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Showing 14,752 of 14,752 total issues

Method run has 126 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    @Override
    public void run() {
        try {
            PmmXmlDoc modelXml = tuple.getPmmXml(Model1Schema.ATT_MODELCATALOG);
            String modelID = ((CatalogModelXml) modelXml.get(0)).id + "";
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelestimation/PrimaryEstimationThread.java - About 5 hrs to fix

Function bounds has 126 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  d3.geo.bounds = function() {
    var λ0, φ0, λ1, φ1, λ_, λ__, φ__, p0, dλSum, ranges, range;
    var bound = {
      point: point,
      lineStart: lineStart,
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/js-src/de/bund/bfr/knime/pmm/js/modelplotter/d3.js - About 5 hrs to fix

Function 38 has 126 lines of code (exceeds 25 allowed). Consider refactoring.
Open

},{}],38:[function(require,module,exports){
'use strict';

var IDENTIFIER = /^[a-z_$][a-z0-9_$-]*$/i;
var customRuleCode = require('./dotjs/custom');
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/js-src/de/bund/bfr/knime/fsklab/nodes/joiner/emfbundle/ajv.min.js - About 5 hrs to fix

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

            if (mdReaderUi.getAgentID() > 0) {
                String matchingIDs = "" + mdReaderUi.getAgentID();
                ResultSet rs = DBKernel.getResultSet(db.getConnection(), "SELECT \"CodeSystem\",\"Code\" FROM " + DBKernel.delimitL("Codes_Agenzien") +
                        " WHERE \"Basis\" = " + mdReaderUi.getAgentID(), false);
                if (rs != null && rs.first()) {
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelreader/EmReaderUi.java and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelreader/EmReaderUi.java on lines 170..196

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 312.

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

            if (mdReaderUi.getMatrixID() > 0) {
                String matchingIDs = "" + mdReaderUi.getMatrixID();
                ResultSet rs = DBKernel.getResultSet(db.getConnection(), "SELECT \"CodeSystem\",\"Code\" FROM " + DBKernel.delimitL("Codes_Matrices") +
                        " WHERE \"Basis\" = " + mdReaderUi.getMatrixID(), false);
                if (rs != null && rs.first()) {
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelreader/EmReaderUi.java and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/estimatedmodelreader/EmReaderUi.java on lines 141..167

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 312.

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

StudyImpl has 38 methods (exceeds 20 allowed). Consider refactoring.
Open

public class StudyImpl extends MinimalEObjectImpl.Container implements Study {
    /**
     * The default value of the '{@link #getStudyIdentifier() <em>Study Identifier</em>}' attribute.
     * <!-- begin-user-doc -->
     * <!-- end-user-doc -->
Severity: Minor
Found in de.bund.bfr.knime.fsklab.metadata.model/gen/metadata/impl/StudyImpl.java - About 5 hrs to fix

Login has 38 methods (exceeds 20 allowed). Consider refactoring.
Open

public class Login extends JFrame {

    /**
     * 
     */
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/Login.java - About 5 hrs to fix

ChildParent has 38 methods (exceeds 20 allowed). Consider refactoring.
Open

    public interface ChildParent extends org.apache.xmlbeans.XmlObject
    {
        public static final org.apache.xmlbeans.SchemaType type = (org.apache.xmlbeans.SchemaType)
            org.apache.xmlbeans.XmlBeans.typeSystemForClassLoader(ChildParent.class.getClassLoader(), "schemaorg_apache_xmlbeans.system.s4077A4D9BB1020F5A2B1C66D5D7AA2C8").resolveHandle("childparentec38elemtype");
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/lib/src/de/bund/bfr/pcml10/ChildParentDocument.java - About 5 hrs to fix

