Examples with DataColumnSpecCreator org.knime.core.data.DataColumnSpecCreator used on opensource projects

Example 6 with DataColumnSpecCreator

use of org.knime.core.data.DataColumnSpecCreator in project knime-core by knime.

the class RuleEngineNodeModel method createRearranger.

private ColumnRearranger createRearranger(final DataTableSpec inSpec, final List<Rule> rules, final long rowCount, final boolean updateColSpec) throws InvalidSettingsException {
    if (m_settings.isAppendColumn() && m_settings.getNewColName().isEmpty()) {
        throw new InvalidSettingsException("No name for prediction column provided");
    }
    ColumnRearranger crea = new ColumnRearranger(inSpec);
    String newColName = m_settings.isAppendColumn() ? DataTableSpec.getUniqueColumnName(inSpec, m_settings.getNewColName()) : m_settings.getReplaceColumn();
    final DataType outType = computeOutputType(rules, RuleNodeSettings.RuleEngine, m_settings.isDisallowLongOutputForCompatibility());
    DataColumnSpecCreator colSpecCreator = new DataColumnSpecCreator(newColName, outType);
    if (updateColSpec) {
        // only update in configure, execute will compute properly
        updateColSpec(rules, outType, colSpecCreator, this);
    }
    DataColumnSpec cs = colSpecCreator.createSpec();
    final boolean disallowLongOutputForCompatibility = m_settings.isDisallowLongOutputForCompatibility();
    VariableProvider.SingleCellFactoryProto cellFactory = new VariableProvider.SingleCellFactoryProto(cs) {

        private long m_rowIndex = -1L;

        @Override
        public DataCell getCell(final DataRow row) {
            m_rowIndex++;
            return getRulesOutcome(outType, row, rules, disallowLongOutputForCompatibility, this);
        }

        @Override
        public Object readVariable(final String name, final Class<?> type) {
            return RuleEngineNodeModel.this.readVariable(name, type);
        }

        @Deprecated
        @Override
        public int getRowIndex() {
            return (int) m_rowIndex;
        }

        @Override
        public long getRowIndexLong() {
            return m_rowIndex;
        }

        @Deprecated
        @Override
        public int getRowCount() {
            return (int) rowCount;
        }

        @Override
        public long getRowCountLong() {
            return rowCount;
        }
    };
    if (m_settings.isAppendColumn()) {
        crea.append(cellFactory);
    } else {
        crea.replace(cellFactory, m_settings.getReplaceColumn());
    }
    return crea;
}

Example 7 with DataColumnSpecCreator

use of org.knime.core.data.DataColumnSpecCreator in project knime-core by knime.

the class PMMLRuleEditorNodeModel method createRearranger.

