Package org.gephi.io.importer.api

Examples of org.gephi.io.importer.api.Issue

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            } else if (edgeType.equalsIgnoreCase("directed")) {
                edge.setType(EdgeDraft.EdgeType.DIRECTED);
            } else if (edgeType.equalsIgnoreCase("mutual")) {
                edge.setType(EdgeDraft.EdgeType.MUTUAL);
            } else {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgetype", edgeType, edge), Issue.Level.SEVERE));
            }
        }

        //Id
        if (!id.isEmpty()) {
            edge.setId(id);
        }

        //Weight
        if (!weight.isEmpty()) {
            try {
                float weightNumber = Float.parseFloat(weight);
                edge.setWeight(weightNumber);
            } catch (NumberFormatException e) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgeweight", edge), Issue.Level.WARNING));
            }
        }

        //Label
        if (!label.isEmpty()) {
            edge.setLabel(label);
        }

        container.addEdge(edge);

        boolean end = false;
        boolean spells = false;
        while (reader.hasNext() && !end) {
            int type = reader.next();

            switch (type) {
                case XMLStreamReader.START_ELEMENT:
                    if (ATTVALUE.equalsIgnoreCase(xmlReader.getLocalName())) {
                        readEdgeAttValue(reader, edge);
                    } else if (EDGE_COLOR.equalsIgnoreCase(xmlReader.getLocalName())) {
                        readEdgeColor(reader, edge);
                    } else if (EDGE_SPELL.equalsIgnoreCase(xmlReader.getLocalName()) ||
                            EDGE_SPELL2.equalsIgnoreCase(xmlReader.getLocalName())) {
                        readEdgeSpell(reader, edge);
                        spells = true;
                    }
                    break;

                case XMLStreamReader.END_ELEMENT:
                    if (EDGE.equalsIgnoreCase(xmlReader.getLocalName())) {
                        end = true;
                    }
                    break;
            }
        }

        //Dynamic
        if (!spells && (!startDate.isEmpty() || !endDate.isEmpty())) {
            try {
                edge.addTimeInterval(startDate, endDate, startOpen, endOpen);
            } catch (IllegalArgumentException e) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edge_timeinterval_parseerror", edge), Issue.Level.SEVERE));
            }
        }
    }
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                endDate = reader.getAttributeValue(i);
            }
        }

        if (fore.isEmpty()) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_datakey", edge), Issue.Level.SEVERE));
            return;
        }

        if (!value.isEmpty()) {
            //Data attribute value
            AttributeColumn column = container.getAttributeModel().getEdgeTable().getColumn(fore);
            if (column != null) {
                if (!startDate.isEmpty() || !endDate.isEmpty()) {
                    //Dynamic
                    try {
                        edge.addAttributeValue(column, value, startDate, endDate);
                    } catch (IllegalArgumentException e) {
                        report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgeattribute_timeinterval_parseerror", edge), Issue.Level.SEVERE));
                    } catch (Exception e) {
                        report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_datavalue", fore, edge, column.getTitle()), Issue.Level.SEVERE));
                    }
                } else {
                    if (column.getType().isDynamicType()) {
                        edge.addAttributeValue(column, value);
                    } else {
                        try {
                            Object val = column.getType().parse(value);
                            edge.addAttributeValue(column, val);
                        } catch (Exception e) {
                            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_datavalue", fore, edge, column.getTitle()), Issue.Level.SEVERE));
                        }
                    }
                }
            }
        }
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        int r = (rStr.isEmpty()) ? 0 : Integer.parseInt(rStr);
        int g = (gStr.isEmpty()) ? 0 : Integer.parseInt(gStr);
        int b = (bStr.isEmpty()) ? 0 : Integer.parseInt(bStr);
        float a = (aStr.isEmpty()) ? 0 : Float.parseFloat(aStr); //not used
        if(r < 0 || r > 255) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgecolorvalue", rStr, edge, "r"), Issue.Level.WARNING));
        }
        if(g < 0 || g > 255) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgecolorvalue", gStr, edge, "g"), Issue.Level.WARNING));
        }
        if(b < 0 || b > 255) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgecolorvalue", bStr, edge, "b"), Issue.Level.WARNING));
        }
        if(a < 0f || a > 1f) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edgeopacityvalue", aStr, edge), Issue.Level.WARNING));
        }

        edge.setColor(new Color(r, g, b));
    }
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        if (!start.isEmpty() || !end.isEmpty()) {
            try {
                edge.addTimeInterval(start, end, startOpen, endOpen);
            } catch (IllegalArgumentException e) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_edge_timeinterval_parseerror", edge), Issue.Level.SEVERE));
            }
        }
    }
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        if (!id.isEmpty() && !type.isEmpty()) {
            //Class type
            if (classAtt.isEmpty() || !(classAtt.equalsIgnoreCase("node") || classAtt.equalsIgnoreCase("edge"))) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributeclass", title), Issue.Level.SEVERE));
            }

