PAMGuard/dependency-reduced-pom.xml

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<?xml version="1.0" encoding="UTF-8"?>
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">
<modelVersion>4.0.0</modelVersion>
<groupId>org.pamguard</groupId>
<artifactId>Pamguard</artifactId>
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<name>Pamguard</name>
<version>2.02.14</version>
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<description>Pamguard using Maven to control dependencies</description>
<url>www.pamguard.org</url>
<organization>
<name>Sea Mammal Research Unit, University of St. Andrews</name>
<url>http://www.smru.st-andrews.ac.uk</url>
</organization>
<build>
<sourceDirectory>${basedir}/src</sourceDirectory>
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<testSourceDirectory>${basedir}/src/test</testSourceDirectory>
<resources>
<resource>
<directory>src</directory>
<excludes>
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<exclude>META-INF/*.SF,META-INF/*.DSA,META-INF/*.RSA</exclude>
<exclude>**/*.java</exclude>
<exclude>jars/*.*</exclude>
</excludes>
</resource>
</resources>
<pluginManagement>
<plugins>
<plugin>
<groupId>org.eclipse.m2e</groupId>
<artifactId>lifecycle-mapping</artifactId>
<version>1.0.0</version>
<configuration>
<lifecycleMappingMetadata>
<pluginExecutions>
<pluginExecution>
<pluginExecutionFilter>
<groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-dependency-plugin</artifactId>
<versionRange>[3.1.1,)</versionRange>
<goals>
<goal>purge-local-repository</goal>
</goals>
</pluginExecutionFilter>
<action>
<ignore />
</action>
</pluginExecution>
</pluginExecutions>
</lifecycleMappingMetadata>
</configuration>
</plugin>
</plugins>
</pluginManagement>
<plugins>
<plugin>
<artifactId>maven-compiler-plugin</artifactId>
<version>3.12.1</version>
<dependencies>
<dependency>
<groupId>org.eclipse.tycho</groupId>
<artifactId>tycho-compiler-jdt</artifactId>
Squashed commit of the following: commit 840e6c89a1fe2a1029b1b8c5c1d5419e7baec581 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Nov 16 20:36:14 2023 +0000 R2.02.09d Fix matched template classifier import fix azigram help file image display commit acc806d375b484323e23ccfd02435a3b667ff7b3 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 13:08:02 2023 +0000 Updated X3 library to 2.2.6 commit a4f484c76c17c761d779f52c1a8dddafdc03dcd5 Merge: 8e60ad2e d7c4c278 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:44:09 2023 +0000 Merge branch 'main' of https://github.com/PAMGuard/PAMGuard.git into main commit 8e60ad2eff108c29bcb024a5f9ca3b2ef4fe20ae Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:43:39 2023 +0000 update to array diagnostics and sensor control commit d7c4c278d806b3ab4effe45153079fc4792ce764 Author: m2oswald <45486636+m2oswald@users.noreply.github.com> Date: Wed Nov 15 09:17:49 2023 +0000 Added code to Rocca for training/testing classifier (#114) * allow Rocca to run without classifiers Fixed bug that threw an error if no classifier files were specified in Rocca Params dialog * add rocca switch to enable dev mode currently only shows/hides extra buttons in the Params dialog, but will extend to more options in the future * Fix memory issue with RoccaContourDataBlocks not being released for garbage collection Set RoccaContourDataBlock objects to null and stop PamObserver Timer to force release * Fix problem tracing whistles in Rocca spectrogram pop-up Whistle and raw data were being cleared before the user had time to trace out the whistle, causing PAMGuard to throw an exception. Both were already being cleared when the pop-up window is closed, so no need to do it here. * updated for training/testing classifiers commit d5f504dcd1a28fcf88d18b7624826e0e1d325ab9 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Nov 10 18:08:31 2023 +0000 Bearing localiser offline save Bug stopping it correctly saving data from the offline task to the database fixed. commit 7a44d49e27189d2a1049662ae9f6e1dce81a098f Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Oct 27 09:59:28 2023 +0100 X3 Version 2.2.3 Add maven jar files for X3/SUD version 2.2.3 commit fa5fe9943db6b10a64f563b8a05917f12341182c Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Oct 26 14:44:41 2023 +0100 update sud file management to more efficiently skip to the correct part of a sud file when reading data offline. commit 60435e567a9e38a7c47c2f0df21f3147e15d5e74 Author: Brian S Miller <93690136+BrianSMiller@users.noreply.github.com> Date: Fri Sep 8 21:54:40 2023 +1000 Fixes issues #111 and fixes #112 (DIFAR module crashes and ability to use Deep Learning Detections in DIFAR module) (#110) * Bugfix for OverlayMarks Check for a null pointer exception in OverlayMarks that was causing a crash on startup. * Bugfix for null pointer in symbol manager Fix a bug that I found where the DIFAR module was crashing the symbol manager. Seems that this was due to this subclass of