/**
 * Creates the {@link ColumnRearranger} that can compute the new column.
 *
 * @param tableSpec The spec of the input table.
 * @param ruleSet The {@link RuleSet} xml object where the rules should be added.
 * @param parser The parser for the rules.
 * @return The {@link ColumnRearranger}.
 * @throws ParseException Problem during parsing.
 * @throws InvalidSettingsException if settings are invalid
 */
private ColumnRearranger createRearranger(final DataTableSpec tableSpec, final RuleSet ruleSet, final PMMLRuleParser parser) throws ParseException, InvalidSettingsException {
    if (m_settings.isAppendColumn() && m_settings.getNewColName().isEmpty()) {
        throw new InvalidSettingsException("No name for prediction column provided");
    }
    Set<String> outcomes = new LinkedHashSet<String>();
    List<DataType> outcomeTypes = new ArrayList<DataType>();
    int line = 0;
    final List<Pair<PMMLPredicate, Expression>> rules = new ArrayList<Pair<PMMLPredicate, Expression>>();
    for (String ruleText : m_settings.rules()) {
        ++line;
        if (RuleSupport.isComment(ruleText)) {
            continue;
        }
        try {
            ParseState state = new ParseState(ruleText);
            PMMLPredicate expression = parser.parseBooleanExpression(state);
            SimpleRule simpleRule = ruleSet.addNewSimpleRule();
            setCondition(simpleRule, expression);
            state.skipWS();
            state.consumeText("=>");
            state.skipWS();
            Expression outcome = parser.parseOutcomeOperand(state, null);
            // Only constants are allowed in the outcomes.
            assert outcome.isConstant() : outcome;
            rules.add(new Pair<PMMLPredicate, Expression>(expression, outcome));
            outcomeTypes.add(outcome.getOutputType());
            simpleRule.setScore(outcome.toString());
            // simpleRule.setConfidence(confidenceForRule(simpleRule, line, ruleText));
            simpleRule.setWeight(weightForRule(simpleRule, line, ruleText));
            outcomes.add(simpleRule.getScore());
        } catch (ParseException e) {
            throw Util.addContext(e, ruleText, line);
        }
    }
    DataType outcomeType = RuleEngineNodeModel.computeOutputType(outcomeTypes, true);
    ColumnRearranger rearranger = new ColumnRearranger(tableSpec);
    DataColumnSpecCreator specProto = new DataColumnSpecCreator(m_settings.isAppendColumn() ? DataTableSpec.getUniqueColumnName(tableSpec, m_settings.getNewColName()) : m_settings.getReplaceColumn(), outcomeType);
    specProto.setDomain(new DataColumnDomainCreator(toCells(outcomes, outcomeType)).createDomain());
    SingleCellFactory cellFactory = new SingleCellFactory(true, specProto.createSpec()) {

        @Override
        public DataCell getCell(final DataRow row) {
            for (Pair<PMMLPredicate, Expression> pair : rules) {
                if (pair.getFirst().evaluate(row, tableSpec) == Boolean.TRUE) {
                    return pair.getSecond().evaluate(row, null).getValue();
                }
            }
            return DataType.getMissingCell();
        }
    };
    if (m_settings.isAppendColumn()) {
        rearranger.append(cellFactory);
    } else {
        rearranger.replace(cellFactory, m_settings.getReplaceColumn());
    }
    return rearranger;
}

Example 8 with DataColumnSpecCreator

use of org.knime.core.data.DataColumnSpecCreator in project knime-core by knime.

the class PMMLRuleSetPredictorNodeModel method configure.

/**
 * {@inheritDoc}
 */
@Override
protected DataTableSpec[] configure(final PortObjectSpec[] inSpecs) throws InvalidSettingsException {
    DataTableSpec original = (DataTableSpec) inSpecs[DATA_INDEX];
    ColumnRearranger rearranger = new ColumnRearranger(original);
    PMMLPortObjectSpec portObjectSpec = (PMMLPortObjectSpec) inSpecs[MODEL_INDEX];
    List<DataColumnSpec> activeColumnList = portObjectSpec.getActiveColumnList();
    List<DataColumnSpec> notFound = new ArrayList<DataColumnSpec>();
    for (DataColumnSpec dataColumnSpec : activeColumnList) {
        if (original.containsName(dataColumnSpec.getName())) {
            DataColumnSpec origSpec = original.getColumnSpec(dataColumnSpec.getName());
            if (!origSpec.getType().equals(dataColumnSpec.getType())) {
                notFound.add(dataColumnSpec);
            }
        } else {
            notFound.add(dataColumnSpec);
        }
    }
    if (!notFound.isEmpty()) {
        StringBuilder sb = new StringBuilder("Incompatible to the table, the following columns are not present, or have a wrong type:");
        for (DataColumnSpec dataColumnSpec : notFound) {
            sb.append("\n   ").append(dataColumnSpec);
        }
        throw new InvalidSettingsException(sb.toString());
    }
    List<DataColumnSpec> targetCols = portObjectSpec.getTargetCols();
    final DataType dataType = targetCols.isEmpty() ? StringCell.TYPE : targetCols.get(0).getType();
    DataColumnSpecCreator specCreator;
    if (m_doReplaceColumn.getBooleanValue()) {
        String col = m_replaceColumn.getStringValue();
        specCreator = new DataColumnSpecCreator(col, dataType);
    } else {
        specCreator = new DataColumnSpecCreator(DataTableSpec.getUniqueColumnName(original, m_outputColumn.getStringValue()), dataType);
    }
    SingleCellFactory dummy = new SingleCellFactory(specCreator.createSpec()) {