            //Default?
            boolean end = false;
            boolean defaultFlag = false;
            while (reader.hasNext() && !end) {
                int xmltype = reader.next();

                switch (xmltype) {
                    case XMLStreamReader.START_ELEMENT:
                        if (ATTRIBUTE_DEFAULT.equalsIgnoreCase(xmlReader.getLocalName())) {
                            defaultFlag = true;
                        }
                        break;
                    case XMLStreamReader.CHARACTERS:
                        if (defaultFlag && !xmlReader.isWhiteSpace()) {
                            defaultStr = xmlReader.getText();
                        }
                        break;
                    case XMLStreamReader.END_ELEMENT:
                        if (ATTRIBUTE.equalsIgnoreCase(xmlReader.getLocalName())) {
                            end = true;
                        }
                        break;
                }
            }

            //Dynamic?
            boolean dynamic = typeAtt.equalsIgnoreCase("dynamic");

            //Type
            AttributeType attributeType = AttributeType.STRING;
            if (type.equalsIgnoreCase("boolean") || type.equalsIgnoreCase("bool")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_BOOLEAN : AttributeType.BOOLEAN;
            } else if (type.equalsIgnoreCase("integer") || type.equalsIgnoreCase("int")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_INT : AttributeType.INT;
            } else if (type.equalsIgnoreCase("long")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_LONG : AttributeType.LONG;
            } else if (type.equalsIgnoreCase("float")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_FLOAT : AttributeType.FLOAT;
            } else if (type.equalsIgnoreCase("double")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_DOUBLE : AttributeType.DOUBLE;
            } else if (type.equalsIgnoreCase("string")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_STRING : AttributeType.STRING;
            } else if (type.equalsIgnoreCase("bigdecimal")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_BIGDECIMAL : AttributeType.BIGDECIMAL;
            } else if (type.equalsIgnoreCase("biginteger")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_BIGINTEGER : AttributeType.BIGINTEGER;
            } else if (type.equalsIgnoreCase("byte")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_BYTE : AttributeType.BYTE;
            } else if (type.equalsIgnoreCase("char")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_CHAR : AttributeType.CHAR;
            } else if (type.equalsIgnoreCase("short")) {
                attributeType = dynamic ? AttributeType.DYNAMIC_SHORT : AttributeType.SHORT;
            } else if (type.equalsIgnoreCase("listboolean")) {
                attributeType = AttributeType.LIST_BOOLEAN;
            } else if (type.equalsIgnoreCase("listint")) {
                attributeType = AttributeType.LIST_INTEGER;
            } else if (type.equalsIgnoreCase("listlong")) {
                attributeType = AttributeType.LIST_LONG;
            } else if (type.equalsIgnoreCase("listfloat")) {
                attributeType = AttributeType.LIST_FLOAT;
            } else if (type.equalsIgnoreCase("listdouble")) {
                attributeType = AttributeType.LIST_DOUBLE;
            } else if (type.equalsIgnoreCase("liststring")) {
                attributeType = AttributeType.LIST_STRING;
            } else if (type.equalsIgnoreCase("listbigdecimal")) {
                attributeType = AttributeType.LIST_BIGDECIMAL;
            } else if (type.equalsIgnoreCase("listbiginteger")) {
                attributeType = AttributeType.LIST_BIGINTEGER;
            } else if (type.equalsIgnoreCase("listbyte")) {
                attributeType = AttributeType.LIST_BYTE;
            } else if (type.equalsIgnoreCase("listchar")) {
                attributeType = AttributeType.LIST_CHARACTER;
            } else if (type.equalsIgnoreCase("listshort")) {
                attributeType = AttributeType.LIST_SHORT;
            } else {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributetype2", type), Issue.Level.SEVERE));
                return;
            }

            //Default Object
            Object defaultValue = null;
            if (!defaultStr.isEmpty()) {
                try {
                    defaultValue = attributeType.parse(defaultStr);
                    report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_log_default", defaultStr, title));
                } catch (Exception e) {
                    report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributedefault", title, attributeType.getTypeString()), Issue.Level.SEVERE));
                }
            }

            //Add to model
            if ("node".equalsIgnoreCase(classAtt) || classAtt.isEmpty()) {
                if (container.getAttributeModel().getNodeTable().hasColumn(id) || container.getAttributeModel().getNodeTable().hasColumn(title)) {
                    report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributecolumn_exist", id));
                    return;
                }
                container.getAttributeModel().getNodeTable().addColumn(id, title, attributeType, AttributeOrigin.DATA, defaultValue);
                report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_log_nodeattribute", title, attributeType.getTypeString()));
            } else if ("edge".equalsIgnoreCase(classAtt) || classAtt.isEmpty()) {
                if ((id.equalsIgnoreCase("weight") || title.equalsIgnoreCase("weight")) && dynamic && attributeType.equals(AttributeType.DYNAMIC_FLOAT)) {
                    //Dynamic weight
                    report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_log_dynamic_weight", id));
                    container.getAttributeModel().getEdgeTable().removeColumn(container.getAttributeModel().getEdgeTable().getColumn(PropertiesColumn.EDGE_WEIGHT.getIndex()));
                    container.getAttributeModel().getEdgeTable().addColumn(id, PropertiesColumn.EDGE_WEIGHT.getTitle(), attributeType, AttributeOrigin.PROPERTY, defaultValue);
                    return;
                } else if (container.getAttributeModel().getEdgeTable().hasColumn(id) || container.getAttributeModel().getEdgeTable().hasColumn(title)) {
                    report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributecolumn_exist", id));
                    return;
                }
                container.getAttributeModel().getEdgeTable().addColumn(id, title, attributeType, AttributeOrigin.DATA, defaultValue);
                report.log(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_log_edgeattribute", title, attributeType.getTypeString()));
            }
        } else {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGEXF.class, "importerGEXF_error_attributeempty", title), Issue.Level.SEVERE));
        }
    }
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        }
    }