clip generator having a null value for it's uniqueName. I've fixed by checking for null values and assigning a generic symbol when null. * DeepLearning detections canGenerateClips=true Set flag in DeepLearning detector so that detections are considered 'clips' by Pamguard. This allows them to be processed automatically in the DIFAR Localisation module (and maybe others). * DIFAR: bugfix frequency limits for auto-detections Fix a bug in DIFAR module where the frequency limits of automated detections were not being set properly by the DIFAR module. * DeepLearning - Bugfix to detection duration Fix bug in deep learning detector where duration (in samples) was being set to number of samples in a hop instead of the number of samples in a segment.
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<version>1.5.1</version>
</dependency>
</dependencies>
<configuration>
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<release>21</release>
<compilerId>jdt</compilerId>
</configuration>
</plugin>
<plugin>
<groupId>org.openjfx</groupId>
<artifactId>javafx-maven-plugin</artifactId>
<version>0.0.8</version>
</plugin>
<plugin>
<artifactId>maven-shade-plugin</artifactId>
Squashed commit of the following: commit 840e6c89a1fe2a1029b1b8c5c1d5419e7baec581 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Nov 16 20:36:14 2023 +0000 R2.02.09d Fix matched template classifier import fix azigram help file image display commit acc806d375b484323e23ccfd02435a3b667ff7b3 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 13:08:02 2023 +0000 Updated X3 library to 2.2.6 commit a4f484c76c17c761d779f52c1a8dddafdc03dcd5 Merge: 8e60ad2e d7c4c278 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:44:09 2023 +0000 Merge branch 'main' of https://github.com/PAMGuard/PAMGuard.git into main commit 8e60ad2eff108c29bcb024a5f9ca3b2ef4fe20ae Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:43:39 2023 +0000 update to array diagnostics and sensor control commit d7c4c278d806b3ab4effe45153079fc4792ce764 Author: m2oswald <45486636+m2oswald@users.noreply.github.com> Date: Wed Nov 15 09:17:49 2023 +0000 Added code to Rocca for training/testing classifier (#114) * allow Rocca to run without classifiers Fixed bug that threw an error if no classifier files were specified in Rocca Params dialog * add rocca switch to enable dev mode currently only shows/hides extra buttons in the Params dialog, but will extend to more options in the future * Fix memory issue with RoccaContourDataBlocks not being released for garbage collection Set RoccaContourDataBlock objects to null and stop PamObserver Timer to force release * Fix problem tracing whistles in Rocca spectrogram pop-up Whistle and raw data were being cleared before the user had time to trace out the whistle, causing PAMGuard to throw an exception. Both were already being cleared when the pop-up window is closed, so no need to do it here. * updated for training/testing classifiers commit d5f504dcd1a28fcf88d18b7624826e0e1d325ab9 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Nov 10 18:08:31 2023 +0000 Bearing localiser offline save Bug stopping it correctly saving data from the offline task to the database fixed. commit 7a44d49e27189d2a1049662ae9f6e1dce81a098f Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Oct 27 09:59:28 2023 +0100 X3 Version 2.2.3 Add maven jar files for X3/SUD version 2.2.3 commit fa5fe9943db6b10a64f563b8a05917f12341182c Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Oct 26 14:44:41 2023 +0100 update sud file management to more efficiently skip to the correct part of a sud file when reading data offline. commit 60435e567a9e38a7c47c2f0df21f3147e15d5e74 Author: Brian S Miller <93690136+BrianSMiller@users.noreply.github.com> Date: Fri Sep 8 21:54:40 2023 +1000 Fixes issues #111 and fixes #112 (DIFAR module crashes and ability to use Deep Learning Detections in DIFAR module) (#110) * Bugfix for OverlayMarks Check for a null pointer exception in OverlayMarks that was causing a crash on startup. * Bugfix for null pointer in symbol manager Fix a bug that I found where the DIFAR module was crashing the symbol manager. Seems that this was due to this subclass of clip generator having a null value for it's uniqueName. I've fixed by checking for null values and assigning a generic symbol when null. * DeepLearning detections canGenerateClips=true Set flag in DeepLearning detector so that detections are considered 'clips' by Pamguard. This allows them to be processed automatically in the DIFAR Localisation module (and maybe others). * DIFAR: bugfix frequency limits for auto-detections Fix a bug in DIFAR module where the frequency limits of automated detections were not being set properly by the DIFAR module. * DeepLearning - Bugfix to detection duration Fix bug in deep learning detector where duration (in samples) was being set to number of samples in a hop instead of the number of samples in a segment.
