From bcf5a4c74952809a7d262d12354d1a082fc9606a Mon Sep 17 00:00:00 2001
From: eugenefischer <66030419+eugenefischer@users.noreply.github.com>
Date: Thu, 10 Apr 2025 11:05:08 -0500
Subject: [PATCH] change artifact details

---
 .idea/artifacts/BiGpairSEQ_Sim_jar.xml | 28 +++++-----
 .idea/compiler.xml                     |  2 +-
 pom.xml                                | 77 +++++++++++---------------
 3 files changed, 47 insertions(+), 60 deletions(-)

diff --git a/.idea/artifacts/BiGpairSEQ_Sim_jar.xml b/.idea/artifacts/BiGpairSEQ_Sim_jar.xml
index 0656284..826de5c 100644
--- a/.idea/artifacts/BiGpairSEQ_Sim_jar.xml
+++ b/.idea/artifacts/BiGpairSEQ_Sim_jar.xml
@@ -1,27 +1,27 @@
 <component name="ArtifactManager">
   <artifact type="jar" name="BiGpairSEQ_Sim:jar">
     <output-path>$PROJECT_DIR$/out/artifacts/BiGpairSEQ_Sim_jar</output-path>
-    <root id="archive" name="TCellSim.jar">
+    <root id="archive" name="BiGpairSEQ_Sim.jar">
       <element id="directory" name="META-INF">
         <element id="file-copy" path="$PROJECT_DIR$/META-INF/MANIFEST.MF" />
       </element>
-      <element id="module-output" name="TCellSim" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-client-api/1.6/commons-rng-client-api-1.6.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-csv/1.14.0/commons-csv-1.14.0.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-io/commons-io/2.18.0/commons-io-2.18.0.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-codec/commons-codec/1.18.0/commons-codec-1.18.0.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-sampling/1.6/commons-rng-sampling-1.6.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jgrapht/jgrapht-io/1.5.2/jgrapht-io-1.5.2.jar" path-in-jar="/" />
+      <element id="module-output" name="BiGpairSEQ_Sim" />
       <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jgrapht/jgrapht-core/1.5.2/jgrapht-core-1.5.2.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jheaps/jheaps/0.14/jheaps-0.14.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apfloat/apfloat/1.10.1/apfloat-1.10.1.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/antlr/antlr4-runtime/4.12.0/antlr4-runtime-4.12.0.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-text/1.10.0/commons-text-1.10.0.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-lang3/3.12.0/commons-lang3-3.12.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-sampling/1.6/commons-rng-sampling-1.6.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-csv/1.14.0/commons-csv-1.14.0.jar" path-in-jar="/" />
       <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jetbrains/annotations/26.0.2/annotations-26.0.2.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jgrapht/jgrapht-io/1.5.2/jgrapht-io-1.5.2.jar" path-in-jar="/" />
       <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-simple/1.6/commons-rng-simple-1.6.jar" path-in-jar="/" />
-      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-cli/commons-cli/1.9.0/commons-cli-1.9.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-io/commons-io/2.18.0/commons-io-2.18.0.jar" path-in-jar="/" />
       <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-core/1.6/commons-rng-core-1.6.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-codec/commons-codec/1.18.0/commons-codec-1.18.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-rng-client-api/1.6/commons-rng-client-api-1.6.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/commons-cli/commons-cli/1.9.0/commons-cli-1.9.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-lang3/3.12.0/commons-lang3-3.12.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/antlr/antlr4-runtime/4.12.0/antlr4-runtime-4.12.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apfloat/apfloat/1.10.1/apfloat-1.10.1.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/apache/commons/commons-text/1.10.0/commons-text-1.10.0.jar" path-in-jar="/" />
+      <element id="extracted-dir" path="$MAVEN_REPOSITORY$/org/jheaps/jheaps/0.14/jheaps-0.14.jar" path-in-jar="/" />
     </root>
   </artifact>
 </component>
\ No newline at end of file
diff --git a/.idea/compiler.xml b/.idea/compiler.xml
index 97a0c02..6161df2 100644
--- a/.idea/compiler.xml
+++ b/.idea/compiler.xml
@@ -6,8 +6,8 @@
         <sourceOutputDir name="target/generated-sources/annotations" />
         <sourceTestOutputDir name="target/generated-test-sources/test-annotations" />
         <outputRelativeToContentRoot value="true" />
-        <module name="TCellSim" />
         <module name="BigPairSEQ" />
+        <module name="BiGpairSEQ_Sim" />
       </profile>
     </annotationProcessing>
   </component>
diff --git a/pom.xml b/pom.xml
index b429017..bedd495 100644
--- a/pom.xml
+++ b/pom.xml
@@ -5,7 +5,7 @@
     <modelVersion>4.0.0</modelVersion>
 
