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Upgrade commons libraries and javax/jakarta dependencies to fix security vulnerabilities#219

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Merged
tonygermano merged 1 commit into from
Mar 23, 2026
Merged

Upgrade commons libraries and javax/jakarta dependencies to fix security vulnerabilities #219

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16 changes: 8 additions & 8 deletions client/.classpath
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Expand Up@@ -120,9 +120,9 @@
</classpathentry>
<classpathentry kind="lib" path="lib/wizard.jar"/>
<classpathentry kind="lib" path="lib/xpp3-1.1.4c.jar"/>
<classpathentry kind="lib" path="lib/commons-logging-1.2.jar"/>
<classpathentry kind="lib" path="lib/commons-logging-1.3.5.jar"/>
<classpathentry kind="lib" path="lib/looks-2.3.1.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.21.0.jar"/>
<classpathentry kind="lib" path="lib/commons-lang3-3.20.0.jar">
<attributes>
<attribute name="javadoc_location" value="http://commons.apache.org/lang/api/"/>
Expand All@@ -140,11 +140,11 @@
<classpathentry kind="lib" path="/Server/setup/client-lib/userutil-sources.jar"/>
<classpathentry kind="lib" path="lib/miglayout-swing-4.2.jar"/>
<classpathentry kind="lib" path="lib/miglayout-core-4.2.jar"/>
<classpathentry kind="lib" path="lib/commons-beanutils-1.9.4.jar"/>
<classpathentry kind="lib" path="lib/commons-beanutils-1.11.0.jar"/>
<classpathentry kind="lib" path="lib/velocity-engine-core-2.3.jar"/>
<classpathentry kind="lib" path="lib/velocity-tools-generic-3.1.jar"/>
<classpathentry kind="lib" path="lib/commons-configuration2-2.8.0.jar"/>
<classpathentry kind="lib" path="lib/javax.mail-1.5.0.jar"/>
<classpathentry kind="lib" path="lib/commons-configuration2-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/jakarta.mail-1.6.7.jar"/>
<classpathentry kind="lib" path="lib/rsyntaxtextarea-2.5.6.jar"/>
<classpathentry kind="lib" path="lib/autocomplete-2.5.4.jar"/>
<classpathentry kind="lib" path="lib/language_support.jar"/>
Expand DownExpand Up@@ -175,14 +175,14 @@
<classpathentry kind="lib" path="lib/commons-vfs2-2.10.0.jar"/>
<classpathentry kind="lib" path="lib/staxon-1.3.jar"/>
<classpathentry kind="lib" path="lib/jetty-util-9.4.57.v20241219.jar"/>
<classpathentry kind="lib" path="lib/commons-compress-1.24.0.jar"/>
<classpathentry kind="lib" path="lib/javax.activation-1.2.0.jar"/>
<classpathentry kind="lib" path="lib/commons-compress-1.28.0.jar"/>
<classpathentry kind="lib" path="lib/jakarta.activation-1.2.1.jar"/>
<classpathentry kind="lib" path="lib/javax.activation-api-1.2.0.jar"/>
<classpathentry kind="lib" path="lib/javax.annotation-api-1.3.2.jar"/>
<classpathentry kind="lib" path="lib/openjfx.jar"/>
<classpathentry kind="lib" path="lib/jaxb-api-2.4.0-b180725.0427.jar"/>
<classpathentry kind="lib" path="lib/jaxb-runtime-2.4.0-b180725.0644.jar"/>
<classpathentry kind="lib" path="lib/commons-codec-1.16.0.jar"/>
<classpathentry kind="lib" path="lib/commons-codec-1.21.0.jar"/>
<classpathentry kind="lib" path="lib/httpcore-4.4.13.jar"/>
<classpathentry kind="lib" path="lib/swagger-annotations-2.0.10.jar"/>
<classpathentry kind="lib" path="lib/jcifs-ng-2.1.10.jar"/>
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8 changes: 4 additions & 4 deletions command/.classpath
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Expand Up@@ -49,7 +49,7 @@
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/commons-lang3-3.20.0.jar"/>
<classpathentry kind="lib" path="lib/commons-logging-1.2.jar">
<classpathentry kind="lib" path="lib/commons-logging-1.3.5.jar">
<attributes>
<attribute name="javadoc_location" value="http://commons.apache.org/logging/apidocs/"/>
</attributes>
Expand All@@ -65,18 +65,18 @@
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/xpp3-1.1.4c.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.21.0.jar"/>
<classpathentry kind="lib" path="lib/commons-collections4-4.4.jar"/>
<classpathentry kind="lib" path="lib/velocity-engine-core-2.3.jar"/>
<classpathentry kind="lib" path="lib/velocity-tools-generic-3.1.jar"/>
<classpathentry kind="lib" path="lib/commons-configuration2-2.8.0.jar"/>
<classpathentry kind="lib" path="lib/commons-configuration2-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/bcpkix-jdk18on-1.78.1.jar"/>
<classpathentry kind="lib" path="lib/bcprov-jdk18on-1.78.1.jar"/>
<classpathentry kind="lib" path="lib/bcutil-jdk18on-1.78.1.jar"/>
<classpathentry kind="lib" path="lib/commons-vfs2-2.10.0.jar"/>
<classpathentry kind="lib" path="lib/jetty-util-9.4.57.v20241219.jar"/>
<classpathentry kind="con" path="org.eclipse.jdt.junit.JUNIT_CONTAINER/4"/>
<classpathentry kind="lib" path="lib/commons-codec-1.16.0.jar"/>
<classpathentry kind="lib" path="lib/commons-codec-1.21.0.jar"/>
<classpathentry kind="lib" path="lib/httpcore-4.4.13.jar"/>
<classpathentry kind="lib" path="lib/httpclient-4.5.13.jar"/>
<classpathentry kind="lib" path="lib/httpmime-4.5.13.jar"/>
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2 changes: 1 addition & 1 deletion command/build.xml
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Expand Up@@ -59,7 +59,7 @@