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<version>3.2.1</version>
<executions>
<execution>
<phase>package</phase>
<goals>
<goal>shade</goal>
</goals>
<configuration>
<transformers>
<transformer>
<manifestEntries>
<Main-Class>pamguard.Pamguard</Main-Class>
<Class-Path>.</Class-Path>
<SplashScreen-Image>Resources/pgBlankSplash.png</SplashScreen-Image>
</manifestEntries>
</transformer>
<transformer />
</transformers>
</configuration>
</execution>
</executions>
<configuration>
<transformers>
<transformer />
</transformers>
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<filters>
<filter>
<artifact>*:*</artifact>
<excludes>
<exclude>META-INF/*.SF</exclude>
<exclude>META-INF/*.DSA</exclude>
<exclude>META-INF/*.RSA</exclude>
<exclude>test/resources/**</exclude>
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</excludes>
</filter>
</filters>
</configuration>
</plugin>
<plugin>
<groupId>com.github.marschall</groupId>
<artifactId>jdeps-maven-plugin</artifactId>
<version>0.5.1</version>
</plugin>
<plugin>
<artifactId>maven-dependency-plugin</artifactId>
<version>3.1.1</version>
<executions>
<execution>
<id>copy-dependencies</id>
<phase>package</phase>
<goals>
<goal>copy-dependencies</goal>
</goals>
<configuration>
<outputDirectory>${project.build.directory}/tempDependencies</outputDirectory>
<overWriteReleases>false</overWriteReleases>
<overWriteSnapshots>false</overWriteSnapshots>
<overWriteIfNewer>true</overWriteIfNewer>
</configuration>
</execution>
</executions>
</plugin>
</plugins>
</build>
<repositories>
<repository>
<releases>
<checksumPolicy>ignore</checksumPolicy>
</releases>
<snapshots>
<enabled>false</enabled>
</snapshots>
<id>repo</id>
<url>file://${project.basedir}/repo</url>
</repository>
<repository>
<snapshots>
<enabled>false</enabled>
</snapshots>
<id>unidata-all</id>
<name>Unidata netCDF</name>
<url>https://artifacts.unidata.ucar.edu/repository/unidata-all/</url>
</repository>
<repository>
<id>bedatadriven</id>
<name>bedatadriven public repo</name>
<url>https://nexus.bedatadriven.com/content/groups/public/</url>
</repository>
<repository>
<snapshots>
<enabled>false</enabled>
</snapshots>
<id>talan</id>
<name>talan</name>
<url>https://nexus.talanlabs.com/content/repositories/releases/</url>
</repository>
<repository>
<id>central</id>
<url>https://repo1.maven.org/maven2</url>
</repository>
</repositories>
<reporting>
<plugins>
<plugin>
<groupId>com.github.marschall</groupId>
<artifactId>jdeps-maven-plugin</artifactId>
<version>0.5.1</version>
</plugin>
</plugins>
</reporting>
<properties>
Squashed commit of the following: commit 840e6c89a1fe2a1029b1b8c5c1d5419e7baec581 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Nov 16 20:36:14 2023 +0000 R2.02.09d Fix matched template classifier import fix azigram help file image display commit acc806d375b484323e23ccfd02435a3b667ff7b3 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 13:08:02 2023 +0000 Updated X3 library to 2.2.6 commit a4f484c76c17c761d779f52c1a8dddafdc03dcd5 Merge: 8e60ad2e d7c4c278 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:44:09 2023 +0000 Merge branch 'main' of https://github.com/PAMGuard/PAMGuard.git into main commit 8e60ad2eff108c29bcb024a5f9ca3b2ef4fe20ae Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Wed Nov 15 09:43:39 2023 +0000 update to array diagnostics and sensor control commit d7c4c278d806b3ab4effe45153079fc4792ce764 Author: m2oswald <45486636+m2oswald@users.noreply.github.com> Date: Wed Nov 15 09:17:49 2023 +0000 Added code to Rocca for training/testing classifier (#114) * allow Rocca to run without