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de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java

Summary

Maintainability
F
1 wk
Test Coverage

File WriterNodeModel.java has 562 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*
 ***************************************************************************************************
 * Copyright (c) 2017 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
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 day to fix

Method createSBML has 68 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  private static SBMLDocument createSBML(FskPortObject fskObj, CombineArchive archive,
      String ModelId, Map<String, URI> URIS, String filePrefix) throws IOException {
    filePrefix = filePrefix + normalizeName(fskObj) + System.getProperty("file.separator");
    SBMLDocument doc = new SBMLDocument(3, 1);
    doc.addDeclaredNamespace("xmlns:fsk",
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 2 hrs to fix

WriterNodeModel has 23 methods (exceeds 20 allowed). Consider refactoring.
Open

class WriterNodeModel extends NoInternalsModel {

  private static final PortType[] IN_TYPES = {FskPortObject.TYPE};
  private static final PortType[] OUT_TYPES = {};
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 2 hrs to fix

Method writeArchive has 61 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  private static void writeArchive(File archiveFile, FskPortObject portObject,
      ExecutionContext exec) throws Exception {

    Map<String, URI> URIS = FSKML.getURIS(1, 0, 12);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 2 hrs to fix

Method createSBML has a Cognitive Complexity of 17 (exceeds 5 allowed). Consider refactoring.
Open

  private static SBMLDocument createSBML(FskPortObject fskObj, CombineArchive archive,
      String ModelId, Map<String, URI> URIS, String filePrefix) throws IOException {
    filePrefix = filePrefix + normalizeName(fskObj) + System.getProperty("file.separator");
    SBMLDocument doc = new SBMLDocument(3, 1);
    doc.addDeclaredNamespace("xmlns:fsk",
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 2 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 writeArchive has a Cognitive Complexity of 15 (exceeds 5 allowed). Consider refactoring.
Open

  private static void writeArchive(File archiveFile, FskPortObject portObject,
      ExecutionContext exec) throws Exception {

    Map<String, URI> URIS = FSKML.getURIS(1, 0, 12);
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 hr 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 writeFSKObject has 47 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  public static void writeFSKObject(FskPortObject fskObj, CombineArchive archive, String filePrefix,
      Map<String, URI> URIS) throws Exception {

    addVersion(archive);
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 hr to fix

Method createSedml has 46 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  private static SEDMLDocument createSedml(FskPortObject portObj) {

    SEDMLDocument doc = Libsedml.createDocument();
    SedML sedml = doc.getSedMLModel();
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 hr to fix

Method writeFSKObject has a Cognitive Complexity of 12 (exceeds 5 allowed). Consider refactoring.
Open

  public static void writeFSKObject(FskPortObject fskObj, CombineArchive archive, String filePrefix,
      Map<String, URI> URIS) throws Exception {

    addVersion(archive);
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 hr 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 addResourcesToArchive has a Cognitive Complexity of 11 (exceeds 5 allowed). Consider refactoring.
Open

  private static void addResourcesToArchive(List<Path> resources, CombineArchive archive,
      String filePrefix, Map<String, URI> uris) throws Exception {
    for (final Path resourcePath : resources) {

      final String filenameString = filePrefix + resourcePath.getFileName().toString();
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 1 hr 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 createExtSubModel has 6 arguments (exceeds 4 allowed). Consider refactoring.
Open

  public static ExternalModelDefinition createExtSubModel(SBMLDocument doc, String externalFileName,
      String filePrefix, CompSBMLDocumentPlugin compDoc, CompModelPlugin compMainModel,
      String subModelName) throws IOException, SBMLException, XMLStreamException {
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 45 mins to fix

Method createSBML has 5 arguments (exceeds 4 allowed). Consider refactoring.
Open

  private static SBMLDocument createSBML(FskPortObject fskObj, CombineArchive archive,
      String ModelId, Map<String, URI> URIS, String filePrefix) throws IOException {
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 35 mins to fix

Method createExtSubModel has 5 arguments (exceeds 4 allowed). Consider refactoring.
Open

  public static ExternalModelDefinition createExtSubModel(SBMLDocument doc, String externalFileName,
      CompSBMLDocumentPlugin compDoc, CompModelPlugin compMainModel, String subModelName)
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 35 mins to fix