<manifest>
<attribute name="Main-Class" value="com.mirth.connect.cli.launcher.CommandLineLauncher" />
<attribute name="Class-Path" value="cli-lib/log4j-api-2.25.3.jar cli-lib/log4j-core-2.25.3.jar cli-lib/commons-io-2.13.0.jar conf/" />
<attribute name="Class-Path" value="cli-lib/log4j-api-2.25.3.jar cli-lib/log4j-core-2.25.3.jar cli-lib/commons-io-2.21.0.jar conf/" />
</manifest>
</jar>
</target>
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8 changes: 4 additions & 4 deletions donkey/.classpath
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Expand Up@@ -11,7 +11,7 @@
<attribute name="javadoc_location" value="http://commons.apache.org/dbutils/apidocs/"/>
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/commons/commons-io-2.13.0.jar">
<classpathentry kind="lib" path="lib/commons/commons-io-2.21.0.jar">
<attributes>
<attribute name="javadoc_location" value="http://commons.apache.org/io/api-release/"/>
</attributes>
Expand All@@ -23,7 +23,7 @@
<attribute name="javadoc_location" value="http://commons.apache.org/proper/commons-collections/apidocs/"/>
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/commons/commons-logging-1.2.jar">
<classpathentry kind="lib" path="lib/commons/commons-logging-1.3.5.jar">
<attributes>
<attribute name="javadoc_location" value="http://commons.apache.org/logging/apidocs/"/>
</attributes>
Expand DownExpand Up@@ -53,7 +53,7 @@
<classpathentry kind="lib" path="lib/database/derby-10.10.2.0.jar"/>
<classpathentry kind="lib" path="lib/xstream/xpp3-1.1.4c.jar"/>
<classpathentry kind="lib" path="lib/database/ojdbc8-12.2.0.1.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-beanutils-1.9.4.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-beanutils-1.11.0.jar"/>
<classpathentry kind="lib" path="lib/database/jtds-1.3.1.jar"/>
<classpathentry kind="lib" path="lib/database/mysql-connector-j-8.4.0.jar"/>
<classpathentry kind="lib" path="lib/HikariCP-2.5.1.jar"/>
Expand All@@ -67,7 +67,7 @@
<classpathentry kind="lib" path="testlib/javax.inject-2.4.0-b31.jar"/>
<classpathentry kind="lib" path="testlib/aopalliance-repackaged-2.4.0-b31.jar"/>
<classpathentry kind="lib" path="lib/guice-4.1.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-codec-1.16.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-codec-1.21.0.jar"/>
<classpathentry kind="lib" path="lib/guava/checker-qual-2.10.0.jar"/>
<classpathentry kind="lib" path="lib/guava/error_prone_annotations-2.3.4.jar"/>
<classpathentry kind="lib" path="lib/guava/failureaccess-1.0.1.jar"/>
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Expand Up@@ -22,7 +22,7 @@
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/commons-lang3-3.20.0.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/commons-io-2.21.0.jar"/>
<classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/>
<classpathentry kind="output" path="bin"/>
</classpath>
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18 changes: 9 additions & 9 deletions server/.classpath
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Expand Up@@ -12,14 +12,14 @@
<classpathentry kind="lib" path="lib/extensions/file/jcifs-ng-2.1.10.jar"/>
<classpathentry kind="lib" path="lib/extensions/doc/itext-2.1.7.jar"/>
<classpathentry kind="lib" path="lib/extensions/doc/itext-rtf-2.1.7.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-beanutils-1.9.4.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-beanutils-1.11.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-cli-1.2.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-configuration2-2.8.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-configuration2-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-dbcp2-2.0.1.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-dbutils-1.7.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-digester3-3.2.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-jxpath-1.3.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-logging-1.2.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-logging-1.3.5.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-net-3.9.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-pool2-2.3.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-el-1.0.jar"/>
Expand DownExpand Up@@ -47,7 +47,7 @@
<classpathentry kind="lib" path="lib/extensions/dimse/dcm4che-tool-dcmsnd-2.0.29.jar"/>
<classpathentry kind="lib" path="lib/mybatis-3.1.1.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-lang3-3.20.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-io-2.13.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-io-2.21.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-math3-3.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-text-1.15.0.jar"/>
<classpathentry kind="lib" path="lib/log4j/log4j-1.2-api-2.25.3.jar">
Expand DownExpand Up@@ -112,7 +112,7 @@
<classpathentry kind="lib" path="lib/javax/javax.inject-2.4.0-b31.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.json-1.0.4.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.json-api-1.0.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.mail-1.5.0.jar"/>
<classpathentry kind="lib" path="lib/javax/jakarta.mail-1.6.7.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.ws.rs-api-2.0.1.jar"/>
<classpathentry kind="lib" path="lib/jetty/jetty-annotations-9.4.57.v20241219.jar"/>
<classpathentry kind="lib" path="lib/jetty/jetty-continuation-9.4.57.v20241219.jar"/>
Expand DownExpand Up@@ -172,7 +172,7 @@
<classpathentry kind="lib" path="lib/javax/jaxws/jaxws-api-2.3.0.jar"/>
<classpathentry kind="lib" path="lib/javax/jaxws/jaxws-rt-2.3.0.2.jar"/>
<classpathentry kind="lib" path="lib/javax/jaxws/jaxws-tools-2.3.0.2.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.activation-1.2.0.jar"/>
<classpathentry kind="lib" path="lib/javax/jakarta.activation-1.2.1.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.activation-api-1.2.0.jar"/>
<classpathentry kind="lib" path="lib/javax/javax.annotation-api-1.3.2.jar"/>
<classpathentry combineaccessrules="false" kind="src" path="/Donkey">
Expand DownExpand Up@@ -201,8 +201,8 @@
<attribute name="javadoc_location" value="http://commons.apache.org/proper/commons-vfs/apidocs"/>
</attributes>
</classpathentry>
<classpathentry kind="lib" path="lib/commons/commons-compress-1.24.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-codec-1.16.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-compress-1.28.0.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-codec-1.21.0.jar"/>
<classpathentry kind="lib" path="lib/commons/httpcore-4.4.13.jar"/>
<classpathentry kind="lib" path="lib/database/mssql-jdbc-8.4.1.jre8.jar"/>
<classpathentry kind="lib" path="lib/aws/annotations-2.15.28.jar"/>
Expand DownExpand Up@@ -267,7 +267,7 @@
<classpathentry kind="lib" path="lib/hapi/hapi-structures-v28-2.3.jar"/>
<classpathentry kind="lib" path="lib/hapi/hapi-structures-v281-2.3.jar"/>
<classpathentry kind="lib" path="lib/rhino-1.7.13.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-fileupload-1.5.jar"/>
<classpathentry kind="lib" path="lib/commons/commons-fileupload-1.6.0.jar"/>
<classpathentry kind="lib" path="lib/xstream-1.4.20.jar"/>
<classpathentry kind="output" path="bin"/>
</classpath>
4 changes: 2 additions & 2 deletions server/build.xml
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Expand Up@@ -1047,7 +1047,7 @@

