Sign upLogin

SiLeBAT/FSK-Lab

View on GitHub
Star

Showing 14,752 of 14,752 total issues

File MergeDBsAPriori.java has 381 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 org.hsh.bfr.db/src/org/hsh/bfr/db/MergeDBsAPriori.java - About 5 hrs to fix

File soy.js has 380 lines of code (exceeds 250 allowed). Consider refactoring.
Open

// CodeMirror, copyright (c) by Marijn Haverbeke and others
// Distributed under an MIT license: https://codemirror.net/LICENSE

(function(mod) {
  if (typeof exports == "object" && typeof module == "object") // CommonJS
Severity: Minor
Found in de.bund.bfr.knime.js/js-lib/codemirror-5.49.2/mode/soy/soy.js - About 5 hrs to fix

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

  function Plugin(option) {
    return this.each(function () {
      var $this   = $(this)
      var data    = $this.data('bs.popover')
      var options = typeof option == 'object' && option
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/js-src/bootstrap/3_3_7/debug/js/bootstrap.js and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.fsklab.deprecatednodes/js-src/bootstrap/3_3_7/debug/js/bootstrap.js on lines 1750..1760

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 137.

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

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

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

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

Refactorings

Further Reading

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

  function Plugin(option) {
    return this.each(function () {
      var $this   = $(this)
      var data    = $this.data('bs.tooltip')
      var options = typeof option == 'object' && option
Severity: Major
Found in de.bund.bfr.knime.fsklab.deprecatednodes/js-src/bootstrap/3_3_7/debug/js/bootstrap.js and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.fsklab.deprecatednodes/js-src/bootstrap/3_3_7/debug/js/bootstrap.js on lines 1859..1869

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 137.

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

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

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

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

Refactorings

Further Reading

File SettingsHelper.java has 379 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*******************************************************************************
 * Copyright (c) 2015 Federal Institute for Risk Assessment (BfR), Germany
 *
 * This program is free software: you can redistribute it and/or modify
 * it under the terms of the GNU General Public License as published by
Severity: Minor
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/modelselectiontertiary/SettingsHelper.java - About 5 hrs to fix

Method retrieveParameter has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    public Parameter retrieveParameter(Row row) {

        // Check first mandatory properties
        if (row.getCell(L).getCellType() == Cell.CELL_TYPE_BLANK) {
            throw new IllegalArgumentException("Missing parameter id");
Severity: Minor
Found in de.bund.bfr.knime.fsklab.metadata.model/src/metadata/SwaggerGenericSheetImporter.java - About 5 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 eIsSet has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    @Override
    public boolean eIsSet(int featureID) {
        switch (featureID) {
            case MetadataPackage.STUDY__STUDY_IDENTIFIER:
                return STUDY_IDENTIFIER_EDEFAULT == null ? studyIdentifier != null : !STUDY_IDENTIFIER_EDEFAULT.equals(studyIdentifier);
Severity: Minor
Found in de.bund.bfr.knime.fsklab.metadata.model/gen/metadata/impl/StudyImpl.java - About 5 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 getDblVal has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    private void getDblVal(MyDBTable myDBTable, int row, int col, HSSFRow row0, HSSFRow rowi) {
        Object key = myDBTable.getValueAt(row, col);
        if (key != null) {
            try {
            ResultSet rs = DBKernel.getResultSet("SELECT * FROM " + DBKernel.delimitL("DoubleKennzahlen") +
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/exports/ExcelExport.java - About 5 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 manageString has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    private String manageString(PreparedStatement ps, PreparedStatement psUpdate, int lfdCol, HSSFCell cell, LinkedHashMap<Object, String> hashBL) throws SQLException {
        String result = null;
        if (cell == null || cell.getCellType() == HSSFCell.CELL_TYPE_BLANK) {
            if (ps != null) ps.setNull(lfdCol, java.sql.Types.VARCHAR);
            if (psUpdate != null) psUpdate.setNull(lfdCol, java.sql.Types.VARCHAR);
Severity: Minor
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/imports/GeneralXLSImporter.java - About 5 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 saveFSKPortObject has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    public void saveFSKPortObject(FskPortObject portObject, final PortObjectZipOutputStream out,
        final ExecutionMonitor exec) throws IOException {

      // First FSK Object
      // model entry (file with model script)
Severity: Minor
Found in de.bund.bfr.knime.fsklab.deprecatednodes/src-1_9_0/de/bund/bfr/knime/fsklab/v1_9/CombinedFskPortObject.java - About 5 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 loadJsonSetting has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

  protected void loadJsonSetting() throws IOException, CanceledExecutionException {

