diff --git a/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLChromatogramImporter.java b/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLChromatogramImporter.java index 2e73cd3..dbf83ad 100644 --- a/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLChromatogramImporter.java +++ b/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLChromatogramImporter.java @@ -13,11 +13,9 @@ import org.knime.core.data.DataTableSpec; import org.knime.core.data.DataTableSpecCreator; import org.knime.core.data.RowKey; -import org.knime.core.data.collection.CollectionCellFactory; import org.knime.core.data.collection.ListCell; import org.knime.core.data.def.DefaultRow; import org.knime.core.data.def.DoubleCell; -import org.knime.core.data.def.IntCell; import org.knime.core.node.BufferedDataTable; import org.knime.core.node.port.PortObjectSpec; @@ -27,8 +25,6 @@ import uk.ac.ebi.jmzml.model.mzml.BinaryDataArray; import uk.ac.ebi.jmzml.model.mzml.CVParam; import uk.ac.ebi.jmzml.model.mzml.Chromatogram; -import uk.ac.ebi.jmzml.model.mzml.Scan; -import uk.ac.ebi.jmzml.model.mzml.Spectrum; import uk.ac.ebi.jmzml.xml.io.MzMLUnmarshaller; public class MzMLChromatogramImporter implements IDemangler { diff --git a/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLSpectrumImporter.java b/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLSpectrumImporter.java index 159ccb1..d5f82fa 100644 --- a/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLSpectrumImporter.java +++ b/de.openms.knime.importers/src/de/openms/knime/importers/mzml/MzMLSpectrumImporter.java @@ -13,7 +13,6 @@ import org.knime.core.data.DataTableSpec; import org.knime.core.data.DataTableSpecCreator; import org.knime.core.data.RowKey; -import org.knime.core.data.collection.CollectionCellFactory; import org.knime.core.data.collection.ListCell; import org.knime.core.data.def.DefaultRow; import org.knime.core.data.def.DoubleCell; diff --git a/de.openms.knime.mzTab/src/de/openms/knime/mztab/MzTabReaderNodeModel.java b/de.openms.knime.mzTab/src/de/openms/knime/mztab/MzTabReaderNodeModel.java index 4bb2616..89726c6 100644 --- a/de.openms.knime.mzTab/src/de/openms/knime/mztab/MzTabReaderNodeModel.java +++ b/de.openms.knime.mzTab/src/de/openms/knime/mztab/MzTabReaderNodeModel.java @@ -106,14 +106,12 @@ private DataTableSpec createMetaDataSectionSpec() { * Constructor for the node model. */ protected MzTabReaderNodeModel() { - super(new PortType[] { new PortType(IURIPortObject.class) }, - new PortType[] { - new PortType(BufferedDataTable.class), - new PortType(BufferedDataTable.class), - new PortType(BufferedDataTable.class), - new PortType(BufferedDataTable.class), - new PortType(BufferedDataTable.class) - }); + super(new PortType[] { IURIPortObject.TYPE }, + new PortType[] { BufferedDataTable.TYPE, + BufferedDataTable.TYPE, + BufferedDataTable.TYPE, + BufferedDataTable.TYPE, + BufferedDataTable.TYPE}); metaDataRowIdx = 1; proteinRowIdx = 1; diff --git a/de.openms.knime.mzTab/src/de/openms/knime/mztab/small_molecule/SmallMoleculeMzTabReaderNodeModel.java b/de.openms.knime.mzTab/src/de/openms/knime/mztab/small_molecule/SmallMoleculeMzTabReaderNodeModel.java index 379a82e..4e490a1 100644 --- a/de.openms.knime.mzTab/src/de/openms/knime/mztab/small_molecule/SmallMoleculeMzTabReaderNodeModel.java +++ b/de.openms.knime.mzTab/src/de/openms/knime/mztab/small_molecule/SmallMoleculeMzTabReaderNodeModel.java @@ -93,8 +93,8 @@ public class SmallMoleculeMzTabReaderNodeModel extends NodeModel { * Constructor for the node model. */ protected SmallMoleculeMzTabReaderNodeModel() { - super(new PortType[] { new PortType(IURIPortObject.class) }, - new PortType[] { new PortType(BufferedDataTable.class) }); + super(new PortType[] { IURIPortObject.TYPE }, + new PortType[] { BufferedDataTable.TYPE }); } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcfeaturereader/QCFeatureReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcfeaturereader/QCFeatureReaderNodeModel.java index d5e7926..2910ba9 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcfeaturereader/QCFeatureReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcfeaturereader/QCFeatureReaderNodeModel.java @@ -78,7 +78,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcidreader/QCIDReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcidreader/QCIDReaderNodeModel.java index 4be3930..f952864 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcidreader/QCIDReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcidreader/QCIDReaderNodeModel.java @@ -79,7 +79,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcioninjectiontimereader/QCIonInjectionTimeReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcioninjectiontimereader/QCIonInjectionTimeReaderNodeModel.java index f776358..feefa4f 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcioninjectiontimereader/QCIonInjectionTimeReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcioninjectiontimereader/QCIonInjectionTimeReaderNodeModel.java @@ -56,7 +56,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcprecursorreader/QCPrecursorReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcprecursorreader/QCPrecursorReaderNodeModel.java index 638c7a0..2fc84b9 