<manifest>
<attribute name="Main-Class" value="com.mirth.connect.server.launcher.MirthLauncher" />
<attribute name="Class-Path" value="server-lib/commons/commons-io-2.13.0.jar server-lib/commons/commons-configuration2-2.8.0.jar server-lib/commons/commons-lang3-3.20.0.jar server-lib/commons/commons-logging-1.2.jar server-lib/commons/commons-beanutils-1.9.4.jar server-lib/commons/commons-text-1.15.0.jar server-lib/commons/commons-collections-3.2.2.jar conf/" />
<attribute name="Class-Path" value="server-lib/commons/commons-io-2.21.0.jar server-lib/commons/commons-configuration2-2.13.0.jar server-lib/commons/commons-lang3-3.20.0.jar server-lib/commons/commons-logging-1.3.5.jar server-lib/commons/commons-beanutils-1.11.0.jar server-lib/commons/commons-text-1.15.0.jar server-lib/commons/commons-collections-3.2.2.jar conf/" />
</manifest>
</jar>

Expand DownExpand Up@@ -1233,7 +1233,7 @@
<include name="log4j/log4j-core-2.25.3.jar" />
<include name="database/derby-10.10.2.0.jar" />
<include name="database/derbytools-10.10.2.0.jar" />
<include name="commons/commons-io-2.13.0.jar" />
<include name="commons/commons-io-2.21.0.jar" />
</fileset>
</classpath>
<arg value="dbconf/derby/derby-database.sql" />
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