    private void parseEdge(String[] tokens, int cptLine) {
        if (tokens.length != 4) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterGDF.class, "importerTPL_error_dataformat1", cptLine), Issue.Level.WARNING));
        }
        EdgeDraft edge = container.factory().newEdgeDraft();
        String id = tokens[1];
        NodeDraft source = container.getNode(tokens[2]);
        NodeDraft target = container.getNode(tokens[3]);
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                lines.add(line);
            }
        }

        if (lines.isEmpty() || (!lines.get(0).startsWith("DL") && !lines.get(0).startsWith("dl"))) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_firstline"), Issue.Level.CRITICAL));
        }

        headerMap = new HashMap<String, String>();
        readHeaderLine(lines.get(0).substring(2));

        int i = 1;
        for (; i < lines.size(); i++) {
            String line = lines.get(i).toLowerCase();
            if (line.trim().endsWith("data:") || line.trim().endsWith("labels:")) {
                break;
            } else {
                readHeaderLine(line);
            }
        }

        computeHeaders();

        if (lines.get(i).toLowerCase().trim().endsWith("labels:") && lines.size() > i + 1) {
            readLabels(lines.get(++i));
        }

        int dataLineStart = -1;
        for (; i < lines.size(); i++) {
            String line = lines.get(i).toLowerCase();
            if (line.trim().endsWith("data:")) {
                dataLineStart = i + 1;
                break;
            }
        }
        if (dataLineStart == -1) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_nodata"), Issue.Level.SEVERE));
        } else if (lines.size() > dataLineStart) {
            dataLineStartDelta = dataLineStart + 1;
            lines = lines.subList(dataLineStart, lines.size());

            if (format.equals(Format.FULLMATRIX)) {
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    private void computeHeaders() {
        //read format
        String form = (String) headerMap.get("format");
        if (form == null) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_formatmissing"), Issue.Level.INFO));
        } else if (!form.equals("edgelist1") && !form.equals("fullmatrix")) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_badformat", form), Issue.Level.SEVERE));
        } else if (form.equals("edgelist1")) {
            format = Format.EDGELIST1;
        } else if (form.equals("fullmatrix")) {
            format = Format.FULLMATRIX;
        }

        // read number of nodes
        try {
            String nArg = (String) headerMap.get("n");
            numNodes = Integer.parseInt(nArg);
        } catch (Exception e) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_nmissing"), Issue.Level.SEVERE));
        }

        // read number matricies
        String mats = (String) headerMap.get("nm");
        if (mats != null) {
            try {
                numMatricies = Integer.parseInt(mats);
            } catch (Exception e) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_mmissing"), Issue.Level.SEVERE));
            }
        } else {
            numMatricies = 1;
        }
    }
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    private void readLabels(String labels) {
        StringTokenizer labelkonizer = new StringTokenizer(labels, ",");
        // check that there are the right number of labels
        if (labelkonizer.countTokens() != numNodes) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_labelscount", labelkonizer.countTokens(), numNodes), Issue.Level.SEVERE));
        }
        int nodeCount = 0;
        while (labelkonizer.hasMoreTokens()) {
            String label = labelkonizer.nextToken();
            nodeCount++;
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            for (; i < data.size() && !data.get(i).trim().equals("!"); i++) {
                if (rowNum <= numNodes) {
                    readMatrixRow(data.get(i), i, rowNum, startTime, startTime + 1);
                    rowNum++;
                } else {
                    report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_matrixrowscount", rowNum, numNodes), Issue.Level.SEVERE));
                    break;
                }
            }
            if (rowNum < numNodes) {
                report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_matrixrowscount2", rowNum, numNodes), Issue.Level.SEVERE));
            }
            startTime++;
        }
        if (startTime != numMatricies) {
            report.logIssue(new Issue(NbBundle.getMessage(ImporterDL.class, "importerDL_error_matriciescount", startTime, numMatricies), Issue.Level.SEVERE));
        }
    }
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Related Classes of org.gephi.io.importer.api.Issue

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  • org.gephi.desktop.importer.ReportPanel$IssueRowModel
  • org.gephi.io.importer.impl.ImportContainerImpl
  • org.gephi.io.importer.plugin.database.ImporterEdgeList
  • org.gephi.io.importer.plugin.file.ImporterDL
  • org.gephi.io.importer.plugin.file.ImporterDOT
  • org.gephi.io.importer.plugin.file.ImporterGDF
  • org.gephi.io.importer.plugin.file.ImporterGEXF
  • org.gephi.io.importer.plugin.file.ImporterGML
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