From 8dbf6e85ebb3dbcd84635f194457cd4dc65010cf Mon Sep 17 00:00:00 2001 From: kjvdheide Date: Tue, 3 Oct 2017 13:06:18 +0100 Subject: [PATCH] Copyright test --- src/com/github/reinert/jjschema/Attributes.java | 2 +- src/com/stevesoft/pat/AmpersandRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Any.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/BackG.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/BackMatch.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/BackRefRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Backup.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/BasicStringBufferLike.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Bits.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Boundary.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Bracket.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/CaseMgr.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/ChangeRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/CodeRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Ctrl.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Custom.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/CustomEndpoint.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/DirFileRegex.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/DotMulti.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/End.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/FastBracket.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/FastMulti.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/FileRegex.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Group.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/LeftRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Multi.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/MultiMin.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Multi_stage2.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/NoPattern.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/NonDirFileRegex.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/NotImplementedError.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/NullPattern.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/NullRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Or.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/OrMark.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/PartialBuffer.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Pattern.java | 2 +- src/com/stevesoft/pat/PatternSub.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/PopRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Prop.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Pthings.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/PushRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RBuffer.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Range.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RegOpt.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RegRes.java | 2 +- src/com/stevesoft/pat/RegSyntax.java | 2 +- src/com/stevesoft/pat/RegSyntaxError.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Regex.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RegexReader.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RegexTokenizer.java | 2 +- src/com/stevesoft/pat/RegexWriter.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/ReplaceRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Replacer.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/RightRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Rthings.java | 2 +- src/com/stevesoft/pat/RuleHolder.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Skip.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Skip2.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/SkipBMH.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Skipped.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/SpecialRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Start.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/StrPos.java | 2 +- src/com/stevesoft/pat/StringBufferLike.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/StringLike.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/StringRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/SubMark.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/TransPat.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Transformer.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/UniValidator.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/Validator.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/WantMoreTextReplaceRule.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/lookAhead.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/oneChar.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/parsePerl.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/patInf.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/patInt.java | 20 ++++++++++++++++++++ .../stevesoft/pat/wrap/CharArrayBufferWrap.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/wrap/CharArrayWrap.java | 20 ++++++++++++++++++++ .../stevesoft/pat/wrap/RandomAccessFileWrap.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/wrap/StringBufferWrap.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/wrap/StringWrap.java | 20 ++++++++++++++++++++ src/com/stevesoft/pat/wrap/WriterWrap.java | 20 ++++++++++++++++++++ src/ext/edu/ucsf/rbvi/strucviz2/ChimUtils.java | 2 +- src/ext/edu/ucsf/rbvi/strucviz2/ChimeraChain.java | 2 +- .../edu/ucsf/rbvi/strucviz2/ChimeraManager.java | 2 +- src/ext/edu/ucsf/rbvi/strucviz2/ChimeraModel.java | 2 +- .../edu/ucsf/rbvi/strucviz2/ChimeraResidue.java | 2 +- .../rbvi/strucviz2/ChimeraStructuralObject.java | 2 +- .../edu/ucsf/rbvi/strucviz2/ChimeraTreeModel.java | 2 +- .../edu/ucsf/rbvi/strucviz2/StructureManager.java | 2 +- .../edu/ucsf/rbvi/strucviz2/StructureSettings.java | 2 +- .../ucsf/rbvi/strucviz2/port/ListenerThreads.java | 2 +- src/jalview/binding/Alignment.java | 20 ++++++++++++++++++++ src/jalview/binding/Annotation.java | 20 ++++++++++++++++++++ src/jalview/binding/AnnotationElement.java | 20 ++++++++++++++++++++ src/jalview/binding/Colour.java | 20 ++++++++++++++++++++ src/jalview/binding/Feature.java | 20 ++++++++++++++++++++ src/jalview/binding/FeatureSettings.java | 20 ++++++++++++++++++++ src/jalview/binding/Features.java | 20 ++++++++++++++++++++ src/jalview/binding/JGroup.java | 20 ++++++++++++++++++++ src/jalview/binding/JSeq.java | 20 ++++++++++++++++++++ src/jalview/binding/JalviewModel.java | 20 ++++++++++++++++++++ src/jalview/binding/JalviewModelSequence.java | 20 ++++++++++++++++++++ src/jalview/binding/JalviewUserColours.java | 20 ++++++++++++++++++++ src/jalview/binding/Pdbentry.java | 20 ++++++++++++++++++++ src/jalview/binding/PdbentryItem.java | 20 ++++++++++++++++++++ src/jalview/binding/Pdbids.java | 20 ++++++++++++++++++++ src/jalview/binding/Property.java | 20 ++++++++++++++++++++ src/jalview/binding/Sequence.java | 20 ++++++++++++++++++++ src/jalview/binding/SequenceSet.java | 20 ++++++++++++++++++++ src/jalview/binding/SequenceType.java | 20 ++++++++++++++++++++ src/jalview/binding/Setting.java | 20 ++++++++++++++++++++ src/jalview/binding/Tree.java | 20 ++++++++++++++++++++ src/jalview/binding/UserColourScheme.java | 20 ++++++++++++++++++++ src/jalview/binding/UserColours.java | 20 ++++++++++++++++++++ src/jalview/binding/VAMSAS.java | 20 ++++++++++++++++++++ src/jalview/binding/VamsasModel.java | 20 ++++++++++++++++++++ src/jalview/binding/Viewport.java | 20 ++++++++++++++++++++ src/jalview/datamodel/ContiguousI.java | 20 ++++++++++++++++++++ src/jalview/datamodel/Range.java | 20 ++++++++++++++++++++ src/jalview/datamodel/SequenceCursor.java | 20 ++++++++++++++++++++ .../datamodel/features/FeatureLocationI.java | 20 ++++++++++++++++++++ src/jalview/datamodel/features/FeatureStore.java | 20 ++++++++++++++++++++ src/jalview/datamodel/features/NCList.java | 20 ++++++++++++++++++++ src/jalview/datamodel/features/NCNode.java | 20 ++++++++++++++++++++ .../datamodel/features/RangeComparator.java | 20 ++++++++++++++++++++ .../datamodel/features/SequenceFeatures.java | 20 ++++++++++++++++++++ .../datamodel/features/SequenceFeaturesI.java | 20 ++++++++++++++++++++ .../datamodel/xdb/uniprot/UniprotFeature.java | 20 ++++++++++++++++++++ src/jalview/ext/android/ContainerHelpers.java | 2 +- src/jalview/ext/android/SparseDoubleArray.java | 2 +- src/jalview/ext/android/SparseIntArray.java | 2 +- src/jalview/ext/android/SparseShortArray.java | 2 +- .../ext/archaeopteryx/AlignmentToTreeViewerI.java | 20 ++++++++++++++++++++ .../ext/archaeopteryx/ArchaeopteryxInit.java | 20 ++++++++++++++++++++ .../ext/archaeopteryx/TreeViewerBindingI.java | 20 ++++++++++++++++++++ src/jalview/jbgui/GStructureChooser.java | 2 +- src/jalview/schemabinding/version2/AlcodMap.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Alcodon.java | 20 ++++++++++++++++++++ .../schemabinding/version2/AlcodonFrame.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Annotation.java | 20 ++++++++++++++++++++ .../version2/AnnotationColourScheme.java | 20 ++++++++++++++++++++ .../schemabinding/version2/AnnotationColours.java | 20 ++++++++++++++++++++ .../schemabinding/version2/AnnotationElement.java | 20 ++++++++++++++++++++ .../schemabinding/version2/CalcIdParam.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Colour.