From 4b4b1c4b1a2bb21c2c6506f143d1c59c24fb6d33 Mon Sep 17 00:00:00 2001
From: Piotr Gawron <piotr.gawron@uni.lu>
Date: Fri, 9 Feb 2018 16:02:04 +0100
Subject: [PATCH] visualization of kinetics elements
---
frontend-js/src/main/js/map/data/Alias.js | 42 +-
.../main/js/map/window/ReactionInfoWindow.js | 19 +
.../js/map/window/ReactionInfoWindow-test.js | 16 +
.../elements/ElementsRestImpl.java | 511 +++++++++---------
4 files changed, 341 insertions(+), 247 deletions(-)
diff --git a/frontend-js/src/main/js/map/data/Alias.js b/frontend-js/src/main/js/map/data/Alias.js
index e1d30f6f0c..d66344e007 100644
--- a/frontend-js/src/main/js/map/data/Alias.js
+++ b/frontend-js/src/main/js/map/data/Alias.js
@@ -27,7 +27,7 @@ function Alias(javaObject) {
}
if (this._modelId === undefined) {
- throw new Error("ModelId is not defined for alias");
+ throw new Error("ModelId is not defined for alias" + javaObject);
}
if (javaObject.name === undefined) {
@@ -71,10 +71,16 @@ Alias.prototype.update = function (javaObject) {
this.setCompartmentId(javaObject.getCompartmentId());
this.setDescription(javaObject.getDescription());
+ this.setConstant(javaObject.getConstant());
+ this.setBoundaryCondition(javaObject.getBoundaryCondition());
+ this.setInitialAmount(javaObject.getInitialAmount());
+ this.setInitialConcentration(javaObject.getInitialConcentration());
+
this.setX(javaObject.getX());
this.setY(javaObject.getY());
this.setWidth(javaObject.getWidth());
this.setHeight(javaObject.getHeight());
+
this.setIsComplete(true);
} else {
if (javaObject.name === undefined) {
@@ -98,6 +104,11 @@ Alias.prototype.update = function (javaObject) {
this.setLinkedSubmodelId(javaObject.linkedSubmodel);
this.setCompartmentId(javaObject.compartmentId);
+ this.setConstant(javaObject.constant);
+ this.setBoundaryCondition(javaObject.boundaryCondition);
+ this.setInitialAmount(javaObject.initialAmount);
+ this.setInitialConcentration(javaObject.initialConcentration);
+
if (javaObject.bounds !== undefined) {
this.setX(javaObject.bounds.x);
@@ -112,11 +123,38 @@ Alias.prototype.update = function (javaObject) {
Alias.prototype.getCharge = function () {
return this.charge;
};
-
Alias.prototype.setCharge = function (charge) {
this.charge = charge;
};
+Alias.prototype.getConstant = function () {
+ return this._constant;
+};
+Alias.prototype.setConstant = function (constant) {
+ this._constant = constant;
+};
+
+Alias.prototype.getBoundaryCondition = function () {
+ return this._boundaryCondition;
+};
+Alias.prototype.setBoundaryCondition = function (boundaryCondition) {
+ this._boundaryCondition = boundaryCondition;
+};
+
+Alias.prototype.getInitialAmount = function () {
+ return this._initialAmount;
+};
+Alias.prototype.setInitialAmount = function (initialAmount) {
+ this._initialAmount = initialAmount;
+};
+
+Alias.prototype.getInitialConcentration = function () {
+ return this._initialConcentration;
+};
+Alias.prototype.setInitialConcentration = function (initialConcentration) {
+ this._initialConcentration = initialConcentration;
+};
+
Alias.prototype.getFormerSymbols = function () {
return this.formerSymbols;
};
diff --git a/frontend-js/src/main/js/map/window/ReactionInfoWindow.js b/frontend-js/src/main/js/map/window/ReactionInfoWindow.js
index f687e2f4a3..1f566037b9 100644
--- a/frontend-js/src/main/js/map/window/ReactionInfoWindow.js
+++ b/frontend-js/src/main/js/map/window/ReactionInfoWindow.js