     <groupId>org.example</groupId>
-    <artifactId>TCellSim</artifactId>
+    <artifactId>BiGpairSEQ_Sim</artifactId>
     <version>1.0-SNAPSHOT</version>
     <build>
         <plugins>
@@ -26,60 +26,47 @@
             <version>RELEASE</version>
             <scope>compile</scope>
         </dependency>
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.apache.commons/commons-rng-simple &ndash;&gt;-->
+        <!-- https://mvnrepository.com/artifact/org.apache.commons/commons-rng-simple -->
         <dependency>
             <groupId>org.apache.commons</groupId>
             <artifactId>commons-rng-simple</artifactId>
             <version>1.6</version>
         </dependency>
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.apache.commons/commons-rng-core &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.apache.commons</groupId>-->
-<!--            <artifactId>commons-rng-core</artifactId>-->
-<!--            <version>1.6</version>-->
-<!--        </dependency>-->
-        <!-- https://mvnrepository.com/artifact/org.apache.commons/commons-rng-sampling -->
         <dependency>
             <groupId>org.apache.commons</groupId>
             <artifactId>commons-rng-sampling</artifactId>
             <version>1.6</version>
         </dependency>
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.apache.commons/commons-rng-client-api &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.apache.commons</groupId>-->
-<!--            <artifactId>commons-rng-client-api</artifactId>-->
-<!--            <version>1.6</version>-->
-<!--        </dependency>-->
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.apache.commons/commons-csv &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.apache.commons</groupId>-->
-<!--            <artifactId>commons-csv</artifactId>-->
-<!--            <version>1.14.0</version>-->
-<!--        </dependency>-->
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.jgrapht/jgrapht-core &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.jgrapht</groupId>-->
-<!--            <artifactId>jgrapht-core</artifactId>-->
-<!--            <version>1.5.2</version>-->
-<!--        </dependency>-->
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.jgrapht/jgrapht-io &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.jgrapht</groupId>-->
-<!--            <artifactId>jgrapht-io</artifactId>-->
-<!--            <version>1.5.2</version>-->
-<!--        </dependency>-->
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/org.jheaps/jheaps &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>org.jheaps</groupId>-->
-<!--            <artifactId>jheaps</artifactId>-->
-<!--            <version>0.14</version>-->
-<!--        </dependency>-->
-<!--        &lt;!&ndash; https://mvnrepository.com/artifact/commons-cli/commons-cli &ndash;&gt;-->
-<!--        <dependency>-->
-<!--            <groupId>commons-cli</groupId>-->
-<!--            <artifactId>commons-cli</artifactId>-->
-<!--            <version>1.9.0</version>-->
-<!--        </dependency>-->
+        <!-- https://mvnrepository.com/artifact/org.apache.commons/commons-csv -->
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-csv</artifactId>
+            <version>1.14.0</version>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/org.jgrapht/jgrapht-core -->
+        <dependency>
+            <groupId>org.jgrapht</groupId>
+            <artifactId>jgrapht-core</artifactId>
+            <version>1.5.2</version>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/org.jgrapht/jgrapht-io -->
+        <dependency>
+            <groupId>org.jgrapht</groupId>
+            <artifactId>jgrapht-io</artifactId>
+            <version>1.5.2</version>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/org.jheaps/jheaps -->
+        <dependency>
+            <groupId>org.jheaps</groupId>
+            <artifactId>jheaps</artifactId>
+            <version>0.14</version>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/commons-cli/commons-cli -->
+        <dependency>
+            <groupId>commons-cli</groupId>
+            <artifactId>commons-cli</artifactId>
+            <version>1.9.0</version>
+        </dependency>
     </dependencies>
     <properties>
         <maven.compiler.source>11</maven.compiler.source>