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/DBRef.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Feature.java | 20 ++++++++++++++++++++ .../schemabinding/version2/FeatureSettings.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Features.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Group.java | 20 ++++++++++++++++++++ .../schemabinding/version2/HiddenColumns.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/JGroup.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/JSeq.java | 20 ++++++++++++++++++++ .../schemabinding/version2/JalviewModel.java | 20 ++++++++++++++++++++ .../version2/JalviewModelSequence.java | 20 ++++++++++++++++++++ .../schemabinding/version2/JalviewUserColours.java | 20 ++++++++++++++++++++ .../schemabinding/version2/MapListFrom.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/MapListTo.java | 20 ++++++++++++++++++++ .../schemabinding/version2/MapListType.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Mapping.java | 20 ++++++++++++++++++++ .../schemabinding/version2/MappingChoice.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/OtherData.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Pdbentry.java | 20 ++++++++++++++++++++ .../schemabinding/version2/PdbentryItem.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Pdbids.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Property.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/RnaViewer.java | 20 ++++++++++++++++++++ .../schemabinding/version2/SecondaryStructure.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Sequence.java | 20 ++++++++++++++++++++ .../schemabinding/version2/SequenceSet.java | 20 ++++++++++++++++++++ .../version2/SequenceSetProperties.java | 20 ++++++++++++++++++++ .../schemabinding/version2/SequenceType.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Setting.java | 20 ++++++++++++++++++++ .../schemabinding/version2/StructureState.java | 20 ++++++++++++++++++++ .../schemabinding/version2/ThresholdLine.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Tree.java | 20 ++++++++++++++++++++ .../schemabinding/version2/UserColourScheme.java | 20 ++++++++++++++++++++ .../schemabinding/version2/UserColours.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/VAMSAS.java | 20 ++++++++++++++++++++ .../schemabinding/version2/VamsasModel.java | 20 ++++++++++++++++++++ src/jalview/schemabinding/version2/Viewport.java | 20 ++++++++++++++++++++ .../version2/WebServiceParameterSet.java | 20 ++++++++++++++++++++ .../version2/descriptors/AlcodMapDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/AlcodonDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/AlcodonFrameDescriptor.java | 20 ++++++++++++++++++++ .../AnnotationColourSchemeDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/AnnotationColoursDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/AnnotationDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/AnnotationElementDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/CalcIdParamDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/ColourDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/DBRefDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/FeatureDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/FeatureSettingsDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/FeaturesDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/GroupDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/HiddenColumnsDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/JGroupDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/JSeqDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/JalviewModelDescriptor.java | 20 ++++++++++++++++++++ .../JalviewModelSequenceDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/JalviewUserColoursDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/MapListFromDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/MapListToDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/MapListTypeDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/MappingChoiceDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/MappingDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/OtherDataDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/PdbentryDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/PdbentryItemDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/PdbidsDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/PropertyDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/RnaViewerDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/SecondaryStructureDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/SequenceDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/SequenceSetDescriptor.java | 20 ++++++++++++++++++++ .../SequenceSetPropertiesDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/SequenceTypeDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/SettingDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/StructureStateDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/ThresholdLineDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/TreeDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/UserColourSchemeDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/UserColoursDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/VAMSASDescriptor.java | 20 ++++++++++++++++++++ .../descriptors/VamsasModelDescriptor.java | 20 ++++++++++++++++++++ .../version2/descriptors/ViewportDescriptor.java | 20 ++++++++++++++++++++ .../WebServiceParameterSetDescriptor.java | 20 ++++++++++++++++++++ src/jalview/util/IntRangeComparator.java | 20 ++++++++++++++++++++ src/jalview/xml/binding/sifts/Alignment.java | 20 ++++++++++++++++++++ src/jalview/xml/binding/sifts/EntityType.java | 20 ++++++++++++++++++++ src/jalview/xml/binding/sifts/Entry.java | 20 ++++++++++++++++++++ src/jalview/xml/binding/sifts/ObjectFactory.java | 20 ++++++++++++++++++++ src/jalview/xml/binding/sifts/package-info.java | 20 ++++++++++++++++++++ 237 files changed, 4322 insertions(+), 22 deletions(-) diff --git a/src/com/github/reinert/jjschema/Attributes.java b/src/com/github/reinert/jjschema/Attributes.java index c3bd6c4..db306fc 100755 --- a/src/com/github/reinert/jjschema/Attributes.java +++ b/src/com/github/reinert/jjschema/Attributes.java @@ -1,5 +1,5 @@ /* - * Copyright (c) 2014, Danilo Reinert (daniloreinert@growbit.com) + * Copyright (c) 2014, 2015, Danilo Reinert (daniloreinert@growbit.com) * * This software is dual-licensed under: * diff --git a/src/com/stevesoft/pat/AmpersandRule.java b/src/com/stevesoft/pat/AmpersandRule.java index 0496a19..4d7d717 100755 --- a/src/com/stevesoft/pat/AmpersandRule.java +++ b/src/com/stevesoft/pat/AmpersandRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Any.java b/src/com/stevesoft/pat/Any.java index dbaa961..8a0917f 100755 --- a/src/com/stevesoft/pat/Any.java +++ b/src/com/stevesoft/pat/Any.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/BackG.java b/src/com/stevesoft/pat/BackG.java index 166b58c..a5e62fc 100755 --- a/src/com/stevesoft/pat/BackG.java +++ b/src/com/stevesoft/pat/BackG.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/BackMatch.java b/src/com/stevesoft/pat/BackMatch.java index 1d7499e..0151601 100755 --- a/src/com/stevesoft/pat/BackMatch.java +++ b/src/com/stevesoft/pat/BackMatch.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/BackRefRule.java b/src/com/stevesoft/pat/BackRefRule.java index daacbc1..489a14e 100755 --- a/src/com/stevesoft/pat/BackRefRule.java +++ b/src/com/stevesoft/pat/BackRefRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Backup.java b/src/com/stevesoft/pat/Backup.java index 6602aca..55fde99 100755 --- a/src/com/stevesoft/pat/Backup.java +++ b/src/com/stevesoft/pat/Backup.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/BasicStringBufferLike.java b/src/com/stevesoft/pat/BasicStringBufferLike.java index adb10f1..badaa42 100755 --- a/src/com/stevesoft/pat/BasicStringBufferLike.java +++ b/src/com/stevesoft/pat/BasicStringBufferLike.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Bits.java b/src/com/stevesoft/pat/Bits.java index b47f794..e98fa77 100755 --- a/src/com/stevesoft/pat/Bits.java +++ b/src/com/stevesoft/pat/Bits.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Boundary.java b/src/com/stevesoft/pat/Boundary.java index af79f66..4f9f0ce 100755 --- a/src/com/stevesoft/pat/Boundary.java +++ b/src/com/stevesoft/pat/Boundary.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Bracket.java b/src/com/stevesoft/pat/Bracket.java index adbcded..9f83e8f 100755 --- a/src/com/stevesoft/pat/Bracket.java +++ b/src/com/stevesoft/pat/Bracket.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/CaseMgr.java b/src/com/stevesoft/pat/CaseMgr.java index 393dac9..3cd2391 100755 --- a/src/com/stevesoft/pat/CaseMgr.java +++ b/src/com/stevesoft/pat/CaseMgr.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/ChangeRule.java b/src/com/stevesoft/pat/ChangeRule.java index e8ef5df..3daf8a1 100755 --- a/src/com/stevesoft/pat/ChangeRule.java +++ b/src/com/stevesoft/pat/ChangeRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/CodeRule.java b/src/com/stevesoft/pat/CodeRule.java index aa9c4dc..8e2bb8a 100755 --- a/src/com/stevesoft/pat/CodeRule.java +++ b/src/com/stevesoft/pat/CodeRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Ctrl.java b/src/com/stevesoft/pat/Ctrl.java index 07b9d6d..af45deb 100755 --- a/src/com/stevesoft/pat/Ctrl.java +++ b/src/com/stevesoft/pat/Ctrl.