@@ -87,7 +87,12 @@ ReactionInfoWindow.prototype.createContentDiv = function () {
return Promise.all(promises);
}).then(function (parameters) {
result.appendChild(self.createSbmlParameterDiv(parameters));
+ result.appendChild(self.createKineticsElementsDiv(reaction.getElements()));
+ if (global.MathJax !== undefined) {
+ return MathJax.Hub.Queue(["Typeset", MathJax.Hub]);
+ }
+ }).then(function () {
return Promise.resolve(result);
});
}
@@ -134,6 +139,20 @@ ReactionInfoWindow.prototype.createSbmlParameterDiv = function (parameters) {
return result;
};
+ReactionInfoWindow.prototype.createKineticsElementsDiv = function (elements) {
+ var result = Functions.createElement({type: "div"});
+ result.appendChild(Functions.createElement({type: "h5", content: "Elements: "}));
+ var guiUtils = new GuiUtils();
+ var table = Functions.createElement({type: "div", style: "display: table;", className: "borderTable"});
+ table.appendChild(guiUtils.createTableRow(["Name", "elementId", "Constant", "Boundary condition", "Initial concentration", "Initial amount"]));
+ for (var i = 0; i < elements.length; i++) {
+ var element = elements[i];
+ table.appendChild(guiUtils.createTableRow([element.getName(), element.getElementId(), element.getConstant(), element.getBoundaryCondition(), element.getInitialConcentration(), element.getInitialAmount()]));
+ }
+ result.appendChild(table);
+ return result;
+};
+
ReactionInfoWindow.prototype.init = function () {
var self = this;
return AbstractInfoWindow.prototype.init.call(this).then(function () {
diff --git a/frontend-js/src/test/js/map/window/ReactionInfoWindow-test.js b/frontend-js/src/test/js/map/window/ReactionInfoWindow-test.js
index 88705cfd9c..125ab1088d 100644
--- a/frontend-js/src/test/js/map/window/ReactionInfoWindow-test.js
+++ b/frontend-js/src/test/js/map/window/ReactionInfoWindow-test.js
@@ -116,5 +116,21 @@ describe('ReactionInfoWindow', function () {
assert.ok(div.innerHTML.indexOf(sbmlParameter.getValue()[0]) >= 0, "Parameter value doesn't exist in the output div");
});
});
+ it("elements", function () {
+ var map = helper.createCustomMap();
+
+ var reaction = helper.createReaction(map, true);
+ reaction.setKineticLaw(helper.createKineticLaw());
+
+ var reactionWindow = new ReactionInfoWindow({
+ reaction: reaction,
+ map: map
+ });
+
+ return reactionWindow.createContentDiv().then(function (div) {
+ assert.ok(div.innerHTML.indexOf("Elements") >= 0);
+ assert.ok(div.innerHTML.indexOf(reaction.getElements()[0].getName()) >= 0, "Element name doesn't exist in the output div");
+ });
+ });
});
});
diff --git a/rest-api/src/main/java/lcsb/mapviewer/api/projects/models/bioEntities/elements/ElementsRestImpl.java b/rest-api/src/main/java/lcsb/mapviewer/api/projects/models/bioEntities/elements/ElementsRestImpl.java
index 4bfea6bdc2..328584b778 100644
--- a/rest-api/src/main/java/lcsb/mapviewer/api/projects/models/bioEntities/elements/ElementsRestImpl.java
+++ b/rest-api/src/main/java/lcsb/mapviewer/api/projects/models/bioEntities/elements/ElementsRestImpl.java
@@ -29,268 +29,289 @@ import lcsb.mapviewer.services.view.OverviewImageViewFactory;
@Transactional(value = "txManager")
public class ElementsRestImpl extends BaseRestImpl {
- /**
- * Default class logger.
- */
- @SuppressWarnings("unused")
- private Logger logger = Logger.getLogger(ElementsRestImpl.class);
+ /**
+ * Default class logger.