Method writeCombinedObject has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
Open

  private static void writeCombinedObject(CombinedFskPortObject fskObj, CombineArchive archive,
      Map<String, URI> URIS, String filePrefix) throws Exception {
    filePrefix = filePrefix + normalizeName(fskObj) + System.getProperty("file.separator");
    FskPortObject ffskObj = fskObj.getFirstFskPortObject();
    if (ffskObj instanceof CombinedFskPortObject) {
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java - About 35 mins 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

Add a nested comment explaining why this method is empty, throw an UnsupportedOperationException or complete the implementation.
Open

  protected void reset() {}
Severity: Critical
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java by sonar-java

There are several reasons for a method not to have a method body:

  • It is an unintentional omission, and should be fixed to prevent an unexpected behavior in production.
  • It is not yet, or never will be, supported. In this case an UnsupportedOperationException should be thrown.
  • The method is an intentionally-blank override. In this case a nested comment should explain the reason for the blank override.

Noncompliant Code Example

public void doSomething() {
}

public void doSomethingElse() {
}

Compliant Solution

@Override
public void doSomething() {
  // Do nothing because of X and Y.
}

@Override
public void doSomethingElse() {
  throw new UnsupportedOperationException();
}

Exceptions

Default (no-argument) constructors are ignored when there are other constructors in the class, as are empty methods in abstract classes.

public abstract class Animal {
  void speak() {  // default implementation ignored
  }
}

Make the enclosing method "static" or remove this set.
Open

          scriptHandler = ScriptHandler.createHandler(SwaggerUtil.getLanguageWrittenIn(in.modelMetadata),
Severity: Critical
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java by sonar-java

Correctly updating a static field from a non-static method is tricky to get right and could easily lead to bugs if there are multiple class instances and/or multiple threads in play. Ideally, static fields are only updated from synchronized static methods.

This rule raises an issue each time a static field is updated from a non-static method.

Noncompliant Code Example

public class MyClass {

  private static int count = 0;

  public void doSomething() {
    //...
    count++;  // Noncompliant
  }
}

Define a constant instead of duplicating this literal "UTF-8" 4 times.
Open

    FileUtils.writeStringToFile(rPackagesFile, packageInfoList, "UTF-8");
Severity: Critical
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java by sonar-java

Duplicated string literals make the process of refactoring error-prone, since you must be sure to update all occurrences.

On the other hand, constants can be referenced from many places, but only need to be updated in a single place.

Noncompliant Code Example

With the default threshold of 3:

public void run() {
  prepare("action1");                              // Noncompliant - "action1" is duplicated 3 times
  execute("action1");
  release("action1");
}

@SuppressWarning("all")                            // Compliant - annotations are excluded
private void method1() { /* ... */ }
@SuppressWarning("all")
private void method2() { /* ... */ }

public String method3(String a) {
  System.out.println("'" + a + "'");               // Compliant - literal "'" has less than 5 characters and is excluded
  return "";                                       // Compliant - literal "" has less than 5 characters and is excluded
}

Compliant Solution

private static final String ACTION_1 = "action1";  // Compliant

public void run() {
  prepare(ACTION_1);                               // Compliant
  execute(ACTION_1);
  release(ACTION_1);
}

Exceptions

To prevent generating some false-positives, literals having less than 5 characters are excluded.

Define a constant instead of duplicating this literal "file.separator" 6 times.
Open

    filePrefix = filePrefix + normalizeName(fskObj) + System.getProperty("file.separator");
Severity: Critical
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java by sonar-java

Duplicated string literals make the process of refactoring error-prone, since you must be sure to update all occurrences.

On the other hand, constants can be referenced from many places, but only need to be updated in a single place.

Noncompliant Code Example

With the default threshold of 3:

public void run() {
  prepare("action1");                              // Noncompliant - "action1" is duplicated 3 times
  execute("action1");
  release("action1");
}

@SuppressWarning("all")                            // Compliant - annotations are excluded
private void method1() { /* ... */ }
@SuppressWarning("all")
private void method2() { /* ... */ }

public String method3(String a) {
  System.out.println("'" + a + "'");               // Compliant - literal "'" has less than 5 characters and is excluded
  return "";                                       // Compliant - literal "" has less than 5 characters and is excluded
}

Compliant Solution

private static final String ACTION_1 = "action1";  // Compliant

public void run() {
  prepare(ACTION_1);                               // Compliant
  execute(ACTION_1);
  release(ACTION_1);
}

Exceptions

To prevent generating some false-positives, literals having less than 5 characters are excluded.