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Custom.java b/src/com/stevesoft/pat/Custom.java index 3251fa3..09fa8c3 100755 --- a/src/com/stevesoft/pat/Custom.java +++ b/src/com/stevesoft/pat/Custom.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/CustomEndpoint.java b/src/com/stevesoft/pat/CustomEndpoint.java index bf122b7..662347b 100755 --- a/src/com/stevesoft/pat/CustomEndpoint.java +++ b/src/com/stevesoft/pat/CustomEndpoint.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/DirFileRegex.java b/src/com/stevesoft/pat/DirFileRegex.java index bc62910..68ba7c8 100755 --- a/src/com/stevesoft/pat/DirFileRegex.java +++ b/src/com/stevesoft/pat/DirFileRegex.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/DotMulti.java b/src/com/stevesoft/pat/DotMulti.java index 7fd055b..c02762f 100755 --- a/src/com/stevesoft/pat/DotMulti.java +++ b/src/com/stevesoft/pat/DotMulti.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/End.java b/src/com/stevesoft/pat/End.java index 06aadda..14483c8 100755 --- a/src/com/stevesoft/pat/End.java +++ b/src/com/stevesoft/pat/End.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/FastBracket.java b/src/com/stevesoft/pat/FastBracket.java index af1bc37..4d04cf4 100755 --- a/src/com/stevesoft/pat/FastBracket.java +++ b/src/com/stevesoft/pat/FastBracket.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/FastMulti.java b/src/com/stevesoft/pat/FastMulti.java index cad69ee..50fbffe 100755 --- a/src/com/stevesoft/pat/FastMulti.java +++ b/src/com/stevesoft/pat/FastMulti.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/FileRegex.java b/src/com/stevesoft/pat/FileRegex.java index fa57795..cdc548a 100755 --- a/src/com/stevesoft/pat/FileRegex.java +++ b/src/com/stevesoft/pat/FileRegex.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Group.java b/src/com/stevesoft/pat/Group.java index 22d9f81..b060125 100755 --- a/src/com/stevesoft/pat/Group.java +++ b/src/com/stevesoft/pat/Group.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/LeftRule.java b/src/com/stevesoft/pat/LeftRule.java index c75a0a5..082e5e9 100755 --- a/src/com/stevesoft/pat/LeftRule.java +++ b/src/com/stevesoft/pat/LeftRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Multi.java b/src/com/stevesoft/pat/Multi.java index 7798d12..4997a9b 100755 --- a/src/com/stevesoft/pat/Multi.java +++ b/src/com/stevesoft/pat/Multi.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/MultiMin.java b/src/com/stevesoft/pat/MultiMin.java index 6054e06..5b28e83 100755 --- a/src/com/stevesoft/pat/MultiMin.java +++ b/src/com/stevesoft/pat/MultiMin.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Multi_stage2.java b/src/com/stevesoft/pat/Multi_stage2.java index f5a54db..b38ebc3 100755 --- a/src/com/stevesoft/pat/Multi_stage2.java +++ b/src/com/stevesoft/pat/Multi_stage2.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/NoPattern.java b/src/com/stevesoft/pat/NoPattern.java index 37d6384..362ab55 100755 --- a/src/com/stevesoft/pat/NoPattern.java +++ b/src/com/stevesoft/pat/NoPattern.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/NonDirFileRegex.java b/src/com/stevesoft/pat/NonDirFileRegex.java index 864243c..3307649 100755 --- a/src/com/stevesoft/pat/NonDirFileRegex.java +++ b/src/com/stevesoft/pat/NonDirFileRegex.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/NotImplementedError.java b/src/com/stevesoft/pat/NotImplementedError.java index 11ce9eb..0918bbd 100755 --- a/src/com/stevesoft/pat/NotImplementedError.java +++ b/src/com/stevesoft/pat/NotImplementedError.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/NullPattern.java b/src/com/stevesoft/pat/NullPattern.java index accd3f1..26b2a6d 100755 --- a/src/com/stevesoft/pat/NullPattern.java +++ b/src/com/stevesoft/pat/NullPattern.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/NullRule.java b/src/com/stevesoft/pat/NullRule.java index 7c780e1..3490136 100755 --- a/src/com/stevesoft/pat/NullRule.java +++ b/src/com/stevesoft/pat/NullRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Or.java b/src/com/stevesoft/pat/Or.java index d5ee673..71bf916 100755 --- a/src/com/stevesoft/pat/Or.java +++ b/src/com/stevesoft/pat/Or.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/OrMark.java b/src/com/stevesoft/pat/OrMark.java index ce1ecad..2a24dca 100755 --- a/src/com/stevesoft/pat/OrMark.java +++ b/src/com/stevesoft/pat/OrMark.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/PartialBuffer.java b/src/com/stevesoft/pat/PartialBuffer.java index c53d6df..0ff1fa8 100755 --- a/src/com/stevesoft/pat/PartialBuffer.java +++ b/src/com/stevesoft/pat/PartialBuffer.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Pattern.java b/src/com/stevesoft/pat/Pattern.java index 1bc74f8..ad0e255 100755 --- a/src/com/stevesoft/pat/Pattern.java +++ b/src/com/stevesoft/pat/Pattern.java @@ -13,7 +13,7 @@ import java.util.Hashtable; /** Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2015, Steven R. Brandt */ /** * Class Pattern is the base class on which all the other pattern elements are diff --git a/src/com/stevesoft/pat/PatternSub.java b/src/com/stevesoft/pat/PatternSub.java index d790f4b..0c97869 100755 --- a/src/com/stevesoft/pat/PatternSub.java +++ b/src/com/stevesoft/pat/PatternSub.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/PopRule.java b/src/com/stevesoft/pat/PopRule.java index 4a17ab8..b870dac 100755 --- a/src/com/stevesoft/pat/PopRule.java +++ b/src/com/stevesoft/pat/PopRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Prop.java b/src/com/stevesoft/pat/Prop.java index 127e44a..0b62c09 100755 --- a/src/com/stevesoft/pat/Prop.java +++ b/src/com/stevesoft/pat/Prop.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Pthings.java b/src/com/stevesoft/pat/Pthings.java index 8de2748..a7a52ba 100755 --- a/src/com/stevesoft/pat/Pthings.java +++ b/src/com/stevesoft/pat/Pthings.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/PushRule.java b/src/com/stevesoft/pat/PushRule.java index dd1ac9c..3bc0457 100755 --- a/src/com/stevesoft/pat/PushRule.java +++ b/src/com/stevesoft/pat/PushRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RBuffer.java b/src/com/stevesoft/pat/RBuffer.java index 7970a1a..099d36f 100755 --- a/src/com/stevesoft/pat/RBuffer.java +++ b/src/com/stevesoft/pat/RBuffer.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Range.java b/src/com/stevesoft/pat/Range.java index 02c5d3a..98101c7 100755 --- a/src/com/stevesoft/pat/Range.java +++ b/src/com/stevesoft/pat/Range.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RegOpt.java b/src/com/stevesoft/pat/RegOpt.java index 50d799f..5bea193 100755 --- a/src/com/stevesoft/pat/RegOpt.java +++ b/src/com/stevesoft/pat/RegOpt.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RegRes.java b/src/com/stevesoft/pat/RegRes.java index a963a17..25d2efe 100755 --- a/src/com/stevesoft/pat/RegRes.java +++ b/src/com/stevesoft/pat/RegRes.java @@ -9,7 +9,7 @@ package com.stevesoft.pat; /** Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2015, Steven R. Brandt */ /** * This class is used to store a result from Regex diff --git a/src/com/stevesoft/pat/RegSyntax.java b/src/com/stevesoft/pat/RegSyntax.java index 635dc4c..c606a48 100755 --- a/src/com/stevesoft/pat/RegSyntax.java +++ b/src/com/stevesoft/pat/RegSyntax.java @@ -9,7 +9,7 @@ package com.stevesoft.pat; /* Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2008, Steven R. Brandt */ /** * This type of syntax error is thrown whenever a syntax error is encountered in diff --git a/src/com/stevesoft/pat/RegSyntaxError.java b/src/com/stevesoft/pat/RegSyntaxError.java index 1e56122..40eb197 100755 --- a/src/com/stevesoft/pat/RegSyntaxError.java +++ b/src/com/stevesoft/pat/RegSyntaxError.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Regex.java b/src/com/stevesoft/pat/Regex.java index c00ddad..cee80b1 100755 --- a/src/com/stevesoft/pat/Regex.java +++ b/src/com/stevesoft/pat/Regex.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RegexReader.java b/src/com/stevesoft/pat/RegexReader.java index 837821e..9a4ce38 100755 --- a/src/com/stevesoft/pat/RegexReader.java +++ b/src/com/stevesoft/pat/RegexReader.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RegexTokenizer.java b/src/com/stevesoft/pat/RegexTokenizer.java index 31fa2ba..84c8626 100755 --- a/src/com/stevesoft/pat/RegexTokenizer.java +++ b/src/com/stevesoft/pat/RegexTokenizer.java @@ -12,7 +12,7 @@ import java.util.Vector; /** Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2015, Steven R. Brandt */ /** * The RegexTokenizer is similar to the StringTokenizer class provided with diff --git a/src/com/stevesoft/pat/RegexWriter.java b/src/com/stevesoft/pat/RegexWriter.java index 57e2170..92d7469 100755 --- a/src/com/stevesoft/pat/RegexWriter.java +++ b/src/com/stevesoft/pat/RegexWriter.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/ReplaceRule.java b/src/com/stevesoft/pat/ReplaceRule.java index 74a7a25..91e6617 100755 --- a/src/com/stevesoft/pat/ReplaceRule.java +++ b/src/com/stevesoft/pat/ReplaceRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Replacer.java b/src/com/stevesoft/pat/Replacer.java index 6eaf5f6..11e4da4 100755 --- a/src/com/stevesoft/pat/Replacer.java +++ b/src/com/stevesoft/pat/Replacer.