+ */
+ @SuppressWarnings("unused")
+ private Logger logger = Logger.getLogger(ElementsRestImpl.class);
- @Autowired
- private OverviewImageViewFactory factory;
+ @Autowired
+ private OverviewImageViewFactory factory;
- public List<Map<String, Object>> getElements(String projectId, String id, String columns, String modelId, String token, String type,
- String includedCompartmentIds, String excludedCompartmentIds) throws UserAccessException, SecurityException {
- Set<Integer> ids = new HashSet<>();
- if (!id.equals("")) {
- for (String str : id.split(",")) {
- ids.add(Integer.valueOf(str));
- }
- }
- Set<String> types = new HashSet<>();
- if (!type.isEmpty()) {
- for (String str : type.split(",")) {
- types.add(str.toLowerCase());
- }
- }
- List<Model> models = getModels(projectId, modelId, token);
+ public List<Map<String, Object>> getElements(String projectId, String id, String columns, String modelId,
+ String token, String type, String includedCompartmentIds, String excludedCompartmentIds)
+ throws UserAccessException, SecurityException {
+ Set<Integer> ids = new HashSet<>();
+ if (!id.equals("")) {
+ for (String str : id.split(",")) {
+ ids.add(Integer.valueOf(str));
+ }
+ }
+ Set<String> types = new HashSet<>();
+ if (!type.isEmpty()) {
+ for (String str : type.split(",")) {
+ types.add(str.toLowerCase());
+ }
+ }
+ List<Model> models = getModels(projectId, modelId, token);
- Set<Compartment> includedCompartments = getCompartments(includedCompartmentIds, models);
- Set<Compartment> excludedCompartments = getCompartments(excludedCompartmentIds, models);
- Set<String> columnsSet = createElementColumnSet(columns);
+ Set<Compartment> includedCompartments = getCompartments(includedCompartmentIds, models);
+ Set<Compartment> excludedCompartments = getCompartments(excludedCompartmentIds, models);
+ Set<String> columnsSet = createElementColumnSet(columns);
- List<Map<String, Object>> result = new ArrayList<>();
+ List<Map<String, Object>> result = new ArrayList<>();
- for (Model model2 : models) {
- for (Element element : model2.getElements()) {
- if (ids.size() == 0 || ids.contains(element.getId())) {
- if (types.size() == 0 || types.contains(element.getStringType().toLowerCase())) {
- if (matchIncludedExcludedCompartments(element, includedCompartments, excludedCompartments)) {
- result.add(preparedElement(element, columnsSet));
- }
- }
- }
- }
- }
+ for (Model model2 : models) {
+ for (Element element : model2.getElements()) {
+ if (ids.size() == 0 || ids.contains(element.getId())) {
+ if (types.size() == 0 || types.contains(element.getStringType().toLowerCase())) {
+ if (matchIncludedExcludedCompartments(element, includedCompartments, excludedCompartments)) {
+ result.add(preparedElement(element, columnsSet));
+ }
+ }
+ }
+ }
+ }
- return result;
- }
+ return result;
+ }
- private boolean matchIncludedExcludedCompartments(Element element, Set<Compartment> includedCompartments, Set<Compartment> excludedCompartments) {
- boolean matchIncluded = true;
- boolean matchExcluded = false;
+ private boolean matchIncludedExcludedCompartments(Element element, Set<Compartment> includedCompartments,
+ Set<Compartment> excludedCompartments) {
+ boolean matchIncluded = true;
+ boolean matchExcluded = false;
- if (includedCompartments.size() > 0) {
- matchIncluded = matchCompartments(element, includedCompartments);
- }
- if (excludedCompartments.size() > 0) {
- matchExcluded = matchCompartments(element, excludedCompartments);
- }
+ if (includedCompartments.size() > 0) {
+ matchIncluded = matchCompartments(element, includedCompartments);
+ }
+ if (excludedCompartments.size() > 0) {
+ matchExcluded = matchCompartments(element, excludedCompartments);
+ }
- return matchIncluded && !matchExcluded;
- }
+ return matchIncluded && !matchExcluded;
+ }
- private boolean matchCompartments(Element element, Set<Compartment> compartmentList) {
- boolean isInside = false;
- if (element != null) {
- for (Compartment compartment : compartmentList) {
- if (compartment.contains(element) && element.getModel().getId().equals(compartment.getModel().getId())) {
- isInside = true;
- }
- }
- }
- return isInside;
- }
+ private boolean matchCompartments(Element element, Set<Compartment> compartmentList) {
+ boolean isInside = false;
+ if (element != null) {
+ for (Compartment compartment : compartmentList) {
+ if (compartment.contains(element) && element.getModel().getId().equals(compartment.getModel().getId())) {
