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Method createTable has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    public void createTable() {
        String fieldDefs = DBKernel.delimitL("ID") + " INTEGER GENERATED BY DEFAULT AS IDENTITY (START WITH 1) PRIMARY KEY";
        if (tableName.equals("ChangeLog")) {
            fieldDefs = DBKernel.delimitL("ID") + " INTEGER GENERATED BY DEFAULT AS SEQUENCE " + DBKernel.delimitL("ChangeLogSEQ") + " PRIMARY KEY";
        }
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/MyTable.java - About 3 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 updateEstModel has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    private void updateEstModel(final int estModelId, 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) {
        try {
            PreparedStatement ps = conn.prepareStatement("UPDATE \"GeschaetzteModelle\" SET \"Name\"=?, \"Versuchsbedingung\"=?, \"Modell\"=?, \"RMS\"=?, \"Rsquared\"=?, \"AIC\"=?, \"BIC\"=?, \"Response\"=?, \"Guetescore\"=?, \"Geprueft\"=?, \"Kommentar\"=?, \"PMMLabWF\"=? WHERE \"ID\"=?");
            if (name == null) {
Severity: Minor
Found in de.bund.bfr.knime.pmm.bfrdbiface.lib/src/de/bund/bfr/knime/pmm/bfrdbiface/lib/Bfrdb.java - About 3 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 applyJoinRelation has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

  public void applyJoinRelation(FskPortObject fskObj, List<JoinRelationAdvanced> joinRelationList,
      String suffix) throws Exception {

    // figure out which parameters from JoinRelations belong to which model to avoid loading
    // a json file twice
Severity: Minor
Found in de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/nodes/JsonHandler.java - About 3 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 revertFormula has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    public String revertFormula() {
        String result = formula;
        if (depXml != null && !depXml.name.equals(depXml.origName)) {
            result = MathUtilities.replaceVariable(result, depXml.name, depXml.origName);
        }
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/ParametricModel.java - About 3 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 24 (exceeds 5 allowed). Consider refactoring.
Open

        @Override
        public void actionPerformed(ActionEvent e) {
            if (e.getSource() == okButton) {
                approved = true;
                selection = new ArrayList<>();
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/chart/ChartSelectionPanel.java - About 3 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 setValue has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    private void setValue(final int i, final Object obj) throws PmmException {
        if (obj == null)
            cell[i] = CellIO.createMissingCell();
        else
            switch (schema.getType(i)) {
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/generictablemodel/KnimeTuple.java - About 3 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 checkUnits has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    private static void checkUnits(Object[] toksT, Object[] toksLu) {
        try {
            if (toksLu != null && toksLu.length > 0) {
                String unit = toksLu[0].toString();
                int i=1;
Severity: Minor
Found in de.bund.bfr.knime.pmm.common/src/de/bund/bfr/knime/pmm/common/DbIo.java - About 3 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 _getModelHandler has a Cognitive Complexity of 24 (exceeds 5 allowed). Consider refactoring.
Open

    async _getModelHandler ( modelMetadata, modelId ) {
        let O = this;
        _log( 'MODAL DETAILS / _getModelHandler' );

        let modelHandler = null;
Severity: Minor
Found in de.bund.bfr.knime.js/src/js/app/app.mt.details.js - About 3 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

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

    private HashMap<String, HashMap<String, HashMap<Integer, Integer>>> checkIDs(Connection conn, boolean before, String dbuuid, KnimeTuple row, ParametricModel pm,
            HashMap<String, HashMap<String, HashMap<Integer, Integer>>> foreignDbIds, String[] schemaAttr, String[] dbTablename, String rowuuid, boolean checkAnywayDueToNegativeId)
            throws PmmException {
        if (checkAnywayDueToNegativeId || rowuuid == null || !rowuuid.equals(dbuuid)) {
            if (!foreignDbIds.containsKey(rowuuid)) foreignDbIds.put(rowuuid, new HashMap<String, HashMap<Integer, Integer>>());
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelwriter/EstimatedModelWriterNodeModel.java and 1 other location - About 3 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelcatalogwriter/ModelCatalogWriterNodeModel.java on lines 218..235

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 215.

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

    private HashMap<String, HashMap<String, HashMap<Integer, Integer>>> checkIDs(Connection conn, boolean before, String dbuuid, KnimeTuple row, ParametricModel pm,
            HashMap<String, HashMap<String, HashMap<Integer, Integer>>> foreignDbIds, String[] schemaAttr, String[] dbTablename, String rowuuid, boolean checkAnywayDueToNegativeId)
            throws PmmException {
        if (checkAnywayDueToNegativeId || rowuuid == null || !rowuuid.equals(dbuuid)) {
            if (!foreignDbIds.containsKey(rowuuid)) foreignDbIds.put(rowuuid, new HashMap<String, HashMap<Integer, Integer>>());
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelcatalogwriter/ModelCatalogWriterNodeModel.java and 1 other location - About 3 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelwriter/EstimatedModelWriterNodeModel.java on lines 516..533

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 215.

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

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public OtherModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

        OtherModelGeneralInformation information = new OtherModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(J);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerOtherModelSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public GenericModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

        GenericModelGeneralInformation information = new GenericModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(I);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/RAKIPSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {
        
        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(J);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerHealthModelSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {
        
        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(J);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerConsumptionSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

        public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

            PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

            Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(I);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerProcessModelSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {
        
        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(J);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerToxicologicalSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

     public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(J);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerPredictiveModelSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(I);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerExposureSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public PredictiveModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {
        

        PredictiveModelGeneralInformation information = new PredictiveModelGeneralInformation();
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerRiskModelSheetImporter.java - About 3 hrs to fix

Method retrieveGeneralInformation has 85 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public DoseResponseModelGeneralInformation retrieveGeneralInformation(Sheet sheet) {

        DoseResponseModelGeneralInformation information = new DoseResponseModelGeneralInformation();

        Cell nameCell = sheet.getRow(GENERAL_INFORMATION__NAME).getCell(I);
Severity: Major
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerDoseResponseSheetImporter.java - About 3 hrs to fix
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