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Identical blocks of code found in 2 locations. Consider refactoring.
Open

    if (jsonNode.has("modelType")) {
      String modelType = jsonNode.get("modelType").asText();
      Class<? extends Model> modelClass = FskPortObject.Serializer.modelClasses.get(modelType);
      model = mapper.treeToValue(jsonNode, modelClass);
    } else if (jsonNode.has("version")) {
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/reader/ReaderNodeModel.java and 1 other location - About 4 hrs to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/reader/ReaderNodeUtil.java on lines 773..801

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 256.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

    if (jsonNode.has("modelType")) {
      String modelType = jsonNode.get("modelType").asText();
      Class<? extends Model> modelClass = FskPortObject.Serializer.modelClasses.get(modelType);
      model = mapper.treeToValue(jsonNode, modelClass);
    } else if (jsonNode.has("version")) {
Severity: Major
Found in de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/reader/ReaderNodeUtil.java and 1 other location - About 4 hrs to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/reader/ReaderNodeModel.java on lines 604..632

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 256.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

  function tokenString(quote) {
    return function(stream, state) {
      var escaped = false, next, end = false;
      while ((next = stream.next()) != null) {
        if (next == quote && !escaped) {
Severity: Major
Found in de.bund.bfr.knime.js/js-lib/codemirror-5.49.2/mode/fortran/fortran.js and 1 other location - About 4 hrs to fix
de.bund.bfr.knime.js/js-lib/codemirror-5.49.2/mode/pascal/pascal.js on lines 77..87

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 117.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

  function tokenString(quote) {
    return function(stream, state) {
      var escaped = false, next, end = false;
      while ((next = stream.next()) != null) {
        if (next == quote && !escaped) {end = true; break;}
Severity: Major
Found in de.bund.bfr.knime.js/js-lib/codemirror-5.49.2/mode/pascal/pascal.js and 1 other location - About 4 hrs to fix
de.bund.bfr.knime.js/js-lib/codemirror-5.49.2/mode/fortran/fortran.js on lines 155..168

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 117.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

File SettingsHelper.java has 337 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*******************************************************************************
 * Copyright (c) 2015 Federal Institute for Risk Assessment (BfR), Germany
 *
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/dataviewandselect/SettingsHelper.java - About 4 hrs to fix

File ModelReaderUi.java has 337 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*******************************************************************************
 * Copyright (c) 2015 Federal Institute for Risk Assessment (BfR), Germany
 *
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/ui/ModelReaderUi.java - About 4 hrs to fix

File MatrixDocumentImpl.java has 337 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*
 * An XML document type.
 * Localname: Matrix
 * Namespace: http://www.bfr.bund.de/PCML-1_0
 * Java type: de.bund.bfr.pcml10.MatrixDocument
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/lib/src/de/bund/bfr/pcml10/impl/MatrixDocumentImpl.java - About 4 hrs to fix

File AgentDocumentImpl.java has 337 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*
 * An XML document type.
 * Localname: Agent
 * Namespace: http://www.bfr.bund.de/PCML-1_0
 * Java type: de.bund.bfr.pcml10.AgentDocument
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/lib/src/de/bund/bfr/pcml10/impl/AgentDocumentImpl.java - About 4 hrs to fix