classifiers Fixed bug that threw an error if no classifier files were specified in Rocca Params dialog * add rocca switch to enable dev mode currently only shows/hides extra buttons in the Params dialog, but will extend to more options in the future * Fix memory issue with RoccaContourDataBlocks not being released for garbage collection Set RoccaContourDataBlock objects to null and stop PamObserver Timer to force release * Fix problem tracing whistles in Rocca spectrogram pop-up Whistle and raw data were being cleared before the user had time to trace out the whistle, causing PAMGuard to throw an exception. Both were already being cleared when the pop-up window is closed, so no need to do it here. * updated for training/testing classifiers commit d5f504dcd1a28fcf88d18b7624826e0e1d325ab9 Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Nov 10 18:08:31 2023 +0000 Bearing localiser offline save Bug stopping it correctly saving data from the offline task to the database fixed. commit 7a44d49e27189d2a1049662ae9f6e1dce81a098f Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Fri Oct 27 09:59:28 2023 +0100 X3 Version 2.2.3 Add maven jar files for X3/SUD version 2.2.3 commit fa5fe9943db6b10a64f563b8a05917f12341182c Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com> Date: Thu Oct 26 14:44:41 2023 +0100 update sud file management to more efficiently skip to the correct part of a sud file when reading data offline. commit 60435e567a9e38a7c47c2f0df21f3147e15d5e74 Author: Brian S Miller <93690136+BrianSMiller@users.noreply.github.com> Date: Fri Sep 8 21:54:40 2023 +1000 Fixes issues #111 and fixes #112 (DIFAR module crashes and ability to use Deep Learning Detections in DIFAR module) (#110) * Bugfix for OverlayMarks Check for a null pointer exception in OverlayMarks that was causing a crash on startup. * Bugfix for null pointer in symbol manager Fix a bug that I found where the DIFAR module was crashing the symbol manager. Seems that this was due to this subclass of clip generator having a null value for it's uniqueName. I've fixed by checking for null values and assigning a generic symbol when null. * DeepLearning detections canGenerateClips=true Set flag in DeepLearning detector so that detections are considered 'clips' by Pamguard. This allows them to be processed automatically in the DIFAR Localisation module (and maybe others). * DIFAR: bugfix frequency limits for auto-detections Fix a bug in DIFAR module where the frequency limits of automated detections were not being set properly by the DIFAR module. * DeepLearning - Bugfix to detection duration Fix bug in deep learning detector where duration (in samples) was being set to number of samples in a hop instead of the number of samples in a segment.
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<maven.compiler.target>11</maven.compiler.target>
<maven.compiler.source>11</maven.compiler.source>
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<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
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<powermock.version>1.6.6</powermock.version>
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<javafx.version>21</javafx.version>
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<jaxb.runtime.version>2.4.0-b180830.0438</jaxb.runtime.version>
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<mockito.version>1.10.19</mockito.version>
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<jaxb.xjc.version>2.4.0-b180830.0438</jaxb.xjc.version>
<jaxb.api.version>2.4.0-b180830.0359</jaxb.api.version>
</properties>
</project>