        /**
         * {@inheritDoc}
         */
        @Override
        public DataCell getCell(final DataRow row) {
            throw new IllegalStateException();
        }
    };
    if (m_addConfidence.getBooleanValue()) {
        rearranger.append(new SingleCellFactory(new DataColumnSpecCreator(DataTableSpec.getUniqueColumnName(rearranger.createSpec(), m_confidenceColumn.getStringValue()), DoubleCell.TYPE).createSpec()) {

            @Override
            public DataCell getCell(final DataRow row) {
                throw new IllegalStateException();
            }
        });
    }
    if (m_doReplaceColumn.getBooleanValue()) {
        rearranger.replace(dummy, m_replaceColumn.getStringValue());
    } else {
        rearranger.append(dummy);
    }
    return new DataTableSpec[] { rearranger.createSpec() };
}

Example 9 with DataColumnSpecCreator

use of org.knime.core.data.DataColumnSpecCreator in project knime-core by knime.

the class PMMLRuleSetPredictorNodeModel method createRearranger.

/**
 * Constructs the {@link ColumnRearranger} for computing the new columns.
 *
 * @param obj The {@link PMMLPortObject} of the preprocessing model.
 * @param spec The {@link DataTableSpec} of the table.
 * @param replaceColumn Should replace the {@code outputColumnName}?
 * @param outputColumnName The output column name (which might be an existing).
 * @param addConfidence Should add the confidence values to a column?
 * @param confidenceColumnName The name of the confidence column.
 * @param validationColumnIdx Index of the validation column, {@code -1} if not specified.
 * @param processConcurrently Should be {@code false} when the statistics are to be computed.
 * @return The {@link ColumnRearranger} computing the result.
 * @throws InvalidSettingsException Problem with rules.
 */
private static ColumnRearranger createRearranger(final PMMLPortObject obj, final DataTableSpec spec, final boolean replaceColumn, final String outputColumnName, final boolean addConfidence, final String confidenceColumnName, final int validationColumnIdx, final boolean processConcurrently) throws InvalidSettingsException {
    List<Node> models = obj.getPMMLValue().getModels(PMMLModelType.RuleSetModel);
    if (models.size() != 1) {
        throw new InvalidSettingsException("Expected exactly on RuleSetModel, but got: " + models.size());
    }
    final PMMLRuleTranslator translator = new PMMLRuleTranslator();
    obj.initializeModelTranslator(translator);
    if (!translator.isScorable()) {
        throw new UnsupportedOperationException("The model is not scorable.");
    }
    final List<PMMLRuleTranslator.Rule> rules = translator.getRules();
    ColumnRearranger ret = new ColumnRearranger(spec);
    final List<DataColumnSpec> targetCols = obj.getSpec().getTargetCols();
    final DataType dataType = targetCols.isEmpty() ? StringCell.TYPE : targetCols.get(0).getType();
    DataColumnSpecCreator specCreator = new DataColumnSpecCreator(outputColumnName, dataType);
    Set<DataCell> outcomes = new LinkedHashSet<>();
    for (Rule rule : rules) {
        DataCell outcome;
        if (dataType.equals(BooleanCell.TYPE)) {
            outcome = BooleanCellFactory.create(rule.getOutcome());
        } else if (dataType.equals(StringCell.TYPE)) {
            outcome = new StringCell(rule.getOutcome());
        } else if (dataType.equals(DoubleCell.TYPE)) {
            try {
                outcome = new DoubleCell(Double.parseDouble(rule.getOutcome()));
            } catch (NumberFormatException e) {
                // ignore
                continue;
            }
        } else if (dataType.equals(IntCell.TYPE)) {
            try {
                outcome = new IntCell(Integer.parseInt(rule.getOutcome()));
            } catch (NumberFormatException e) {
                // ignore
                continue;
            }
        } else if (dataType.equals(LongCell.TYPE)) {
            try {
                outcome = new LongCell(Long.parseLong(rule.getOutcome()));
            } catch (NumberFormatException e) {
                // ignore
                continue;
            }
        } else {
            throw new UnsupportedOperationException("Unknown outcome type: " + dataType);
        }
        outcomes.add(outcome);
    }
    specCreator.setDomain(new DataColumnDomainCreator(outcomes).createDomain());
    DataColumnSpec colSpec = specCreator.createSpec();
    final RuleSelectionMethod ruleSelectionMethod = translator.getSelectionMethodList().get(0);
    final String defaultScore = translator.getDefaultScore();
    final Double defaultConfidence = translator.getDefaultConfidence();
    final DataColumnSpec[] specs;
    if (addConfidence) {
        specs = new DataColumnSpec[] { new DataColumnSpecCreator(DataTableSpec.getUniqueColumnName(ret.createSpec(), confidenceColumnName), DoubleCell.TYPE).createSpec(), colSpec };
    } else {
        specs = new DataColumnSpec[] { colSpec };
    }
    final int oldColumnIndex = replaceColumn ? ret.indexOf(outputColumnName) : -1;
    ret.append(new AbstractCellFactory(processConcurrently, specs) {

