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josemduartejosemduarte
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Making demos compile but not package into jar #387 
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13 files changed

+113
-46
lines changed

13 files changed

+113
-46
lines changed

‎biojava-aa-prop/pom.xml‎

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@@ -19,15 +19,17 @@
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**.java</exclude>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-assembly-plugin</artifactId>

‎biojava-alignment/pom.xml‎

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@@ -23,17 +23,18 @@
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</properties>
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<build>
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<plugins>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<configuration>
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<source>${jdk.version}</source>
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<target>${jdk.version}</target>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**.java</exclude>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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</configuration>
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</plugin>
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</plugins>
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</build>
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<dependencies>

‎biojava-core/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -24,15 +24,18 @@
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<build>
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<plugins>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<configuration>
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<source>${jdk.version}</source>
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<target>${jdk.version}</target>
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<debug>true</debug>
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</configuration>
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</plugin>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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</plugins>
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</build>
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<dependencies>

‎biojava-genome/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -33,6 +33,18 @@
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<url>http://maven.apache.org</url>
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>

‎biojava-modfinder/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -56,12 +56,22 @@
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</dependencies>
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<configuration>
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<source>${jdk.version}</source>
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<target>${jdk.version}</target>
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<debug>true</debug>
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</configuration>
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</plugin>

‎biojava-ontology/pom.xml‎

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@@ -55,12 +55,14 @@
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</properties>
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**.java</exclude>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>

‎biojava-phylo/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -21,16 +21,20 @@
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<build>
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<plugins>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<configuration>
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<source>${jdk.version}</source>
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<target>${jdk.version}</target>
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</configuration>
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</plugin>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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</plugins>
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</build>
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<dependencies>
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<dependency>
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<groupId>junit</groupId>

‎biojava-protein-disorder/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -22,18 +22,19 @@
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<configuration>
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<source>${jdk.version}</source>
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<target>${jdk.version}</target>
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<debug>true</debug>
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<excludes>
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<exclude>demo/**.java</exclude>
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</excludes>
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</configuration>
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</plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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<descriptorRefs>
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<descriptorRef>bin</descriptorRef>
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</descriptorRefs>
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</archive>
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</configuration>
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</plugin>
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</plugins>
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</build>
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<dependencies>

‎biojava-sequencing/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -15,6 +15,23 @@
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<distribution>repo</distribution>
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</license>
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</licenses>
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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</plugins>
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</build>
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<dependencies>
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<dependency>
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<groupId>com.google.guava</groupId>

‎biojava-structure-gui/pom.xml‎

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Original file line numberDiff line numberDiff line change
@@ -93,15 +93,18 @@
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</properties>
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<build>
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<plugins>
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<!-- Excluding demo package is required for avoiding namespace clashes (demo package is in all modules) for signing the jar. See issue #387 -->
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-compiler-plugin</artifactId>
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<artifactId>maven-jar-plugin</artifactId>
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<configuration>
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<excludes>
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<exclude>demo/**.java</exclude>
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<exclude>demo/**</exclude>
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</excludes>
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</configuration>
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</plugin>
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</plugins>
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</build>
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