,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal3","creator":"","inputDataAvailable":"false"},{"idObject":17980,"modelId":19399,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty3","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.19139766235872,"lng":-135.10688836104512},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":74.06362505154212,"lng":-90.0},"submodelType":"UNKNOWN"},{"version":null,"name":"s2","idObject":19400,"tileSize":256,"width":451,"height":253,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17984,"modelId":19400,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested2","creator":"","inputDataAvailable":"false"},{"idObject":17985,"modelId":19400,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal2","creator":"","inputDataAvailable":"false"},{"idObject":17986,"modelId":19400,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty2","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.19006423440219,"lng":-135.09977827050997},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":78.0903352323621,"lng":-90.0},"submodelType":"UNKNOWN"},{"version":null,"name":"s1","idObject":19398,"tileSize":256,"width":571,"height":276,"minZoom":2,"maxZoom":4,"layouts":[{"idObject":17981,"modelId":19398,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested1","creator":"","inputDataAvailable":"false"},{"idObject":17982,"modelId":19398,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal1","creator":"","inputDataAvailable":"false"},{"idObject":17983,"modelId":19398,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty1","creator":"","inputDataAvailable":"false"}],"submodels":[],"centerLatLng":{"lat":79.18613072613702,"lng":-135.07880910683014},"topLeftLatLng":{"lat":85.05112877980659,"lng":-180.0},"bottomRightLatLng":{"lat":79.44906929997262,"lng":-90.0},"submodelType":"UNKNOWN"}]
\ No newline at end of file
{"reactionAnnotations":{"UNKNOWN":0,"MI_R_BASE_SEQUENCE":0,"WORM_BASE":0,"COG":0,"HGNC":0,"MIR_TAR_BASE_MATURE_SEQUENCE":0,"CHEBI":0,"DRUGBANK_TARGET_V4":0,"KEGG_ORTHOLOGY":0,"KEGG_COMPOUND":0,"PUBMED":0,"PHARM":0,"CAS":0,"REFSEQ":0,"WIKIPATHWAYS":0,"UNIPROT_ISOFORM":0,"OMIM":0,"UNIGENE":0,"TOXICOGENOMIC_CHEMICAL":0,"MESH_2012":0,"WIKIPEDIA":0,"HGNC_SYMBOL":0,"ENTREZ":0,"MI_R_BASE_MATURE_SEQUENCE":0,"CHEMBL_COMPOUND":0,"MGD":0,"PANTHER":0,"GO":0,"UNIPROT":0,"SGD":0,"WIKIDATA":0,"CCDS":0,"PUBCHEM":0,"EC":0,"HMDB":0,"INTERPRO":0,"DRUGBANK":0,"KEGG_PATHWAY":0,"TAXONOMY":0,"ENSEMBL_PLANTS":0,"TAIR_LOCUS":0,"KEGG_GENES":0,"REACTOME":0,"ENSEMBL":0,"KEGG_REACTION":0,"PUBCHEM_SUBSTANCE":0,"CHEMSPIDER":0,"PFAM":0,"CHEMBL_TARGET":0},"elementAnnotations":{"UNKNOWN":0,"MI_R_BASE_SEQUENCE":0,"WORM_BASE":0,"COG":0,"HGNC":0,"MIR_TAR_BASE_MATURE_SEQUENCE":0,"CHEBI":0,"DRUGBANK_TARGET_V4":0,"KEGG_ORTHOLOGY":0,"KEGG_COMPOUND":0,"PUBMED":0,"PHARM":0,"CAS":0,"REFSEQ":0,"WIKIPATHWAYS":0,"UNIPROT_ISOFORM":0,"OMIM":0,"UNIGENE":0,"TOXICOGENOMIC_CHEMICAL":0,"MESH_2012":0,"WIKIPEDIA":0,"HGNC_SYMBOL":0,"ENTREZ":0,"MI_R_BASE_MATURE_SEQUENCE":0,"CHEMBL_COMPOUND":0,"MGD":0,"PANTHER":0,"GO":0,"UNIPROT":0,"SGD":0,"WIKIDATA":0,"CCDS":0,"PUBCHEM":0,"EC":0,"HMDB":0,"INTERPRO":0,"DRUGBANK":0,"KEGG_PATHWAY":0,"TAXONOMY":0,"ENSEMBL_PLANTS":0,"TAIR_LOCUS":0,"KEGG_GENES":0,"REACTOME":0,"ENSEMBL":0,"KEGG_REACTION":0,"PUBCHEM_SUBSTANCE":0,"CHEMSPIDER":0,"PFAM":0,"CHEMBL_TARGET":0},"publications":0}
\ No newline at end of file
{"version":"0","disease":null,"organism":null,"idObject":18115,"name":"UNKNOWN DISEASE MAP","projectId":"complex_model_with_images","description":"","map":{"version":null,"name":"main","idObject":19397,"tileSize":256,"width":495,"height":357,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17987,"modelId":19397,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested0","creator":"","inputDataAvailable":"false"},{"idObject":17988,"modelId":19397,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal0","creator":"","inputDataAvailable":"false"},{"idObject":17989,"modelId":19397,"name":"Empty","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_empty0","creator":"","inputDataAvailable":"false"}],"submodels":[{"version":null,"name":"s3","idObject":19399,"tileSize":256,"width":421,"height":315,"minZoom":2,"maxZoom":3,"layouts":[{"idObject":17978,"modelId":19399,"name":"Pathways and compartments","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_nested3","creator":"","inputDataAvailable":"false"},{"idObject":17979,"modelId":19399,"name":"Network","description":null,"status":"Not available","progress":"0.00","directory":"fbdbe43de73fe38f62889b89cb863adb/_normal3","creator":"","inputDataAvailable":"false"},{"idObject":17980,"modelId":19399,"name":"Empty","description":null,"status":"Not 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