+ isInside = true;
+ }
+ }
+ }
+ return isInside;
+ }
- private Set<Compartment> getCompartments(String includedCompartmentIds, List<Model> models) {
- Set<Compartment> includedCompartments = new HashSet<>();
- int count = 0;
- if (!includedCompartmentIds.isEmpty()) {
- for (String compartmentId : includedCompartmentIds.split(",")) {
- Integer integerId = Integer.valueOf(compartmentId);
- for (Model model : models) {
- Compartment compartment = model.getElementByDbId(integerId);
- if (compartment != null) {
- includedCompartments.add(compartment);
- }
- }
- count++;
- }
- if (count > 0 && includedCompartments.size() == 0) {
- includedCompartments.add(new Compartment("empty_comp_to_reject_all_elements"));
- }
- }
- return includedCompartments;
- }
+ private Set<Compartment> getCompartments(String includedCompartmentIds, List<Model> models) {
+ Set<Compartment> includedCompartments = new HashSet<>();
+ int count = 0;
+ if (!includedCompartmentIds.isEmpty()) {
+ for (String compartmentId : includedCompartmentIds.split(",")) {
+ Integer integerId = Integer.valueOf(compartmentId);
+ for (Model model : models) {
+ Compartment compartment = model.getElementByDbId(integerId);
+ if (compartment != null) {
+ includedCompartments.add(compartment);
+ }
+ }
+ count++;
+ }
+ if (count > 0 && includedCompartments.size() == 0) {
+ includedCompartments.add(new Compartment("empty_comp_to_reject_all_elements"));
+ }
+ }
+ return includedCompartments;
+ }
- private Map<String, Object> preparedElement(Element element, Set<String> columnsSet) {
- Map<String, Object> result = new HashMap<>();
- for (String string : columnsSet) {
- String column = string.toLowerCase();
- Object value = null;
- if (column.equals("id") || column.equals("idobject")) {
- value = element.getId();
- } else if (column.equals("modelid")) {
- value = element.getModelData().getId();
- } else if (column.equals("elementid")) {
- value = element.getElementId();
- } else if (column.equals("name")) {
- value = element.getName();
- } else if (column.equals("type")) {
- value = element.getStringType();
- } else if (column.equals("symbol")) {
- value = element.getSymbol();
- } else if (column.equals("fullname")) {
- value = element.getFullName();
- } else if (column.equals("abbreviation")) {
- value = element.getAbbreviation();
- } else if (column.equals("compartmentid")) {
- if (element.getCompartment() != null) {
- value = element.getCompartment().getId();
- }
- } else if (column.equals("complexid")) {
- if (element instanceof Species) {
- if (((Species) element).getComplex() != null) {
- value = ((Species) element).getComplex().getId();
- }
- }
- } else if (column.equals("references")) {
- value = createAnnotations(element.getMiriamData());
- } else if (column.equals("synonyms")) {
- value = element.getSynonyms();
- } else if (column.equals("formula")) {
- value = element.getFormula();
- } else if (column.equals("notes")) {
- value = element.getNotes();
- } else if (column.equals("other")) {
- value = getOthersForElement(element);
- } else if (column.equals("formersymbols")) {
- value = element.getFormerSymbols();
- } else if (column.equals("hierarchyvisibilitylevel")) {
- value = element.getVisibilityLevel();
- } else if (column.equals("linkedsubmodel")) {
- if (element.getSubmodel() != null) {
- value = element.getSubmodel().getSubmodel().getId();
- }
- } else if (column.equals("bounds")) {
- value = createBounds(element.getX(), element.getY(), element.getWidth(), element.getHeight());
- }
- else {
- value = "Unknown column";
- }
- result.put(string, value);
- }
- return result;
- }
+ private Map<String, Object> preparedElement(Element element, Set<String> columnsSet) {
+ Map<String, Object> result = new HashMap<>();
+ for (String string : columnsSet) {
+ String column = string.toLowerCase();
+ Object value = null;
+ if (column.equals("id") || column.equals("idobject")) {
+ value = element.getId();
+ } else if (column.equals("modelid")) {
+ value = element.getModelData().getId();
+ } else if (column.equals("elementid")) {
+ value = element.getElementId();
+ } else if (column.equals("name")) {
+ value = element.getName();
+ } else if (column.equals("type")) {
+ value = element.getStringType();
+ } else if (column.equals("symbol")) {
+ value = element.getSymbol();
+ } else if (column.equals("fullname")) {
+ value = element.getFullName();
