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4 Commits
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0b3938c13f | |||
dceb58cf82 | |||
bc4be44174 | |||
f244530932 |
13
README.md
13
README.md
@ -11,19 +11,26 @@ mvn package
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## run
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## run
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```shell
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```shell
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./target/dist/bin/bioformats-imageinfo "[path to image file]"
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./target/dist/bin/bioformats-imageinfo "[OPTION]" "[path to image file]"
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```
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```
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### run by jar
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### run by jar
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```shell
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```shell
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java -jar ./target/dist/lib/bioformats-imageinfo-1.2.2.jar "[path to image file]"
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java -jar ./target/dist/lib/bioformats-imageinfo-1.2.4.jar "[OPTION]" "[path to image file]"
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```
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```
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### run by fat jar
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### run by fat jar
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```shell
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```shell
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java -jar ./target/bioformats-imageinfo-1.2.2-jar-with-dependencies.jar "[path to image file]"
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java -jar ./target/bioformats-imageinfo-1.2.4-jar-with-dependencies.jar "[OPTION]" "[path to image file]"
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```
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### OPTION
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```shell
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-M output metadata
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-T output thumbnail
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```
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```
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## library usage
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## library usage
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10
pom.xml
10
pom.xml
@ -5,13 +5,13 @@
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<modelVersion>4.0.0</modelVersion>
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<modelVersion>4.0.0</modelVersion>
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<groupId>jp.riken.neurodata.tools.BioFormatsImageInfo</groupId>
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<groupId>jp.riken.neurodata.tools.BioFormatsImageInfo</groupId>
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<artifactId>bioformats-imageinfo</artifactId>
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<artifactId>bioformats-imageinfo</artifactId>
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<version>1.2.2</version>
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<version>1.2.4</version>
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<name>bioformats-imageinfo</name>
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<name>bioformats-imageinfo</name>
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<url>https://neurodata.riken.jp</url>
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<url>https://neurodata.riken.jp</url>
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<properties>
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<properties>
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<bio-formats.version>7.1.0</bio-formats.version>
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<bio-formats.version>7.3.0</bio-formats.version>
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<bioformats-imageinfo.mainClass>jp.riken.neurodata.tools.BioFormatsImageInfo</bioformats-imageinfo.mainClass>
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<bioformats-imageinfo.mainClass>jp.riken.neurodata.tools.BioFormatsImageInfo</bioformats-imageinfo.mainClass>
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<maven.compiler.source>1.8</maven.compiler.source>
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<maven.compiler.source>1.8</maven.compiler.source>
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@ -39,7 +39,7 @@
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<plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-enforcer-plugin</artifactId>
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<artifactId>maven-enforcer-plugin</artifactId>
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<version>3.4.1</version>
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<version>3.5.0</version>
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<executions>
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<executions>
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<execution>
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<execution>
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<id>enforce-maven</id>
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<id>enforce-maven</id>
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@ -76,7 +76,7 @@
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<plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-jar-plugin</artifactId>
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<artifactId>maven-jar-plugin</artifactId>
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<version>3.3.0</version>
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<version>3.4.1</version>
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<configuration>
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<configuration>
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<archive>
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<archive>
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<manifest>
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<manifest>
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@ -113,7 +113,7 @@
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<plugin>
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<plugin>
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<groupId>org.apache.maven.plugins</groupId>
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<groupId>org.apache.maven.plugins</groupId>
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<artifactId>maven-assembly-plugin</artifactId>
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<artifactId>maven-assembly-plugin</artifactId>
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<version>3.6.0</version>
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<version>3.7.1</version>
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<configuration>
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<configuration>
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<descriptorRefs>
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<descriptorRefs>
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<descriptorRef>jar-with-dependencies</descriptorRef>
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<descriptorRef>jar-with-dependencies</descriptorRef>
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@ -248,17 +248,34 @@ public class BioFormatsImageInfo {
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boolean status = true;
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boolean status = true;
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String message = "";
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String message = "";
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String format = "";
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String format = "";
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boolean metadataON = true;
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boolean thumbnailON = true;
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String path = "";
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final Map<String, Object> metadata = new LinkedHashMap<String, Object>();
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final Map<String, Object> metadata = new LinkedHashMap<String, Object>();
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final Map<String, Object> thumbnail = new LinkedHashMap<String, Object>();
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final Map<String, Object> thumbnail = new LinkedHashMap<String, Object>();
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if (args.length != 1) {
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if (args.length == 1) {
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status = false;
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path = args[0];
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message = "filename argument required";
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} else if (args.length == 2) {
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if (args[0].startsWith("-")) {
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metadataON = args[0].toUpperCase().contains("M");
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thumbnailON = args[0].toUpperCase().contains("T");
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}
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path = args[1];
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} else {
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} else {
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final String path = args[0];
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status = false;
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message = "invalid parameters";
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message += "\nUsage ./target/dist/bin/bioformats-imageinfo \"[OPTION]\" \"[path to image file]\"";
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message += "\n-M output metadata\n-T output thumbnail";
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}
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if (status) {
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try {
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try {
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DebugTools.enableLogging("OFF");
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DebugTools.enableLogging("OFF");
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if (metadataON) {
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format = readMetadata(path, metadata);
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format = readMetadata(path, metadata);
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}
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if (thumbnailON) {
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BioFormatsImageThumbnail.readThumbnail(path, thumbnail);
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BioFormatsImageThumbnail.readThumbnail(path, thumbnail);
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}
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} catch (Throwable t) {
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} catch (Throwable t) {
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status = false;
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status = false;
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message = t.getMessage();
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message = t.getMessage();
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