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josemduarteandreasprlic
josemduarte
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andreasprlic
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Updating to biojava 4
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‎_wikis/BioJava:CookBook3:MSAProfiler.md‎

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@@ -12,16 +12,16 @@ package org.biojava3.alignment;
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import java.io.File; import java.io.PrintStream; import
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java.util.ArrayList; import java.util.List;
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import org.biojava3.alignment.Alignments.PairwiseSequenceScorerType;
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import org.biojava3.alignment.Alignments.ProfileProfileAlignerType;
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import org.biojava3.alignment.template.GapPenalty; import
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org.biojava3.alignment.template.PairwiseSequenceScorer; import
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org.biojava3.alignment.template.Profile; import
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org.biojava3.alignment.template.SubstitutionMatrix; import
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org.biojava3.core.sequence.ProteinSequence; import
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org.biojava3.core.sequence.compound.AminoAcidCompound; import
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org.biojava3.core.sequence.io.FastaReaderHelper; import
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org.biojava3.core.util.ConcurrencyTools;
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import org.biojava.nbio.alignment.Alignments.PairwiseSequenceScorerType;
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import org.biojava.nbio.alignment.Alignments.ProfileProfileAlignerType;
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import org.biojava.nbio.alignment.template.GapPenalty; import
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org.biojava.nbio.alignment.template.PairwiseSequenceScorer; import
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org.biojava.nbio.alignment.template.Profile; import
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org.biojava.nbio.alignment.template.SubstitutionMatrix; import
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org.biojava.nbio.core.sequence.ProteinSequence; import
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org.biojava.nbio.core.sequence.compound.AminoAcidCompound; import
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org.biojava.nbio.core.sequence.io.FastaReaderHelper; import
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org.biojava.nbio.core.util.ConcurrencyTools;
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public class CookbookMSAProfiler {
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‎_wikis/BioJava:CookBook3:MSAProfiler.mediawiki‎

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@@ -9,16 +9,16 @@ import java.io.PrintStream;
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import java.util.ArrayList;
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import java.util.List;
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import org.biojava3.alignment.Alignments.PairwiseSequenceScorerType;
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import org.biojava3.alignment.Alignments.ProfileProfileAlignerType;
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import org.biojava3.alignment.template.GapPenalty;
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import org.biojava3.alignment.template.PairwiseSequenceScorer;
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import org.biojava3.alignment.template.Profile;
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import org.biojava3.alignment.template.SubstitutionMatrix;
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import org.biojava3.core.sequence.ProteinSequence;
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import org.biojava3.core.sequence.compound.AminoAcidCompound;
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import org.biojava3.core.sequence.io.FastaReaderHelper;
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import org.biojava3.core.util.ConcurrencyTools;
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import org.biojava.nbio.alignment.Alignments.PairwiseSequenceScorerType;
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import org.biojava.nbio.alignment.Alignments.ProfileProfileAlignerType;
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import org.biojava.nbio.alignment.template.GapPenalty;
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import org.biojava.nbio.alignment.template.PairwiseSequenceScorer;
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import org.biojava.nbio.alignment.template.Profile;
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import org.biojava.nbio.alignment.template.SubstitutionMatrix;
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import org.biojava.nbio.core.sequence.ProteinSequence;
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import org.biojava.nbio.core.sequence.compound.AminoAcidCompound;
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import org.biojava.nbio.core.sequence.io.FastaReaderHelper;
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import org.biojava.nbio.core.util.ConcurrencyTools;
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public class CookbookMSAProfiler {
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