+ } else if (column.equals("abbreviation")) {
+ value = element.getAbbreviation();
+ } else if (column.equals("compartmentid")) {
+ if (element.getCompartment() != null) {
+ value = element.getCompartment().getId();
+ }
+ } else if (column.equals("complexid")) {
+ if (element instanceof Species) {
+ if (((Species) element).getComplex() != null) {
+ value = ((Species) element).getComplex().getId();
+ }
+ }
+ } else if (column.equals("initialconcentration")) {
+ if (element instanceof Species) {
+ value = ((Species) element).getInitialConcentration();
+ }
+ } else if (column.equals("initialamount")) {
+ if (element instanceof Species) {
+ value = ((Species) element).getInitialAmount();
+ }
+ } else if (column.equals("boundarycondition")) {
+ if (element instanceof Species) {
+ value = ((Species) element).getBoundaryCondition();
+ }
+ } else if (column.equals("constant")) {
+ if (element instanceof Species) {
+ value = ((Species) element).getConstant();
+ }
+ } else if (column.equals("references")) {
+ value = createAnnotations(element.getMiriamData());
+ } else if (column.equals("synonyms")) {
+ value = element.getSynonyms();
+ } else if (column.equals("formula")) {
+ value = element.getFormula();
+ } else if (column.equals("notes")) {
+ value = element.getNotes();
+ } else if (column.equals("other")) {
+ value = getOthersForElement(element);
+ } else if (column.equals("formersymbols")) {
+ value = element.getFormerSymbols();
+ } else if (column.equals("hierarchyvisibilitylevel")) {
+ value = element.getVisibilityLevel();
+ } else if (column.equals("linkedsubmodel")) {
+ if (element.getSubmodel() != null) {
+ value = element.getSubmodel().getSubmodel().getId();
+ }
+ } else if (column.equals("bounds")) {
+ value = createBounds(element.getX(), element.getY(), element.getWidth(), element.getHeight());
+ } else {
+ value = "Unknown column";
+ }
+ result.put(string, value);
+ }
+ return result;
+ }
- protected Map<String, Object> getOthersForElement(Element element) {
- Map<String, Object> result = new HashMap<>();
- List<Map<String, Object>> modifications = new ArrayList<>();
- String structuralState = null;
- Map<String, Object> structures = new HashMap<>();
- if (element instanceof Protein) {
- Protein protein = ((Protein) element);
- modifications = getModifications(protein.getModificationResidues());
- structuralState = protein.getStructuralState();
- } else if (element instanceof Rna) {
- Rna rna = ((Rna) element);
- modifications = getModifications(((Rna) element).getRegions());
- structuralState = rna.getState();
- } else if (element instanceof AntisenseRna) {
- AntisenseRna antisenseRna = ((AntisenseRna) element);
- modifications = getModifications(((AntisenseRna) element).getRegions());
- structuralState = antisenseRna.getState();
- }
- if (element instanceof Species) {
- structures = getStructures(((Species)element).getUniprots());
- }
- result.put("modifications", modifications);
- result.put("structuralState", structuralState);
- result.put("structures", structures);
+ protected Map<String, Object> getOthersForElement(Element element) {
+ Map<String, Object> result = new HashMap<>();
+ List<Map<String, Object>> modifications = new ArrayList<>();
+ String structuralState = null;
+ Map<String, Object> structures = new HashMap<>();
+ if (element instanceof Protein) {
+ Protein protein = ((Protein) element);
+ modifications = getModifications(protein.getModificationResidues());
+ structuralState = protein.getStructuralState();
+ } else if (element instanceof Rna) {
+ Rna rna = ((Rna) element);
+ modifications = getModifications(((Rna) element).getRegions());
+ structuralState = rna.getState();
+ } else if (element instanceof AntisenseRna) {
+ AntisenseRna antisenseRna = ((AntisenseRna) element);
+ modifications = getModifications(((AntisenseRna) element).getRegions());
+ structuralState = antisenseRna.getState();
+ }
+ if (element instanceof Species) {
+ structures = getStructures(((Species) element).getUniprots());
+ }
+ result.put("modifications", modifications);
+ result.put("structuralState", structuralState);
+ result.put("structures", structures);
- return result;
- }
+ return result;
+ }
- private List<Map<String, Object>> getModifications(List<? extends ElementModification> elements) {
- List<Map<String, Object>> result = new ArrayList<>();
- for (ElementModification region : elements) {
- if (region.getState() != null) {