        private final List<String> m_values;

        {
            Map<String, List<String>> dd = translator.getDataDictionary();
            m_values = dd.get(targetCols.get(0).getName());
        }

        /**
         * {@inheritDoc}
         */
        @Override
        public DataCell[] getCells(final DataRow row) {
            // See http://www.dmg.org/v4-1/RuleSet.html#Rule
            switch(ruleSelectionMethod.getCriterion().intValue()) {
                case RuleSelectionMethod.Criterion.INT_FIRST_HIT:
                    {
                        Pair<DataCell, Double> resultAndConfidence = selectFirstHit(row);
                        return toCells(resultAndConfidence);
                    }
                case RuleSelectionMethod.Criterion.INT_WEIGHTED_MAX:
                    {
                        Pair<DataCell, Double> resultAndConfidence = selectWeightedMax(row);
                        return toCells(resultAndConfidence);
                    }
                case RuleSelectionMethod.Criterion.INT_WEIGHTED_SUM:
                    {
                        Pair<DataCell, Double> resultAndConfidence = selectWeightedSum(row);
                        return toCells(resultAndConfidence);
                    }
                default:
                    throw new UnsupportedOperationException(ruleSelectionMethod.getCriterion().toString());
            }
        }

        /**
         * Converts the pair to a {@link DataCell} array.
         *
         * @param resultAndConfidence The {@link Pair}.
         * @return The result and possibly the confidence.
         */
        private DataCell[] toCells(final Pair<DataCell, Double> resultAndConfidence) {
            if (!addConfidence) {
                return new DataCell[] { resultAndConfidence.getFirst() };
            }
            if (resultAndConfidence.getSecond() == null) {
                return new DataCell[] { DataType.getMissingCell(), resultAndConfidence.getFirst() };
            }
            return new DataCell[] { new DoubleCell(resultAndConfidence.getSecond()), resultAndConfidence.getFirst() };
        }