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/RightRule.java b/src/com/stevesoft/pat/RightRule.java index cddcb4a..da56c39 100755 --- a/src/com/stevesoft/pat/RightRule.java +++ b/src/com/stevesoft/pat/RightRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Rthings.java b/src/com/stevesoft/pat/Rthings.java index 58afe8e..016309e 100755 --- a/src/com/stevesoft/pat/Rthings.java +++ b/src/com/stevesoft/pat/Rthings.java @@ -9,7 +9,7 @@ package com.stevesoft.pat; /** Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2008, Steven R. Brandt */ /** * This class only exists to store data needed during the compilation of a diff --git a/src/com/stevesoft/pat/RuleHolder.java b/src/com/stevesoft/pat/RuleHolder.java index 8b50149..f14fff0 100755 --- a/src/com/stevesoft/pat/RuleHolder.java +++ b/src/com/stevesoft/pat/RuleHolder.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Skip.java b/src/com/stevesoft/pat/Skip.java index f04653e..bb51934 100755 --- a/src/com/stevesoft/pat/Skip.java +++ b/src/com/stevesoft/pat/Skip.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Skip2.java b/src/com/stevesoft/pat/Skip2.java index 5f6bb5a..f25e1b3 100755 --- a/src/com/stevesoft/pat/Skip2.java +++ b/src/com/stevesoft/pat/Skip2.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/SkipBMH.java b/src/com/stevesoft/pat/SkipBMH.java index 8257548..fa6f21b 100755 --- a/src/com/stevesoft/pat/SkipBMH.java +++ b/src/com/stevesoft/pat/SkipBMH.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Skipped.java b/src/com/stevesoft/pat/Skipped.java index 2d20845..c4baa2e 100755 --- a/src/com/stevesoft/pat/Skipped.java +++ b/src/com/stevesoft/pat/Skipped.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/SpecialRule.java b/src/com/stevesoft/pat/SpecialRule.java index 2a249a2..ff94e78 100755 --- a/src/com/stevesoft/pat/SpecialRule.java +++ b/src/com/stevesoft/pat/SpecialRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Start.java b/src/com/stevesoft/pat/Start.java index 6cc0ce4..f8f3a8b 100755 --- a/src/com/stevesoft/pat/Start.java +++ b/src/com/stevesoft/pat/Start.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/StrPos.java b/src/com/stevesoft/pat/StrPos.java index 1f08e31..01470fd 100755 --- a/src/com/stevesoft/pat/StrPos.java +++ b/src/com/stevesoft/pat/StrPos.java @@ -9,7 +9,7 @@ package com.stevesoft.pat; /** Shareware: package pat - Copyright 2001, Steven R. Brandt + Copyright 2001, 2008, Steven R. Brandt */ /** * StrPos is used internally by regex to parse the regular expression. diff --git a/src/com/stevesoft/pat/StringBufferLike.java b/src/com/stevesoft/pat/StringBufferLike.java index d125758..05581f7 100755 --- a/src/com/stevesoft/pat/StringBufferLike.java +++ b/src/com/stevesoft/pat/StringBufferLike.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/StringLike.java b/src/com/stevesoft/pat/StringLike.java index fa01fe6..4e4ca6d 100755 --- a/src/com/stevesoft/pat/StringLike.java +++ b/src/com/stevesoft/pat/StringLike.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/StringRule.java b/src/com/stevesoft/pat/StringRule.java index 10557d8..289a7b0 100755 --- a/src/com/stevesoft/pat/StringRule.java +++ b/src/com/stevesoft/pat/StringRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/SubMark.java b/src/com/stevesoft/pat/SubMark.java index 245fa6c..49c2330 100755 --- a/src/com/stevesoft/pat/SubMark.java +++ b/src/com/stevesoft/pat/SubMark.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/TransPat.java b/src/com/stevesoft/pat/TransPat.java index b9a0989..6ac7eb9 100755 --- a/src/com/stevesoft/pat/TransPat.java +++ b/src/com/stevesoft/pat/TransPat.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Transformer.java b/src/com/stevesoft/pat/Transformer.java index 901a92d..c914e99 100755 --- a/src/com/stevesoft/pat/Transformer.java +++ b/src/com/stevesoft/pat/Transformer.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/UniValidator.java b/src/com/stevesoft/pat/UniValidator.java index 31ae272..bcb716e 100755 --- a/src/com/stevesoft/pat/UniValidator.java +++ b/src/com/stevesoft/pat/UniValidator.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/Validator.java b/src/com/stevesoft/pat/Validator.java index dbedca5..0e17efc 100755 --- a/src/com/stevesoft/pat/Validator.java +++ b/src/com/stevesoft/pat/Validator.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/WantMoreTextReplaceRule.java b/src/com/stevesoft/pat/WantMoreTextReplaceRule.java index 6c0ddeb..1642db2 100755 --- a/src/com/stevesoft/pat/WantMoreTextReplaceRule.java +++ b/src/com/stevesoft/pat/WantMoreTextReplaceRule.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/lookAhead.java b/src/com/stevesoft/pat/lookAhead.java index 5f2a1d0..87d6aca 100755 --- a/src/com/stevesoft/pat/lookAhead.java +++ b/src/com/stevesoft/pat/lookAhead.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/oneChar.java b/src/com/stevesoft/pat/oneChar.java index b13c64d..23d4daa 100755 --- a/src/com/stevesoft/pat/oneChar.java +++ b/src/com/stevesoft/pat/oneChar.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/parsePerl.java b/src/com/stevesoft/pat/parsePerl.java index 0d1f14e..efd7e84 100755 --- a/src/com/stevesoft/pat/parsePerl.java +++ b/src/com/stevesoft/pat/parsePerl.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/patInf.java b/src/com/stevesoft/pat/patInf.java index cbdbf9e..6f9eb75 100755 --- a/src/com/stevesoft/pat/patInf.java +++ b/src/com/stevesoft/pat/patInf.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/patInt.java b/src/com/stevesoft/pat/patInt.java index df0d028..f5249b2 100755 --- a/src/com/stevesoft/pat/patInt.java +++ b/src/com/stevesoft/pat/patInt.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/CharArrayBufferWrap.java b/src/com/stevesoft/pat/wrap/CharArrayBufferWrap.java index 2735f12..16e284c 100755 --- a/src/com/stevesoft/pat/wrap/CharArrayBufferWrap.java +++ b/src/com/stevesoft/pat/wrap/CharArrayBufferWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/CharArrayWrap.java b/src/com/stevesoft/pat/wrap/CharArrayWrap.java index 5fa0fb0..3bb7e4d 100755 --- a/src/com/stevesoft/pat/wrap/CharArrayWrap.java +++ b/src/com/stevesoft/pat/wrap/CharArrayWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/RandomAccessFileWrap.java b/src/com/stevesoft/pat/wrap/RandomAccessFileWrap.java index 66a1014..880fc18 100755 --- a/src/com/stevesoft/pat/wrap/RandomAccessFileWrap.java +++ b/src/com/stevesoft/pat/wrap/RandomAccessFileWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/StringBufferWrap.java b/src/com/stevesoft/pat/wrap/StringBufferWrap.java index 29ec042..efac926 100755 --- a/src/com/stevesoft/pat/wrap/StringBufferWrap.java +++ b/src/com/stevesoft/pat/wrap/StringBufferWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/StringWrap.java b/src/com/stevesoft/pat/wrap/StringWrap.java index 8396dd9..1367279 100755 --- a/src/com/stevesoft/pat/wrap/StringWrap.java +++ b/src/com/stevesoft/pat/wrap/StringWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/com/stevesoft/pat/wrap/WriterWrap.java b/src/com/stevesoft/pat/wrap/WriterWrap.java index 189b0f2..a4c82e1 100755 --- a/src/com/stevesoft/pat/wrap/WriterWrap.java +++ b/src/com/stevesoft/pat/wrap/WriterWrap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This software is now distributed according to // the Lesser Gnu Public License. Please see diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimUtils.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimUtils.java index 1d57a31..45ed6d5 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimUtils.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimUtils.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraChain.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraChain.java index 9a29a99..28e0390 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraChain.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraChain.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2015 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraManager.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraManager.java index 85ae718..8c19321 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraManager.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraManager.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraModel.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraModel.java index d2f4b11..54eb764 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraModel.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraModel.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraResidue.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraResidue.java index 0045e97..b009160 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraResidue.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraResidue.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2015 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraStructuralObject.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraStructuralObject.java index 64568a7..825b60b 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraStructuralObject.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraStructuralObject.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2015 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraTreeModel.java b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraTreeModel.java index 9ecc6a7..2e27ac0 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraTreeModel.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/ChimeraTreeModel.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2015 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/StructureManager.java b/src/ext/edu/ucsf/rbvi/strucviz2/StructureManager.java index effe556..5b87026 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/StructureManager.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/StructureManager.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/StructureSettings.java b/src/ext/edu/ucsf/rbvi/strucviz2/StructureSettings.java index 77c1883..94d2988 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/StructureSettings.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/StructureSettings.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/ext/edu/ucsf/rbvi/strucviz2/port/ListenerThreads.java b/src/ext/edu/ucsf/rbvi/strucviz2/port/ListenerThreads.java index 379097c..a69072a 100644 --- a/src/ext/edu/ucsf/rbvi/strucviz2/port/ListenerThreads.java +++ b/src/ext/edu/ucsf/rbvi/strucviz2/port/ListenerThreads.java @@ -1,6 +1,6 @@ /* vim: set ts=2: */ /** - * Copyright (c) 2006 The Regents of the University of California. + * Copyright (c) 2006, 2016 The Regents of the University of California. * All rights reserved. * * Redistribution and use in source and binary forms, with or without diff --git a/src/jalview/binding/Alignment.java b/src/jalview/binding/Alignment.java index 0116b44..7201e6b 100644 --- a/src/jalview/binding/Alignment.java +++ b/src/jalview/binding/Alignment.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Annotation.java b/src/jalview/binding/Annotation.java index 2c9414b..079c49f 100644 --- a/src/jalview/binding/Annotation.java +++ b/src/jalview/binding/Annotation.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/AnnotationElement.java b/src/jalview/binding/AnnotationElement.java index 505d91e..f567403 100644 --- a/src/jalview/binding/AnnotationElement.java +++ b/src/jalview/binding/AnnotationElement.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Colour.java b/src/jalview/binding/Colour.java index 25cf9bf..094ae64 100644 --- a/src/jalview/binding/Colour.java +++ b/src/jalview/binding/Colour.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Feature.java b/src/jalview/binding/Feature.java index d72b29c..f075c67 100644 --- a/src/jalview/binding/Feature.java +++ b/src/jalview/binding/Feature.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/FeatureSettings.java b/src/jalview/binding/FeatureSettings.java index 321536d..0fdc829 100644 --- a/src/jalview/binding/FeatureSettings.java +++ b/src/jalview/binding/FeatureSettings.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Features.java b/src/jalview/binding/Features.java index bf283df..957aec6 100644 --- a/src/jalview/binding/Features.java +++ b/src/jalview/binding/Features.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/JGroup.java b/src/jalview/binding/JGroup.java index 555c2fd..2996478 100644 --- a/src/jalview/binding/JGroup.java +++ b/src/jalview/binding/JGroup.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/JSeq.java b/src/jalview/binding/JSeq.java index 49334e1..6893fc3 100644 --- a/src/jalview/binding/JSeq.java +++ b/src/jalview/binding/JSeq.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/JalviewModel.java b/src/jalview/binding/JalviewModel.java index 28645e0..af23b24 100644 --- a/src/jalview/binding/JalviewModel.java +++ b/src/jalview/binding/JalviewModel.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/JalviewModelSequence.java b/src/jalview/binding/JalviewModelSequence.java index 9020ce2..68b7512 100644 --- a/src/jalview/binding/JalviewModelSequence.java +++ b/src/jalview/binding/JalviewModelSequence.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/JalviewUserColours.java b/src/jalview/binding/JalviewUserColours.java index 6709487..671a1cc 100644 --- a/src/jalview/binding/JalviewUserColours.java +++ b/src/jalview/binding/JalviewUserColours.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Pdbentry.java b/src/jalview/binding/Pdbentry.java index 77bb446..4da0035 100644 --- a/src/jalview/binding/Pdbentry.java +++ b/src/jalview/binding/Pdbentry.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/PdbentryItem.java b/src/jalview/binding/PdbentryItem.java index 30a0512..cc87eb8 100644 --- a/src/jalview/binding/PdbentryItem.java +++ b/src/jalview/binding/PdbentryItem.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Pdbids.java b/src/jalview/binding/Pdbids.java index 79cae6c..e8b26f8 100644 --- a/src/jalview/binding/Pdbids.java +++ b/src/jalview/binding/Pdbids.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Property.java b/src/jalview/binding/Property.java index 5823fed..f39ea14 100644 --- a/src/jalview/binding/Property.java +++ b/src/jalview/binding/Property.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Sequence.java b/src/jalview/binding/Sequence.java index 845f224..bcdd574 100644 --- a/src/jalview/binding/Sequence.java +++ b/src/jalview/binding/Sequence.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/SequenceSet.java b/src/jalview/binding/SequenceSet.java index 3d81bae..acf9947 100644 --- a/src/jalview/binding/SequenceSet.java +++ b/src/jalview/binding/SequenceSet.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/SequenceType.java b/src/jalview/binding/SequenceType.java index 7f10bca..3855336 100644 --- a/src/jalview/binding/SequenceType.java +++ b/src/jalview/binding/SequenceType.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Setting.java b/src/jalview/binding/Setting.java index d098303..8c534a2 100644 --- a/src/jalview/binding/Setting.java +++ b/src/jalview/binding/Setting.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Tree.java b/src/jalview/binding/Tree.java index 7005c93..4539ad3 100644 --- a/src/jalview/binding/Tree.java +++ b/src/jalview/binding/Tree.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/UserColourScheme.java b/src/jalview/binding/UserColourScheme.java index e1a1a2f..ffb668d 100644 --- a/src/jalview/binding/UserColourScheme.java +++ b/src/jalview/binding/UserColourScheme.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/UserColours.java b/src/jalview/binding/UserColours.java index 9dbcc9e..71e1aef 100644 --- a/src/jalview/binding/UserColours.java +++ b/src/jalview/binding/UserColours.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/VAMSAS.java b/src/jalview/binding/VAMSAS.java index b5a32da..dc4837c 100644 --- a/src/jalview/binding/VAMSAS.java +++ b/src/jalview/binding/VAMSAS.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/VamsasModel.java b/src/jalview/binding/VamsasModel.java index d3c90cf..3d52b40 100644 --- a/src/jalview/binding/VamsasModel.java +++ b/src/jalview/binding/VamsasModel.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/binding/Viewport.java b/src/jalview/binding/Viewport.java index 183e048..1adaaed 100644 --- a/src/jalview/binding/Viewport.java +++ b/src/jalview/binding/Viewport.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/datamodel/ContiguousI.java b/src/jalview/datamodel/ContiguousI.java index f2ae4b7..07a5cb5 100644 --- a/src/jalview/datamodel/ContiguousI.java +++ b/src/jalview/datamodel/ContiguousI.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel; public interface ContiguousI diff --git a/src/jalview/datamodel/Range.java b/src/jalview/datamodel/Range.java index 7886713..fa43199 100644 --- a/src/jalview/datamodel/Range.java +++ b/src/jalview/datamodel/Range.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel; /** diff --git a/src/jalview/datamodel/SequenceCursor.java b/src/jalview/datamodel/SequenceCursor.java index b5929bf..70188d9 100644 --- a/src/jalview/datamodel/SequenceCursor.java +++ b/src/jalview/datamodel/SequenceCursor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel; /** diff --git a/src/jalview/datamodel/features/FeatureLocationI.java b/src/jalview/datamodel/features/FeatureLocationI.java index e651c13..0b33b61 100644 --- a/src/jalview/datamodel/features/FeatureLocationI.java +++ b/src/jalview/datamodel/features/FeatureLocationI.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/FeatureStore.java b/src/jalview/datamodel/features/FeatureStore.java index 51bee57..e32345d 100644 --- a/src/jalview/datamodel/features/FeatureStore.java +++ b/src/jalview/datamodel/features/FeatureStore.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/NCList.java b/src/jalview/datamodel/features/NCList.java index b8160d3..ebc1908 100644 --- a/src/jalview/datamodel/features/NCList.java +++ b/src/jalview/datamodel/features/NCList.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/NCNode.java b/src/jalview/datamodel/features/NCNode.java index 007f3b1..55c1571 100644 --- a/src/jalview/datamodel/features/NCNode.java +++ b/src/jalview/datamodel/features/NCNode.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/RangeComparator.java b/src/jalview/datamodel/features/RangeComparator.java index 26ffee1..8a27136 100644 --- a/src/jalview/datamodel/features/RangeComparator.java +++ b/src/jalview/datamodel/features/RangeComparator.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/SequenceFeatures.java b/src/jalview/datamodel/features/SequenceFeatures.java index 8d5ba58..67085ef 100644 --- a/src/jalview/datamodel/features/SequenceFeatures.java +++ b/src/jalview/datamodel/features/SequenceFeatures.