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcprecursorreader/QCPrecursorReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcprecursorreader/QCPrecursorReaderNodeModel.java @@ -76,7 +76,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcsetidreader/QCSetIdReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcsetidreader/QCSetIdReaderNodeModel.java index 80ff26a..74d1ae4 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcsetidreader/QCSetIdReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcsetidreader/QCSetIdReaderNodeModel.java @@ -76,7 +76,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcticreader/QCTICReaderNodeModel.java b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcticreader/QCTICReaderNodeModel.java index e0c3b94..480f1c5 100644 --- a/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcticreader/QCTICReaderNodeModel.java +++ b/de.openms.knime.qchandling/src/de/openms/knime/qchandling/qcticreader/QCTICReaderNodeModel.java @@ -74,7 +74,7 @@ private static PortType[] getIncomingPorts() { * @return The outgoing {@link PortType}s of this node. */ private static PortType[] getOutgoingPorts() { - return new PortType[] { new PortType(BufferedDataTable.class) }; + return new PortType[] { BufferedDataTable.TYPE }; } /** diff --git a/de.openms.knime.textexporter_reader/src/de/openms/knime/consensusTextReader/ConsensusTextReaderNodeModel.java b/de.openms.knime.textexporter_reader/src/de/openms/knime/consensusTextReader/ConsensusTextReaderNodeModel.java index 2231a37..2bf933e 100644 --- a/de.openms.knime.textexporter_reader/src/de/openms/knime/consensusTextReader/ConsensusTextReaderNodeModel.java +++ b/de.openms.knime.textexporter_reader/src/de/openms/knime/consensusTextReader/ConsensusTextReaderNodeModel.java @@ -43,7 +43,6 @@ import org.knime.core.node.ExecutionContext; import org.knime.core.node.ExecutionMonitor; import org.knime.core.node.InvalidSettingsException; -import org.knime.core.node.NodeLogger; import org.knime.core.node.NodeModel; import org.knime.core.node.NodeSettingsRO; import org.knime.core.node.NodeSettingsWO; @@ -61,16 +60,12 @@ */ public class ConsensusTextReaderNodeModel extends NodeModel { - // the logger instance - private static final NodeLogger logger = NodeLogger - .getLogger(ConsensusTextReaderNodeModel.class); - /** * Constructor for the node model. */ protected ConsensusTextReaderNodeModel() { - super(new PortType[] { new PortType(IURIPortObject.class) }, - new PortType[] { new PortType(BufferedDataTable.class) }); + super(new PortType[] { IURIPortObject.TYPE }, + new PortType[] { BufferedDataTable.TYPE }); } /** diff --git a/de.openms.knime.textexporter_reader/src/de/openms/knime/featureTextReader/FeatureTextReaderNodeModel.java b/de.openms.knime.textexporter_reader/src/de/openms/knime/featureTextReader/FeatureTextReaderNodeModel.java index b007c75..1ebf8bb 100644 --- a/de.openms.knime.textexporter_reader/src/de/openms/knime/featureTextReader/FeatureTextReaderNodeModel.java +++ b/de.openms.knime.textexporter_reader/src/de/openms/knime/featureTextReader/FeatureTextReaderNodeModel.java @@ -13,7 +13,6 @@ import org.knime.core.node.ExecutionContext; import org.knime.core.node.ExecutionMonitor; import org.knime.core.node.InvalidSettingsException; -import org.knime.core.node.NodeLogger; import org.knime.core.node.NodeModel; import org.knime.core.node.NodeSettingsRO; import org.knime.core.node.NodeSettingsWO; @@ -31,16 +30,12 @@ */ public class FeatureTextReaderNodeModel extends NodeModel { - // the logger instance - private static final NodeLogger logger = NodeLogger - .getLogger(FeatureTextReaderNodeModel.class); - /** * Constructor for the node model. */ protected FeatureTextReaderNodeModel() { - super(new PortType[] { new PortType(IURIPortObject.class) }, - new PortType[] { new PortType(BufferedDataTable.class) }); + super(new PortType[] { IURIPortObject.TYPE }, + new PortType[] { BufferedDataTable.TYPE }); } /** diff --git a/de.openms.knime.textexporter_reader/src/de/openms/knime/idTextReader/IDTextReaderNodeModel.java b/de.openms.knime.textexporter_reader/src/de/openms/knime/idTextReader/IDTextReaderNodeModel.java index 541c59c..764b144 100644 --- a/de.openms.knime.textexporter_reader/src/de/openms/knime/idTextReader/IDTextReaderNodeModel.java +++ b/de.openms.knime.textexporter_reader/src/de/openms/knime/idTextReader/IDTextReaderNodeModel.java @@ -43,7 +43,6 @@ import org.knime.core.node.ExecutionContext; import org.knime.core.node.ExecutionMonitor; import org.knime.core.node.InvalidSettingsException; -import org.knime.core.node.NodeLogger; import org.knime.core.node.NodeModel; import org.knime.core.node.NodeSettingsRO; import org.knime.core.node.NodeSettingsWO; @@ -61,16 +60,12 @@ */ public class IDTextReaderNodeModel extends NodeModel { - // the logger instance - private static final NodeLogger logger = NodeLogger - .getLogger(IDTextReaderNodeModel.class); - /** * Constructor for the node model. */ protected IDTextReaderNodeModel() { - super(new PortType[] { new PortType(IURIPortObject.class) }, - new PortType[] { new PortType(BufferedDataTable.class) }); + super(new PortType[] { IURIPortObject.TYPE }, + new PortType[] { BufferedDataTable.TYPE }); } /**