        /**
         * Computes the result and the confidence using the weighted sum method.
         *
         * @param row A {@link DataRow}
         * @return The result and the confidence.
         */
        private Pair<DataCell, Double> selectWeightedSum(final DataRow row) {
            final Map<String, Double> scoreToSumWeight = new LinkedHashMap<String, Double>();
            for (String val : m_values) {
                scoreToSumWeight.put(val, 0.0);
            }
            int matchedRuleCount = 0;
            for (final PMMLRuleTranslator.Rule rule : rules) {
                if (rule.getCondition().evaluate(row, spec) == Boolean.TRUE) {
                    ++matchedRuleCount;
                    Double sumWeight = scoreToSumWeight.get(rule.getOutcome());
                    if (sumWeight == null) {
                        throw new IllegalStateException("The score value: " + rule.getOutcome() + " is not in the data dictionary.");
                    }
                    final Double wRaw = rule.getWeight();
                    final double w = wRaw == null ? 0.0 : wRaw.doubleValue();
                    scoreToSumWeight.put(rule.getOutcome(), sumWeight + w);
                }
            }
            double maxSumWeight = Double.NEGATIVE_INFINITY;
            String bestScore = null;
            for (Entry<String, Double> entry : scoreToSumWeight.entrySet()) {
                final double d = entry.getValue().doubleValue();
                if (d > maxSumWeight) {
                    maxSumWeight = d;
                    bestScore = entry.getKey();
                }
            }
            if (bestScore == null || matchedRuleCount == 0) {
                return pair(result(defaultScore), defaultConfidence);
            }
            return pair(result(bestScore), maxSumWeight / matchedRuleCount);
        }

        /**
         * Helper method to create {@link Pair}s.
         *
         * @param f The first element.
         * @param s The second element.
         * @return The new pair.
         */
        private <F, S> Pair<F, S> pair(final F f, final S s) {
            return new Pair<F, S>(f, s);
        }

        /**
         * Computes the result and the confidence using the weighted max method.
         *
         * @param row A {@link DataRow}
         * @return The result and the confidence.
         */
        private Pair<DataCell, Double> selectWeightedMax(final DataRow row) {
            double maxWeight = Double.NEGATIVE_INFINITY;
            PMMLRuleTranslator.Rule bestRule = null;
            for (final PMMLRuleTranslator.Rule rule : rules) {
                if (rule.getCondition().evaluate(row, spec) == Boolean.TRUE) {
                    if (rule.getWeight() > maxWeight) {
                        maxWeight = rule.getWeight();
                        bestRule = rule;
                    }
                }
            }
            if (bestRule == null) {
                return pair(result(defaultScore), defaultConfidence);
            }
            bestRule.setRecordCount(bestRule.getRecordCount() + 1);
            DataCell result = result(bestRule);
            if (validationColumnIdx >= 0) {
                if (row.getCell(validationColumnIdx).equals(result)) {
                    bestRule.setNbCorrect(bestRule.getNbCorrect() + 1);
                }
            }
            Double confidence = bestRule.getConfidence();
            return pair(result, confidence == null ? defaultConfidence : confidence);
        }

        /**
         * Selects the outcome of the rule and converts it to the proper outcome type.
         *
         * @param rule A {@link Rule}.
         * @return The {@link DataCell} representing the result. (May be missing.)
         */
        private DataCell result(final PMMLRuleTranslator.Rule rule) {
            String outcome = rule.getOutcome();
            return result(outcome);
        }

        /**
         * Constructs the {@link DataCell} from its {@link String} representation ({@code outcome}) and its type.
         *
         * @param dataType The expected {@link DataType}
         * @param outcome The {@link String} representation.
         * @return The {@link DataCell}.
         */
        private DataCell result(final String outcome) {
            if (outcome == null) {
                return DataType.getMissingCell();
            }
            try {
                if (dataType.isCompatible(BooleanValue.class)) {
                    return BooleanCellFactory.create(outcome);
                }
                if (IntCell.TYPE.isASuperTypeOf(dataType)) {
                    return new IntCell(Integer.parseInt(outcome));
                }
                if (LongCell.TYPE.isASuperTypeOf(dataType)) {
                    return new LongCell(Long.parseLong(outcome));
                }
                if (DoubleCell.TYPE.isASuperTypeOf(dataType)) {
                    return new DoubleCell(Double.parseDouble(outcome));
                }
                return new StringCell(outcome);
            } catch (NumberFormatException e) {
                return new MissingCell(outcome + "\n" + e.getMessage());
            }
        }