Method loadSettings has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    public void loadSettings(NodeSettingsRO settings) {
        try {
            selectedID = settings.getString(CFG_SELECTEDID);
        } catch (InvalidSettingsException e) {
        }
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/secondarypredictorview/SettingsHelper.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method configure has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    @Override
    protected DataTableSpec[] configure(final DataTableSpec[] inSpecs)
            throws InvalidSettingsException {
        KnimeSchema outSchema = null;
        boolean conformsPrimary = SchemaFactory.conformsM1Schema(inSpecs[0])
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelanddatajoiner/ModelAndDataJoinerNodeModel.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method actionPerformed has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    @Override
    public void actionPerformed(ActionEvent e) {
        if (e.getSource() == fittingBox) {
            initGUI();
        } else if (e.getSource() == expertBox) {
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelestimation/ModelEstimationNodeDialog.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method keyPressed has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    @Override
    public void keyPressed(final KeyEvent keyEvent) {
      //System.out.println(keyEvent.getKeyCode() + "\t" + keyEvent.getKeyChar() + "\t" + KeyEvent.VK_F + "\t" + keyEvent.isControlDown());
    if (keyEvent.isControlDown() && keyEvent.getKeyCode() == KeyEvent.VK_LEFT) { //Ctrl+<-, Aussredem geht auch F8
        keyEvent.consume();
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/dbtable/MyDBTable.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method readDB has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    private void readDB(final LinkedHashMap<String, DefaultMutableTreeNode> myCodes, final int codeSystemNum, final DefaultMutableTreeNode root, final String sql, final String tablename_codeSystem, int[] cutSystem) {
        myIDs[codeSystemNum].clear(); myCodes.clear();
        try {
              ResultSet rs = DBKernel.getResultSet(sql, false);
              if (rs.first()) {
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/dbtree/MyDBTreeModel.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method setTable has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

      @SuppressWarnings("unchecked")
    private void setTable(final MyTable myT) {
        if (myT != null) {
            root = new DefaultMutableTreeNode(new MyDBTreeNode(0, "", "Codes", false, -1));            
        // Erst die Codetypen
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/dbtree/MyDBTreeModel.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method insertEstModel has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    private int insertEstModel(String name, final int condId, final int modelId, final Double rms, final Double rsquared, final Double aic, final Double bic, final int responseId,
            Integer qualityScore, Boolean isChecked, Integer workflowID, String comment) {
        int ret = -1;
        try {
            PreparedStatement ps = conn.prepareStatement(
Severity: Minor
Found in de.bund.bfr.knime.pmm.bfrdbiface.lib/src/de/bund/bfr/knime/pmm/bfrdbiface/lib/Bfrdb.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method getMetaData has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

  public FskMetaData getMetaData() {
    FskMetaData template = new FskMetaData();

    Model model = doc.getModel();
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_0_2/de/bund/bfr/knime/fsklab/nodes/MetadataDocument.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method plotBoth has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    private void plotBoth(XYPlot plot, Plotable plotable, String id,
            Color defaultColor, Shape defaultShape, double minX, double maxX)
            throws ConvertException {
        double[][] modelPoints = plotable.getFunctionPoints(paramX, paramY,
                unitX, unitY, transformX, transformY, minX, maxX,
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/chart/ChartCreator.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method plotFunctionSample has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

    private void plotFunctionSample(XYPlot plot, Plotable plotable, String id,
            Color defaultColor, Shape defaultShape, double minX, double maxX,
            List<String> warnings) throws ConvertException {
        double[][] functionPoints = plotable.getFunctionPoints(paramX, paramY,
                unitX, unitY, transformX, transformY, minX, maxX,
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/chart/ChartCreator.java - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Function edit has a Cognitive Complexity of 28 (exceeds 5 allowed). Consider refactoring.
Open

        edit(index, originalData, dialog) {
            let O = this;
            let keys = [];
            $.each(O.panelTable.opts.cols,function(index,key){
                keys.push(key.field);
Severity: Minor
Found in de.bund.bfr.knime.js/src/js/app/app.editable.mt.TablePanel.js - About 4 hrs to fix

Cognitive Complexity

Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

A method's cognitive complexity is based on a few simple rules:

  • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
  • Code is considered more complex for each "break in the linear flow of the code"
  • Code is considered more complex when "flow breaking structures are nested"

Further reading

Method initComponents has 102 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    private void initComponents() {
        // JFormDesigner - Component initialization - DO NOT MODIFY  //GEN-BEGIN:initComponents
        ResourceBundle bundle = ResourceBundle.getBundle("org.hsh.bfr.db.gui.PanelProps_" + DBKernel.getLanguage());
        toolBar1 = new JToolBar();
        button7 = new JButton();
Severity: Major
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/MainFrame.java - About 4 hrs to fix
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