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Merge alignment and phylo modules biojava#413 
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‎biojava-alignment/pom.xml‎

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<groupId>org.apache.logging.log4j</groupId>
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<artifactId>log4j-core</artifactId>
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</dependency>
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<dependency>
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<groupId>org.biojava</groupId>
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<artifactId>biojava-phylo</artifactId>
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<version>5.0.0-SNAPSHOT</version>
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</dependency>
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</dependencies>
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</project>

biojava-phylo/src/main/java/demo/DemoDistanceTree.java renamed to biojava-alignment/src/main/java/demo/DemoDistanceTree.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/Comparison.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/Comparison.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/DistanceMatrixCalculator.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/DistanceMatrixCalculator.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/DistanceTreeEvaluator.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/DistanceTreeEvaluator.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/ForesterWrapper.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/ForesterWrapper.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/TreeConstructor.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/TreeConstructor.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/TreeConstructorType.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/TreeConstructorType.java

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biojava-phylo/src/main/java/org/biojava/nbio/phylo/TreeType.java renamed to biojava-alignment/src/main/java/org/biojava/nbio/phylo/TreeType.java

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biojava-phylo/src/main/resources/PF00104_small.fasta renamed to biojava-alignment/src/main/resources/PF00104_small.fasta

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