Define a constant instead of duplicating this literal ".sbml" 4 times.
Open

        File temporaryFile = File.createTempFile("connections", ".sbml");
Severity: Critical
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java by sonar-java

Duplicated string literals make the process of refactoring error-prone, since you must be sure to update all occurrences.

On the other hand, constants can be referenced from many places, but only need to be updated in a single place.

Noncompliant Code Example

With the default threshold of 3:

public void run() {
  prepare("action1");                              // Noncompliant - "action1" is duplicated 3 times
  execute("action1");
  release("action1");
}

@SuppressWarning("all")                            // Compliant - annotations are excluded
private void method1() { /* ... */ }
@SuppressWarning("all")
private void method2() { /* ... */ }

public String method3(String a) {
  System.out.println("'" + a + "'");               // Compliant - literal "'" has less than 5 characters and is excluded
  return "";                                       // Compliant - literal "" has less than 5 characters and is excluded
}

Compliant Solution

private static final String ACTION_1 = "action1";  // Compliant

public void run() {
  prepare(ACTION_1);                               // Compliant
  execute(ACTION_1);
  release(ACTION_1);
}

Exceptions

To prevent generating some false-positives, literals having less than 5 characters are excluded.

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

  private static SBMLDocument createSBML(FskPortObject fskObj, CombineArchive archive,
      String ModelId, Map<String, URI> URIS, String filePrefix) throws IOException {
    filePrefix = filePrefix + normalizeName(fskObj) + System.getProperty("file.separator");
    SBMLDocument doc = new SBMLDocument(3, 1);
    doc.addDeclaredNamespace("xmlns:fsk",
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 1 day to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 592..675

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 620.

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 static SEDMLDocument createSedml(FskPortObject portObj) {

    SEDMLDocument doc = Libsedml.createDocument();
    SedML sedml = doc.getSedMLModel();
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 6 hrs to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 748..815

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 391.

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 (!missingPackages.isEmpty()) {
        String command = scriptHandler.getPackageVersionCommand(missingPackages);

        try {
          String[] execResult = scriptHandler.runScript(command, exec, true);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 2 hrs to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 495..513

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 146.

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 3 locations. Consider refactoring.
Open

  private static ArchiveEntry addMetaData(CombineArchive archive, Model model, String filename)
      throws IOException {

    JsonFactory jsonFactory = new JsonFactory();
    jsonFactory.configure(JsonGenerator.Feature.AUTO_CLOSE_TARGET, false);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 2 hrs to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 555..574
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 711..730

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 132.

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

      {
        SBMLDocument sbmlDocument = createSBML(portObject, archive, "model", URIS, "");

        // Create temporary file and write sbmlDocument into it
        File temporaryFile = File.createTempFile("connections", ".sbml");
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 1 hr to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 455..470

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 122.

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

      for (String packageName : portObject.packages) {
        String command = scriptHandler.getPackageVersionCommand(packageName);

        try {
          String packageVersion = scriptHandler.runScript(command, exec, true)[0];
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 1 hr to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 477..492

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 120.

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 static void addParameterScript(CombineArchive archive, FskSimulation simulation,
      String filePrefix) throws IOException {

    String script = scriptHandler.buildParameterScript(simulation);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 1 hr to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 699..711

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 110.

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 3 locations. Consider refactoring.
Open

  private static void addVersion(CombineArchive archive) {

    DefaultJDOMFactory factory = new DefaultJDOMFactory();
    Namespace dcTermsNamespace = Namespace.getNamespace("dcterms", "http://purl.org/dc/terms/");
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 1 hr to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 661..674
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 817..830

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 86.

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 3 locations. Consider refactoring.
Open

  private static void addReadme(CombineArchive archive, String readme, String filePrefix)
      throws IOException {

    File readmeFile = File.createTempFile("README", ".txt");
    FileUtils.writeStringToFile(readmeFile, readme, "UTF-8");
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 1 hr to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 713..726
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 871..884

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 84.

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 3 locations. Consider refactoring.
Open

  public static String writeSBMLFile(SBMLDocument doc, CombineArchive archive, String filePrefix,
      Map<String, URI> URIS) throws IOException, SBMLException, XMLStreamException {
    File tempFile = FileUtil.createTempFile("sbml", "");
    String fileName = filePrefix + doc.getModel().getId() + ".sbml";
    new SBMLWriter().write(doc, tempFile);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 1 hr to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 521..528
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 677..684

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 79.