ChildParentImpl has 38 methods (exceeds 20 allowed). Consider refactoring.
Open

    public static class ChildParentImpl extends org.apache.xmlbeans.impl.values.XmlComplexContentImpl implements de.bund.bfr.pcml10.ChildParentDocument.ChildParent
    {
        private static final long serialVersionUID = 1L;
        
        public ChildParentImpl(org.apache.xmlbeans.SchemaType sType)
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/lib/src/de/bund/bfr/pcml10/impl/ChildParentDocumentImpl.java - About 5 hrs to fix

Method loadFromNodeSettings has 124 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  public void loadFromNodeSettings(final NodeSettingsRO settings) {
    try {
      String modelName = settings.getString(MODEL_NAME, null);
      if (modelName != null) {
        template.setModelName(modelName);
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/openfsmr/FSMRTemplateSettings.java - About 4 hrs to fix

File ParametricModelTest.java has 373 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.tests/src/de/bund/bfr/knime/pmm/common/ParametricModelTest.java - About 4 hrs to fix

Similar blocks of code found in 3 locations. 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: Major
Found in de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltest/packaging/PCMLTestDataNodeDialog.java and 2 other locations - About 4 hrs to fix
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltotable/PCMLToDataTableNodeDialog.java on lines 1..105
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltoxml/PCMLToXMLNodeDialog.java on lines 1..106

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 306.

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 3 locations. 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: Major
Found in de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltoxml/PCMLToXMLNodeDialog.java and 2 other locations - About 4 hrs to fix
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltest/packaging/PCMLTestDataNodeDialog.java on lines 1..105
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltotable/PCMLToDataTableNodeDialog.java on lines 1..105

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 306.

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 3 locations. 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: Major
Found in de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltotable/PCMLToDataTableNodeDialog.java and 2 other locations - About 4 hrs to fix
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltest/packaging/PCMLTestDataNodeDialog.java on lines 1..105
de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/node/pcmltoxml/PCMLToXMLNodeDialog.java on lines 1..106

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 306.

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 loadSettings has 123 lines of code (exceeds 25 allowed). Consider refactoring.
Open

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

Method checkIfInputIsValid has a Cognitive Complexity of 33 (exceeds 5 allowed). Consider refactoring.
Open

    private void checkIfInputIsValid() {
        Map<String, JComboBox<String>> depVarBoxes = new LinkedHashMap<>();
        isValid = true;

        for (String model : comboBoxes.keySet()) {
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelanddatajoiner/SecondaryJoiner.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 execute has a Cognitive Complexity of 33 (exceeds 5 allowed). Consider refactoring.
Open

    @Override
    protected BufferedDataTable[] execute(BufferedDataTable[] inData, ExecutionContext exec) throws Exception {

        KnimeSchema schema = null;
        ModelType modelType = null;
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/fsk/NodeModel.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 copyKennzahlen has a Cognitive Complexity of 33 (exceeds 5 allowed). Consider refactoring.
Open

    private void copyKennzahlen(final MyTable myT, final Integer oldID, final Integer newID, final Integer toRow) throws Exception {
        MyTable[] foreignFields = myT.getForeignFields();
        if (foreignFields != null) {
            for (int i=0; i<foreignFields.length; i++) {
                if (foreignFields[i] != null && foreignFields[i].getTablename().equals("DoubleKennzahlen")) {
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 execute has a Cognitive Complexity of 33 (exceeds 5 allowed). Consider refactoring.
Open

    protected BufferedDataTable[] execute(final BufferedDataTable[] inData, final ExecutionContext exec)
            throws Exception {
        KnimeSchema schema = null;
        ModelType modelType = null;
        List<KnimeTuple> tuples;
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/PMFWriterNodeModel.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 getParameter has a Cognitive Complexity of 33 (exceeds 5 allowed). Consider refactoring.
Open

  public DataArray getParameter() {
    try {
      if (isOutputClosed) {
        // open Json file stream if it isn't already open
        if (isInputClosed) {
Severity: Minor
Found in de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/nodes/ParameterJson.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

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