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.ContiguousI; diff --git a/src/jalview/datamodel/features/SequenceFeaturesI.java b/src/jalview/datamodel/features/SequenceFeaturesI.java index 58beca2..befc292 100644 --- a/src/jalview/datamodel/features/SequenceFeaturesI.java +++ b/src/jalview/datamodel/features/SequenceFeaturesI.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.features; import jalview.datamodel.SequenceFeature; diff --git a/src/jalview/datamodel/xdb/uniprot/UniprotFeature.java b/src/jalview/datamodel/xdb/uniprot/UniprotFeature.java index 4a359ff..b58dc29 100644 --- a/src/jalview/datamodel/xdb/uniprot/UniprotFeature.java +++ b/src/jalview/datamodel/xdb/uniprot/UniprotFeature.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.datamodel.xdb.uniprot; /** diff --git a/src/jalview/ext/android/ContainerHelpers.java b/src/jalview/ext/android/ContainerHelpers.java index 26bd142..2acfa0f 100644 --- a/src/jalview/ext/android/ContainerHelpers.java +++ b/src/jalview/ext/android/ContainerHelpers.java @@ -1,7 +1,7 @@ package jalview.ext.android; /* - * Copyright (C) 2013 The Android Open Source Project + * Copyright (C) 2013, 2017 The Android Open Source Project * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/src/jalview/ext/android/SparseDoubleArray.java b/src/jalview/ext/android/SparseDoubleArray.java index eaf059c..79c3849 100644 --- a/src/jalview/ext/android/SparseDoubleArray.java +++ b/src/jalview/ext/android/SparseDoubleArray.java @@ -1,7 +1,7 @@ package jalview.ext.android; /* - * Copyright (C) 2006 The Android Open Source Project + * Copyright (C) 2006, 2017 The Android Open Source Project * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/src/jalview/ext/android/SparseIntArray.java b/src/jalview/ext/android/SparseIntArray.java index fcd4f1f..58d75db 100644 --- a/src/jalview/ext/android/SparseIntArray.java +++ b/src/jalview/ext/android/SparseIntArray.java @@ -1,7 +1,7 @@ package jalview.ext.android; /* - * Copyright (C) 2006 The Android Open Source Project + * Copyright (C) 2006, 2016 The Android Open Source Project * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/src/jalview/ext/android/SparseShortArray.java b/src/jalview/ext/android/SparseShortArray.java index f961f55..cccf131 100644 --- a/src/jalview/ext/android/SparseShortArray.java +++ b/src/jalview/ext/android/SparseShortArray.java @@ -1,7 +1,7 @@ package jalview.ext.android; /* - * Copyright (C) 2006 The Android Open Source Project + * Copyright (C) 2006, 2016 The Android Open Source Project * * Licensed under the Apache License, Version 2.0 (the "License"); * you may not use this file except in compliance with the License. diff --git a/src/jalview/ext/archaeopteryx/AlignmentToTreeViewerI.java b/src/jalview/ext/archaeopteryx/AlignmentToTreeViewerI.java index 85ee750..4a667d7 100644 --- a/src/jalview/ext/archaeopteryx/AlignmentToTreeViewerI.java +++ b/src/jalview/ext/archaeopteryx/AlignmentToTreeViewerI.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.ext.archaeopteryx; diff --git a/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java b/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java index 5089112..8fdf83a 100644 --- a/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java +++ b/src/jalview/ext/archaeopteryx/ArchaeopteryxInit.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.ext.archaeopteryx; import jalview.analysis.TreeModel; diff --git a/src/jalview/ext/archaeopteryx/TreeViewerBindingI.java b/src/jalview/ext/archaeopteryx/TreeViewerBindingI.java index 4bb0ff2..50307fd 100644 --- a/src/jalview/ext/archaeopteryx/TreeViewerBindingI.java +++ b/src/jalview/ext/archaeopteryx/TreeViewerBindingI.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.ext.archaeopteryx; interface TreeViewerBindingI diff --git a/src/jalview/jbgui/GStructureChooser.java b/src/jalview/jbgui/GStructureChooser.java index 7c4672a..307dd5d 100644 --- a/src/jalview/jbgui/GStructureChooser.java +++ b/src/jalview/jbgui/GStructureChooser.java @@ -1,6 +1,6 @@ /* * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2) - * Copyright (C) 2014 The Jalview Authors + * Copyright (C) 2014, 2017 The Jalview Authors * * This file is part of Jalview. * diff --git a/src/jalview/schemabinding/version2/AlcodMap.java b/src/jalview/schemabinding/version2/AlcodMap.java index e2522a1..e534c38 100644 --- a/src/jalview/schemabinding/version2/AlcodMap.java +++ b/src/jalview/schemabinding/version2/AlcodMap.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Alcodon.java b/src/jalview/schemabinding/version2/Alcodon.java index 3bd1cbb..63ea943 100644 --- a/src/jalview/schemabinding/version2/Alcodon.java +++ b/src/jalview/schemabinding/version2/Alcodon.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/AlcodonFrame.java b/src/jalview/schemabinding/version2/AlcodonFrame.java index 218e07e..d6a8ff2 100644 --- a/src/jalview/schemabinding/version2/AlcodonFrame.java +++ b/src/jalview/schemabinding/version2/AlcodonFrame.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Annotation.java b/src/jalview/schemabinding/version2/Annotation.java index 2fead37..30dfaa1 100644 --- a/src/jalview/schemabinding/version2/Annotation.java +++ b/src/jalview/schemabinding/version2/Annotation.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/AnnotationColourScheme.java b/src/jalview/schemabinding/version2/AnnotationColourScheme.java index 2f76e76..5a12635 100644 --- a/src/jalview/schemabinding/version2/AnnotationColourScheme.java +++ b/src/jalview/schemabinding/version2/AnnotationColourScheme.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/AnnotationColours.java b/src/jalview/schemabinding/version2/AnnotationColours.java index 350ebce..79b5934 100644 --- a/src/jalview/schemabinding/version2/AnnotationColours.java +++ b/src/jalview/schemabinding/version2/AnnotationColours.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/AnnotationElement.java b/src/jalview/schemabinding/version2/AnnotationElement.java index 2a765ea..7953187 100644 --- a/src/jalview/schemabinding/version2/AnnotationElement.java +++ b/src/jalview/schemabinding/version2/AnnotationElement.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/CalcIdParam.java b/src/jalview/schemabinding/version2/CalcIdParam.java index 57d6986..bc0dd8c 100644 --- a/src/jalview/schemabinding/version2/CalcIdParam.java +++ b/src/jalview/schemabinding/version2/CalcIdParam.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Colour.java b/src/jalview/schemabinding/version2/Colour.java index 9d5a916..6cc2d55 100644 --- a/src/jalview/schemabinding/version2/Colour.java +++ b/src/jalview/schemabinding/version2/Colour.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/DBRef.java b/src/jalview/schemabinding/version2/DBRef.java index 85997ff..97bfe0d 100644 --- a/src/jalview/schemabinding/version2/DBRef.java +++ b/src/jalview/schemabinding/version2/DBRef.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Feature.java b/src/jalview/schemabinding/version2/Feature.java index 9e484d5..dfb9791 100644 --- a/src/jalview/schemabinding/version2/Feature.java +++ b/src/jalview/schemabinding/version2/Feature.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/FeatureSettings.java b/src/jalview/schemabinding/version2/FeatureSettings.java index fa75e76..b4f285d 100644 --- a/src/jalview/schemabinding/version2/FeatureSettings.java +++ b/src/jalview/schemabinding/version2/FeatureSettings.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Features.java b/src/jalview/schemabinding/version2/Features.java index 5d17512..f7b7803 100644 --- a/src/jalview/schemabinding/version2/Features.java +++ b/src/jalview/schemabinding/version2/Features.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Group.java b/src/jalview/schemabinding/version2/Group.java index ec1af95..9ec543c 100644 --- a/src/jalview/schemabinding/version2/Group.java +++ b/src/jalview/schemabinding/version2/Group.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/HiddenColumns.java b/src/jalview/schemabinding/version2/HiddenColumns.java index beac4e0..b09a223 100644 --- a/src/jalview/schemabinding/version2/HiddenColumns.java +++ b/src/jalview/schemabinding/version2/HiddenColumns.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/JGroup.java b/src/jalview/schemabinding/version2/JGroup.java index 962569f..e4c209f 100644 --- a/src/jalview/schemabinding/version2/JGroup.java +++ b/src/jalview/schemabinding/version2/JGroup.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/JSeq.java b/src/jalview/schemabinding/version2/JSeq.java index 7c6308e..0ea2f64 100644 --- a/src/jalview/schemabinding/version2/JSeq.java +++ b/src/jalview/schemabinding/version2/JSeq.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/JalviewModel.java b/src/jalview/schemabinding/version2/JalviewModel.java index c13ef64..344dd74 100644 --- a/src/jalview/schemabinding/version2/JalviewModel.java +++ b/src/jalview/schemabinding/version2/JalviewModel.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/JalviewModelSequence.java b/src/jalview/schemabinding/version2/JalviewModelSequence.java index c7c02c5..c3f8182 100644 --- a/src/jalview/schemabinding/version2/JalviewModelSequence.java +++ b/src/jalview/schemabinding/version2/JalviewModelSequence.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/JalviewUserColours.java b/src/jalview/schemabinding/version2/JalviewUserColours.java index 042f092..d06e314 100644 --- a/src/jalview/schemabinding/version2/JalviewUserColours.java +++ b/src/jalview/schemabinding/version2/JalviewUserColours.