        /**
         * Selects the first rule that matches and computes the confidence and result for the {@code row}.
         *
         * @param row A {@link DataRow}.
         * @return The result and the confidence.
         */
        private Pair<DataCell, Double> selectFirstHit(final DataRow row) {
            for (final PMMLRuleTranslator.Rule rule : rules) {
                Boolean eval = rule.getCondition().evaluate(row, spec);
                if (eval == Boolean.TRUE) {
                    rule.setRecordCount(rule.getRecordCount() + 1);
                    DataCell result = result(rule);
                    if (validationColumnIdx >= 0) {
                        if (row.getCell(validationColumnIdx).equals(result)) {
                            rule.setNbCorrect(rule.getNbCorrect() + 1);
                        }
                    }
                    Double confidence = rule.getConfidence();
                    return pair(result, confidence == null ? defaultConfidence : confidence);
                }
            }
            return pair(result(defaultScore), defaultConfidence);
        }

        /**
         * {@inheritDoc}
         */
        @Override
        public void afterProcessing() {
            super.afterProcessing();
            obj.getPMMLValue();
            RuleSetModel ruleSet = translator.getOriginalRuleSetModel();
            assert rules.size() == ruleSet.getRuleSet().getSimpleRuleList().size() + ruleSet.getRuleSet().getCompoundRuleList().size();
            if (ruleSet.getRuleSet().getSimpleRuleList().size() == rules.size()) {
                for (int i = 0; i < rules.size(); ++i) {
                    Rule rule = rules.get(i);
                    final SimpleRule simpleRuleArray = ruleSet.getRuleSet().getSimpleRuleArray(i);
                    synchronized (simpleRuleArray) /*synchronized fixes AP-6766 */
                    {
                        simpleRuleArray.setRecordCount(rule.getRecordCount());
                        if (validationColumnIdx >= 0) {
                            simpleRuleArray.setNbCorrect(rule.getNbCorrect());
                        } else if (simpleRuleArray.isSetNbCorrect()) {
                            simpleRuleArray.unsetNbCorrect();
                        }
                    }
                }
            }
        }
    });
    if (replaceColumn) {
        ret.remove(outputColumnName);
        ret.move(ret.getColumnCount() - 1 - (addConfidence ? 1 : 0), oldColumnIndex);
    }
    return ret;
}

Example 10 with DataColumnSpecCreator

use of org.knime.core.data.DataColumnSpecCreator in project knime-core by knime.

the class HistogramColumn method createHistogramColumnSpec.

/**
 * @return The {@link DataColumnSpec} for the column to be created.
 */
public DataColumnSpec createHistogramColumnSpec() {
    final DataColumnSpecCreator columnSpecCreator = new DataColumnSpecCreator(m_colName, m_format.getDataType());
    if (m_format == ImageFormats.SVG) {
        final Map<String, String> widthAndHeight = new LinkedHashMap<String, String>();
        widthAndHeight.put(SvgValueRenderer.OPTION_KEEP_ASPECT_RATIO, Boolean.toString(true));
        widthAndHeight.put(SvgValueRenderer.OPTION_PREFERRED_WIDTH, Integer.toString(m_width));
        widthAndHeight.put(SvgValueRenderer.OPTION_PREFERRED_HEIGHT, Integer.toString(m_height));
        final DataColumnProperties props = new DataColumnProperties(widthAndHeight);
        columnSpecCreator.setProperties(props);
    }
    DataColumnSpec histogramColumnSpec = columnSpecCreator.createSpec();
    return histogramColumnSpec;
}