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Command line arguments for CDR3 matching implemented

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efischer
2021-11-20 10:43:57 -06:00
parent 981e24011d
commit 32593308df
3 changed files with 4 additions and 3 deletions
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5
.idea/artifacts/TCellSim_jar.xml generated
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@@ -6,10 +6,11 @@
<element id="file-copy" path="$PROJECT_DIR$/src/main/java/META-INF/MANIFEST.MF" />
</element>
<element id="module-output" name="TCellSim" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-csv/1.9.0/commons-csv-1.9.0.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jetbrains/annotations/23.0.0/annotations-23.0.0.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jgrapht/jgrapht-core/1.5.1/jgrapht-core-1.5.1.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jheaps/jheaps/0.13/jheaps-0.13.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-cli/commons-cli/1.5.0/commons-cli-1.5.0.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-csv/1.9.0/commons-csv-1.9.0.jar" path-in-jar="/" />
<element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jetbrains/annotations/23.0.0/annotations-23.0.0.jar" path-in-jar="/" />
</root>
</artifact>
</component>

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out/artifacts/TCellSim_jar/TCellSim.jar
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2
src/main/java/UserInterface.java
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@@ -237,7 +237,7 @@ public class UserInterface {
List<Integer[]> cells = cellReader.getCells();
MatchingResult results = Simulator.matchCDR3s(cells, plate, lowThreshold, highThreshold, false);
//result writer
MatchingFileWriter writer = new MatchingFileWriter(null, results);
MatchingFileWriter writer = new MatchingFileWriter("", results);
writer.writeErrorRateToTerminal();
}
}