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/MapListFrom.java b/src/jalview/schemabinding/version2/MapListFrom.java index 67bf1dc..9616a1f 100644 --- a/src/jalview/schemabinding/version2/MapListFrom.java +++ b/src/jalview/schemabinding/version2/MapListFrom.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/MapListTo.java b/src/jalview/schemabinding/version2/MapListTo.java index e59baf8..bf02de6 100644 --- a/src/jalview/schemabinding/version2/MapListTo.java +++ b/src/jalview/schemabinding/version2/MapListTo.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/MapListType.java b/src/jalview/schemabinding/version2/MapListType.java index cfb0752..dfd0a1d 100644 --- a/src/jalview/schemabinding/version2/MapListType.java +++ b/src/jalview/schemabinding/version2/MapListType.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Mapping.java b/src/jalview/schemabinding/version2/Mapping.java index 9d71e1d..a97507d 100644 --- a/src/jalview/schemabinding/version2/Mapping.java +++ b/src/jalview/schemabinding/version2/Mapping.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/MappingChoice.java b/src/jalview/schemabinding/version2/MappingChoice.java index e50efa7..bc8a6f3 100644 --- a/src/jalview/schemabinding/version2/MappingChoice.java +++ b/src/jalview/schemabinding/version2/MappingChoice.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/OtherData.java b/src/jalview/schemabinding/version2/OtherData.java index fb6b276..0a1db7d 100644 --- a/src/jalview/schemabinding/version2/OtherData.java +++ b/src/jalview/schemabinding/version2/OtherData.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Pdbentry.java b/src/jalview/schemabinding/version2/Pdbentry.java index 65de364..8a3f22b 100644 --- a/src/jalview/schemabinding/version2/Pdbentry.java +++ b/src/jalview/schemabinding/version2/Pdbentry.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/PdbentryItem.java b/src/jalview/schemabinding/version2/PdbentryItem.java index 5554b49..49051d2 100644 --- a/src/jalview/schemabinding/version2/PdbentryItem.java +++ b/src/jalview/schemabinding/version2/PdbentryItem.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Pdbids.java b/src/jalview/schemabinding/version2/Pdbids.java index 978df5b..f3c1ef4 100644 --- a/src/jalview/schemabinding/version2/Pdbids.java +++ b/src/jalview/schemabinding/version2/Pdbids.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Property.java b/src/jalview/schemabinding/version2/Property.java index dbf96bf..d9cdd63 100644 --- a/src/jalview/schemabinding/version2/Property.java +++ b/src/jalview/schemabinding/version2/Property.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/RnaViewer.java b/src/jalview/schemabinding/version2/RnaViewer.java index 543d053..ef42e51 100644 --- a/src/jalview/schemabinding/version2/RnaViewer.java +++ b/src/jalview/schemabinding/version2/RnaViewer.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/SecondaryStructure.java b/src/jalview/schemabinding/version2/SecondaryStructure.java index eb88fc4..e9db604 100644 --- a/src/jalview/schemabinding/version2/SecondaryStructure.java +++ b/src/jalview/schemabinding/version2/SecondaryStructure.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Sequence.java b/src/jalview/schemabinding/version2/Sequence.java index 531ca66..6074bed 100644 --- a/src/jalview/schemabinding/version2/Sequence.java +++ b/src/jalview/schemabinding/version2/Sequence.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/SequenceSet.java b/src/jalview/schemabinding/version2/SequenceSet.java index 8be8022..372fe86 100644 --- a/src/jalview/schemabinding/version2/SequenceSet.java +++ b/src/jalview/schemabinding/version2/SequenceSet.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/SequenceSetProperties.java b/src/jalview/schemabinding/version2/SequenceSetProperties.java index 3a7d172..fcf088a 100644 --- a/src/jalview/schemabinding/version2/SequenceSetProperties.java +++ b/src/jalview/schemabinding/version2/SequenceSetProperties.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/SequenceType.java b/src/jalview/schemabinding/version2/SequenceType.java index f213ebb..3b1b75f 100644 --- a/src/jalview/schemabinding/version2/SequenceType.java +++ b/src/jalview/schemabinding/version2/SequenceType.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Setting.java b/src/jalview/schemabinding/version2/Setting.java index c458971..9dcf68f 100644 --- a/src/jalview/schemabinding/version2/Setting.java +++ b/src/jalview/schemabinding/version2/Setting.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/StructureState.java b/src/jalview/schemabinding/version2/StructureState.java index 186e4e6..97637a2 100644 --- a/src/jalview/schemabinding/version2/StructureState.java +++ b/src/jalview/schemabinding/version2/StructureState.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/ThresholdLine.java b/src/jalview/schemabinding/version2/ThresholdLine.java index d70d855..5f8c6b0 100644 --- a/src/jalview/schemabinding/version2/ThresholdLine.java +++ b/src/jalview/schemabinding/version2/ThresholdLine.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Tree.java b/src/jalview/schemabinding/version2/Tree.java index 19b3eb1..a490822 100644 --- a/src/jalview/schemabinding/version2/Tree.java +++ b/src/jalview/schemabinding/version2/Tree.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/UserColourScheme.java b/src/jalview/schemabinding/version2/UserColourScheme.java index e4983bd..bb6eeab 100644 --- a/src/jalview/schemabinding/version2/UserColourScheme.java +++ b/src/jalview/schemabinding/version2/UserColourScheme.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/UserColours.java b/src/jalview/schemabinding/version2/UserColours.java index b02d0cd..9c3d4b2 100644 --- a/src/jalview/schemabinding/version2/UserColours.java +++ b/src/jalview/schemabinding/version2/UserColours.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/VAMSAS.java b/src/jalview/schemabinding/version2/VAMSAS.java index d025824..b41cbb3 100644 --- a/src/jalview/schemabinding/version2/VAMSAS.java +++ b/src/jalview/schemabinding/version2/VAMSAS.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/VamsasModel.java b/src/jalview/schemabinding/version2/VamsasModel.java index d3fe796..1db8440 100644 --- a/src/jalview/schemabinding/version2/VamsasModel.java +++ b/src/jalview/schemabinding/version2/VamsasModel.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/Viewport.java b/src/jalview/schemabinding/version2/Viewport.java index 159f7ae..04fcbb3 100644 --- a/src/jalview/schemabinding/version2/Viewport.java +++ b/src/jalview/schemabinding/version2/Viewport.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/WebServiceParameterSet.java b/src/jalview/schemabinding/version2/WebServiceParameterSet.java index 72d2f82..3dc2124 100644 --- a/src/jalview/schemabinding/version2/WebServiceParameterSet.java +++ b/src/jalview/schemabinding/version2/WebServiceParameterSet.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java index 1447978..9814071 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodMapDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java index c1a0eab..aafcfc6 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodonDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java index 919941e..d811719 100644 --- a/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AlcodonFrameDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationColourSchemeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationColourSchemeDescriptor.java index 804b49e..0ad3071 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationColourSchemeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationColourSchemeDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java index 5739d90..17c9b9a 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationColoursDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java index e2331f4..649c327 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java b/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java index 4416bbf..78aedfc 100644 --- a/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/AnnotationElementDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java b/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java index 6dbea24..bd93afe 100644 --- a/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/CalcIdParamDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java index 8b1ae9e..d93d6a1 100644 --- a/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ColourDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java b/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java index e896d7a..af82d7c 100644 --- a/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/DBRefDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java index 64ed3a5..92771b7 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeatureDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java index 44bc256..22ca537 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeatureSettingsDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java b/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java index 107c06d..dcea8f7 100644 --- a/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/FeaturesDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java