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Zarr v3 #113

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d876f75
Bump dependencies
dominikl Oct 3, 2025
c31b12b
Remove jzarr, use zarr-java for v2 and v3
dominikl Nov 5, 2025
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90 changes: 26 additions & 64 deletions pom.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -50,90 +50,52 @@
</pluginRepository>
</pluginRepositories>

<properties>
<project.rootdir>${basedir}/../..</project.rootdir>
<maven.compiler.source>1.8</maven.compiler.source>
<maven.compiler.target>1.8</maven.compiler.target>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>

<zarr-java.version>0.0.5-SNAPSHOT</zarr-java.version>
<jackson.version>2.20.0</jackson.version>
<aws.version>2.34.6</aws.version>
</properties>

<dependencies>
<dependency>
<groupId>ome</groupId>
<artifactId>formats-api</artifactId>
<version>7.3.1</version>
</dependency>
<dependency>
<groupId>dev.zarr</groupId>
<artifactId>jzarr</artifactId>
<version>0.4.2</version>
<exclusions>
<exclusion>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-databind</artifactId>
</exclusion>
<exclusion>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-core</artifactId>
</exclusion>
<exclusion>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-annotations</artifactId>
</exclusion>
<exclusion>
<groupId>org.apache.httpcomponents</groupId>
<artifactId>httpcore</artifactId>
</exclusion>
</exclusions>
<version>8.3.0</version>
</dependency>

<dependency>
<groupId>org.mockito</groupId>
<artifactId>mockito-inline</artifactId>
<version>3.7.7</version>
<scope>test</scope>
</dependency>

<dependency>
<groupId>org.testng</groupId>
<artifactId>testng</artifactId>
<version>6.10</version>
<scope>test</scope>
<groupId>dev.zarr</groupId>
<artifactId>zarr-java</artifactId>
<version>${zarr-java.version}</version>
</dependency>


<dependency>
<!-- NB: We want this, despite warning from dependency:analyze. -->
<groupId>xalan</groupId>
<artifactId>serializer</artifactId>
<version>2.7.3</version>
<scope>runtime</scope>
<groupId>com.fasterxml.jackson.core</groupId>
<artifactId>jackson-databind</artifactId>
<version>${jackson.version}</version>
</dependency>
<dependency>
<!-- NB: We want this, despite warning from dependency:analyze. -->
<groupId>xalan</groupId>
<artifactId>xalan</artifactId>
<version>2.7.3</version>
<scope>runtime</scope>
<groupId>com.fasterxml.jackson.datatype</groupId>
<artifactId>jackson-datatype-jdk8</artifactId>
<version>${jackson.version}</version>
</dependency>
<dependency>
<groupId>com.amazonaws</groupId>
<artifactId>aws-java-sdk-s3</artifactId>
<version>1.12.659</version>
<exclusions>
<exclusion>
<groupId>commons-logging</groupId>
<artifactId>commons-logging</artifactId>
</exclusion>
</exclusions>
<groupId>software.amazon.awssdk</groupId>
<artifactId>s3</artifactId>
<version>${aws.version}</version>
</dependency>

<dependency>
<groupId>commons-logging</groupId>
<artifactId>commons-logging</artifactId>
<version>1.2</version>
<version>1.3.5</version>
</dependency>
</dependencies>

<properties>
<project.rootdir>${basedir}/../..</project.rootdir>
<maven.compiler.source>1.8</maven.compiler.source>
<maven.compiler.target>1.8</maven.compiler.target>
<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
</properties>

<build>
<sourceDirectory>${project.basedir}/src</sourceDirectory>
<testSourceDirectory>${project.basedir}/test</testSourceDirectory>
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245 changes: 0 additions & 245 deletions src/loci/formats/S3FileSystemStore.java
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