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

          } else {

              // Creates archive in temporary archive file
              File archiveFile = FileUtil.createTempFile("model", "fskx");
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 1 hr to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 292..310

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 68.

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 static ArchiveEntry addRScript(final CombineArchive archive, final String script,
      final String filename) throws IOException, URISyntaxException {

    final File file = File.createTempFile("temp", ".r");
    FileUtils.writeStringToFile(file, script, "UTF-8");
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 55 mins to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 699..709

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 67.

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 3 locations. Consider refactoring.
Open

  private static void addPackagesFile(final CombineArchive archive, final String packageInfoList,
      final String filename) throws IOException, URISyntaxException {

    File rPackagesFile = File.createTempFile("tempPackage", ".json");
    FileUtils.writeStringToFile(rPackagesFile, packageInfoList, "UTF-8");
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 50 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 422..431
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 566..575

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 62.

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 3 locations. Consider refactoring.
Open

  public static ExternalModelDefinition createExtSubModel(SBMLDocument doc, String externalFileName,
      String filePrefix, CompSBMLDocumentPlugin compDoc, CompModelPlugin compMainModel,
      String subModelName) throws IOException, SBMLException, XMLStreamException {

    ExternalModelDefinition externalModel =
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 50 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 530..541
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 686..697

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 61.

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 3 locations. Consider refactoring.
Open

  public static ExternalModelDefinition createExtSubModel(SBMLDocument doc, String externalFileName,
      CompSBMLDocumentPlugin compDoc, CompModelPlugin compMainModel, String subModelName)
      throws IOException, SBMLException, XMLStreamException {

    ExternalModelDefinition externalModel =
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 2 other locations - About 50 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 577..588
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 733..744

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 60.

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 4 locations. Consider refactoring.
Open

    {
      SEDMLDocument sedmlDoc = createSedml(fskObj);

      File tempFile = FileUtil.createTempFile("sim", "");
      sedmlDoc.writeDocument(tempFile);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 45 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 212..218
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 271..277
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 299..305

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 54.

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 4 locations. Consider refactoring.
Open

    {
      SEDMLDocument sedmlDoc = createSedml(fskObj);

      File tempFile = FileUtil.createTempFile("sim", "");
      sedmlDoc.writeDocument(tempFile);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 45 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 212..218
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 271..277
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 243..249

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 54.

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 4 locations. Consider refactoring.
Open

    if (ffskObj instanceof CombinedFskPortObject) {
      writeCombinedObject((CombinedFskPortObject) ffskObj, archive, URIS, filePrefix);
    } else {
      writeFSKObject(ffskObj, archive,
          filePrefix + normalizeName(ffskObj) + System.getProperty("file.separator"), URIS);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 40 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 253..258
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 261..266
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 284..289

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 50.

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 4 locations. Consider refactoring.
Open

    if (sfskObj instanceof CombinedFskPortObject) {
      writeCombinedObject((CombinedFskPortObject) sfskObj, archive, URIS, filePrefix);
    } else {
      writeFSKObject(sfskObj, archive,
          filePrefix + normalizeName(sfskObj) + System.getProperty("file.separator"), URIS);
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 40 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 253..258
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_7_2/de/bund/bfr/knime/fsklab/nodes/v1_7_2/writer/WriterNodeModel.java on lines 261..266
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 276..281

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 50.

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 4 locations. Consider refactoring.
Open

  private static class VersionedPackage {

    @JsonProperty("Package")
    private final String packageName;
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 40 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 460..472
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 534..546
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 552..564

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 49.

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 4 locations. Consider refactoring.
Open

  private static class PackagesInfo {

    @JsonProperty("Language")
    private final String language;
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 3 other locations - About 40 mins to fix
de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java on lines 442..454
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 534..546
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 552..564

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 49.

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

  @Override
  protected PortObjectSpec[] configure(PortObjectSpec[] inSpecs) throws InvalidSettingsException {
    String warning = CheckUtils.checkDestinationFile(filePath.getStringValue(), true);
    if (warning != null) {
        setWarningMessage(warning);
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/writer/WriterNodeModel.java and 1 other location - About 35 mins to fix
de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/writer/WriterNodeModel.java on lines 169..177

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 44.

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

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