b/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java index 7aa6203..ab8e8a5 100644 --- a/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/GroupDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java index a5607b7..9c2e24d 100644 --- a/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/HiddenColumnsDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java index 620432f..56a1256 100644 --- a/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JGroupDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java index 28f23b26..ba44939 100644 --- a/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JSeqDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java index f400c2c..4c2becd 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewModelDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java index e8c4ef4..c4b159d 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewModelSequenceDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java index d65de13..bdf161d 100644 --- a/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/JalviewUserColoursDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java index 529f477..424125f 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListFromDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java index bed082a..3e70435 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListToDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java index fc24a78..fd65a9a 100644 --- a/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MapListTypeDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java index ae460af..16d1096 100644 --- a/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MappingChoiceDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java b/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java index fab0d2e..19c5983 100644 --- a/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/MappingDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java b/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java index f582311..492028b 100644 --- a/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/OtherDataDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java index f19703a..471571d 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbentryDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java index 4e2fc87..2c52e06 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbentryItemDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java index 584607d..4c3abf7 100644 --- a/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PdbidsDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java b/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java index 60d09b4..73d836e 100644 --- a/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/PropertyDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/RnaViewerDescriptor.java b/src/jalview/schemabinding/version2/descriptors/RnaViewerDescriptor.java index 3344050..808ba65 100644 --- a/src/jalview/schemabinding/version2/descriptors/RnaViewerDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/RnaViewerDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SecondaryStructureDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SecondaryStructureDescriptor.java index c1e46b8..afbc162 100644 --- a/src/jalview/schemabinding/version2/descriptors/SecondaryStructureDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SecondaryStructureDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java index 2303e1b..60a541b 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java index cd74c6e..8d95d6b 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceSetDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java index 409abdd..3bd5e22 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceSetPropertiesDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java index 3ee3fa9..9907a1d 100644 --- a/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SequenceTypeDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java b/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java index 4703f46..5c0cf4a 100644 --- a/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/SettingDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java b/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java index 16d091b..926923e 100644 --- a/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/StructureStateDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java index 8a863d8..f4389e1 100644 --- a/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ThresholdLineDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java index 8e675f3..455319f 100644 --- a/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/TreeDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java b/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java index df9ab07..303c0d3 100644 --- a/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/UserColourSchemeDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java b/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java index 53dfde4..8c746c6 100644 --- a/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/UserColoursDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java b/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java index e3470ee..45ac788 100644 --- a/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/VAMSASDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java b/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java index 3e26611..7a91577 100644 --- a/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/VamsasModelDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java b/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java index 1df3988..4de5162 100644 --- a/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/ViewportDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java b/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java index beb5b50..43b600b 100644 --- a/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java +++ b/src/jalview/schemabinding/version2/descriptors/WebServiceParameterSetDescriptor.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ /* * This class was automatically generated with * Castor 1.1, using an XML diff --git a/src/jalview/util/IntRangeComparator.java b/src/jalview/util/IntRangeComparator.java index cb32a0e..40d066f 100644 --- a/src/jalview/util/IntRangeComparator.java +++ b/src/jalview/util/IntRangeComparator.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ package jalview.util; import java.util.Comparator; diff --git a/src/jalview/xml/binding/sifts/Alignment.java b/src/jalview/xml/binding/sifts/Alignment.java index 650ea19..54232b0 100644 --- a/src/jalview/xml/binding/sifts/Alignment.java +++ b/src/jalview/xml/binding/sifts/Alignment.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.8-b130911.1802 // See http://java.sun.com/xml/jaxb diff --git a/src/jalview/xml/binding/sifts/EntityType.java b/src/jalview/xml/binding/sifts/EntityType.java index f74da5a..610b75d 100644 --- a/src/jalview/xml/binding/sifts/EntityType.java +++ b/src/jalview/xml/binding/sifts/EntityType.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.8-b130911.1802 // See http://java.sun.com/xml/jaxb diff --git a/src/jalview/xml/binding/sifts/Entry.java b/src/jalview/xml/binding/sifts/Entry.java index 7429059..32e3cff 100644 --- a/src/jalview/xml/binding/sifts/Entry.java +++ b/src/jalview/xml/binding/sifts/Entry.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.8-b130911.1802 // See http://java.sun.com/xml/jaxb diff --git a/src/jalview/xml/binding/sifts/ObjectFactory.java b/src/jalview/xml/binding/sifts/ObjectFactory.java index 7b74e13..0c0ffcf 100644 --- a/src/jalview/xml/binding/sifts/ObjectFactory.java +++ b/src/jalview/xml/binding/sifts/ObjectFactory.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.8-b130911.1802 // See http://java.sun.com/xml/jaxb diff --git a/src/jalview/xml/binding/sifts/package-info.java b/src/jalview/xml/binding/sifts/package-info.java index aac24fe..1cd5fcd 100644 --- a/src/jalview/xml/binding/sifts/package-info.java +++ b/src/jalview/xml/binding/sifts/package-info.java @@ -1,3 +1,23 @@ +/******************************************************************************* + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $(date) The Jalview Authors + * + * This file is part of Jalview. + * + * Jalview is free software: you can redistribute it and/or + * modify it under the terms of the GNU General Public License + * as published by the Free Software Foundation, either version 3 + * of the License, or (at your option) any later version. + * + * Jalview is distributed in the hope that it will be useful, but + * WITHOUT ANY WARRANTY; without even the implied warranty + * of MERCHANTABILITY or FITNESS FOR A PARTICULAR + * PURPOSE. See the GNU General Public License for more details. + * + * You should have received a copy of the GNU General Public License + * along with Jalview. If not, see . + * The Jalview Authors are detailed in the 'AUTHORS' file. + *******************************************************************************/ // // This file was generated by the JavaTM Architecture for XML Binding(JAXB) Reference Implementation, v2.2.8-b130911.1802 // See http://java.sun.com/xml/jaxb -- 1.7.10.2