- Map<String, Object> row = new HashMap<>();
- row.put("name", region.getName());
- String state = region.getState().name();
- row.put("state", state);
- result.add(row);
- }
- }
- return result;
- }
-
- private Map<String, Object> getStructures(Set<UniprotRecord> uniprots) {
- Map<String, Object> result = new HashMap<>();
- for (UniprotRecord uniprotRec : uniprots) {
- Set<Object> structs = new HashSet<>();
- for (Structure struct: uniprotRec.getStructures()) {
- structs.add(struct.toMap());
- }
- result.put(uniprotRec.getUniprotId(), structs);
- }
- return result;
- }
+ private List<Map<String, Object>> getModifications(List<? extends ElementModification> elements) {
+ List<Map<String, Object>> result = new ArrayList<>();
+ for (ElementModification region : elements) {
+ if (region.getState() != null) {
+ Map<String, Object> row = new HashMap<>();
+ row.put("name", region.getName());
+ String state = region.getState().name();
+ row.put("state", state);
+ result.add(row);
+ }
+ }
+ return result;
+ }
- private Map<String, Object> createBounds(Double x, Double y, Double width, Double height) {
- Map<String, Object> result = new HashMap<>();
- result.put("x", x);
- result.put("y", y);
- result.put("width", width);
- result.put("height", height);
- return result;
- }
+ private Map<String, Object> getStructures(Set<UniprotRecord> uniprots) {
+ Map<String, Object> result = new HashMap<>();
+ for (UniprotRecord uniprotRec : uniprots) {
+ Set<Object> structs = new HashSet<>();
+ for (Structure struct : uniprotRec.getStructures()) {
+ structs.add(struct.toMap());
+ }
+ result.put(uniprotRec.getUniprotId(), structs);
+ }
+ return result;
+ }
- private Set<String> createElementColumnSet(String columns) {
- Set<String> columnsSet = new HashSet<>();
- if (columns.equals("")) {
- columnsSet.add("id");
- columnsSet.add("elementId");
- columnsSet.add("modelId");
- columnsSet.add("name");
- columnsSet.add("type");
- columnsSet.add("notes");
- columnsSet.add("type");
- columnsSet.add("symbol");
- columnsSet.add("complexId");
- columnsSet.add("compartmentId");
- columnsSet.add("fullName");
- columnsSet.add("abbreviation");
- columnsSet.add("formula");
- columnsSet.add("name");
- columnsSet.add("synonyms");
- columnsSet.add("formerSymbols");
- columnsSet.add("references");
- columnsSet.add("bounds");
- columnsSet.add("hierarchyVisibilityLevel");
- columnsSet.add("linkedSubmodel");
- columnsSet.add("other");
- } else {
- for (String str : columns.split(",")) {
- columnsSet.add(str);
- }
- }
- return columnsSet;
- }
+ private Map<String, Object> createBounds(Double x, Double y, Double width, Double height) {
+ Map<String, Object> result = new HashMap<>();
+ result.put("x", x);
+ result.put("y", y);
+ result.put("width", width);
+ result.put("height", height);
+ return result;
+ }
- /**
- * @return the factory
- * @see #factory
- */
- public OverviewImageViewFactory getFactory() {
- return factory;
- }
+ private Set<String> createElementColumnSet(String columns) {
+ Set<String> columnsSet = new HashSet<>();
+ if (columns.equals("")) {
+ columnsSet.add("id");
+ columnsSet.add("elementId");
+ columnsSet.add("modelId");
+ columnsSet.add("name");
+ columnsSet.add("type");
+ columnsSet.add("notes");
+ columnsSet.add("type");
+ columnsSet.add("symbol");
+ columnsSet.add("complexId");
+ columnsSet.add("compartmentId");
+ columnsSet.add("fullName");
+ columnsSet.add("abbreviation");
+ columnsSet.add("formula");
+ columnsSet.add("name");
+ columnsSet.add("synonyms");
+ columnsSet.add("formerSymbols");
+ columnsSet.add("references");
+ columnsSet.add("bounds");
+ columnsSet.add("hierarchyVisibilityLevel");
+ columnsSet.add("linkedSubmodel");
+ columnsSet.add("other");
+ columnsSet.add("initialConcentration");
+ columnsSet.add("boundaryCondition");
+ columnsSet.add("constant");
+ columnsSet.add("initialAmount");
+ } else {
+ for (String str : columns.split(",")) {
+ columnsSet.add(str);
+ }
+ }
+ return columnsSet;
+ }
- /**
- * @param factory
- * the factory to set
- * @see #factory
- */
- public void setFactory(OverviewImageViewFactory factory) {
- this.factory = factory;
- }
+ /**
+ * @return the factory
+ * @see #factory
+ */
+ public OverviewImageViewFactory getFactory() {
+ return factory;
+ }
+
+ /**
+ * @param factory
+ * the factory to set
+ * @see #factory
+ */
+ public void setFactory(OverviewImageViewFactory factory) {
+ this.factory = factory;
+ }
}
--
GitLab