    File directory =
        NodeContext.getContext().getWorkflowManager().getContext().getCurrentLocation();
    File settingFolder = new File(buildContainerName());
Severity: Minor
Found in de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/joiner/JoinerNodeModel.java - About 5 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 saveFSKPortObject has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    public void saveFSKPortObject(FskPortObject portObject, final PortObjectZipOutputStream out,
        final ExecutionMonitor exec) throws IOException {

      // First FSK Object
      // model entry (file with model script)
Severity: Minor
Found in de.bund.bfr.knime.fsklab.nodes/src/de/bund/bfr/knime/fsklab/v2_0/CombinedFskPortObject.java - About 5 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 loadFrom has a Cognitive Complexity of 34 (exceeds 5 allowed). Consider refactoring.
Open

    void loadFrom(final InputStream is)
            throws IOException, XmlException {
        // use NonClosableInputStream to prevent multiple calling of close.
        // We do it in the next line.
        XmlObject xmlDoc = PCMLDocument.Factory.parse(
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/src/de/bund/bfr/knime/pcml/port/PCMLPortObject.java - About 5 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 openNewWindow has 127 lines of code (exceeds 25 allowed). Consider refactoring.
Open

    public Object openNewWindow(final MyTable theNewTable, final Object value, final Object headerValue, final MyDBTable dbTable, final Integer row, final Integer col, final Object[][] conditions, boolean fromMMC, Filter mf, Component parent,
            String level1Expansion) {
        Object result = null;
        String titel = (headerValue == null) ? theNewTable.getTablename() : (DBKernel.getLanguage().equals("en") ? "Choose " + GuiMessages.getString((String) headerValue) + "..." : headerValue + " auswählen...");
        //JDialog.setDefaultLookAndFeelDecorated(true);
Severity: Major
Found in org.hsh.bfr.db/src/org/hsh/bfr/db/gui/MainFrame.java - About 5 hrs to fix

Function initResourcesTab has 127 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  function initResourcesTab(){
    if (window.location.protocol != '' && window.location.host != '') {
        // send AJAX request to acquire the JWT for the currently logged in
        // user. Subsequent requests need to carry the token in the
        // “Authorization” header
Severity: Major
Found in de.bund.bfr.knime.fsklab.nodes/js-src/de/bund/bfr/knime/fsklab/v2.0/editor/editor.js - About 5 hrs to fix

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

        if (SchemaFactory.conformsM12DataSchema(spec)) {
            schema = SchemaFactory.createM12DataSchema();
            tuples = PmmUtilities.getTuples(inData[0], schema);
            if (WriterUtils.hasData(tuples)) {
                boolean identical = identicalEstModels(tuples);
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/PMFWriterNodeModel.java and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/fsk/NodeModel.java on lines 107..155

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 314.

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 (SchemaFactory.conformsM12DataSchema(spec)) {
            schema = SchemaFactory.createM12DataSchema();
            tuples = PmmUtilities.getTuples(inData[0], schema);

            if (WriterUtils.hasData(tuples)) {
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/fsk/NodeModel.java and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.pmm.nodes/src/de/bund/bfr/knime/pmm/pmfwriter/PMFWriterNodeModel.java on lines 84..131

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 314.

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

  Select2.prototype.enable = function (args) {
    if (this.options.get('debug') && window.console && console.warn) {
      console.warn(
        'Select2: The `select2("enable")` method has been deprecated and will' +
        ' be removed in later Select2 versions. Use $element.prop("disabled")' +
Severity: Major
Found in de.bund.bfr.knime.pmm.nodes/js-lib/select2/4_0_3/debug/js/select2.js and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.js/src/js/lib/select2.full.js on lines 5952..5968

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 136.

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

  Select2.prototype.enable = function (args) {
    if (this.options.get('debug') && window.console && console.warn) {
      console.warn(
        'Select2: The `select2("enable")` method has been deprecated and will' +
        ' be removed in later Select2 versions. Use $element.prop("disabled")' +
Severity: Major
Found in de.bund.bfr.knime.js/src/js/lib/select2.full.js and 1 other location - About 5 hrs to fix
de.bund.bfr.knime.pmm.nodes/js-lib/select2/4_0_3/debug/js/select2.js on lines 5538..5554

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 136.

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

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

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

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

Refactorings

Further Reading

File ProcessNodeDocumentImpl.java has 377 lines of code (exceeds 250 allowed). Consider refactoring.
Open

/*
 * An XML document type.
 * Localname: ProcessNode
 * Namespace: http://www.bfr.bund.de/PCML-1_0
 * Java type: de.bund.bfr.pcml10.ProcessNodeDocument
Severity: Minor
Found in de.bund.bfr.knime.foodprocess.pcml/lib/src/de/bund/bfr/pcml10/impl/ProcessNodeDocumentImpl.java - About 5 hrs to fix
Severity
Category
Status
Source
Language