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3 changed files with 14 additions and 38 deletions

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@ -11,26 +11,19 @@ mvn package
## run ## run
```shell ```shell
./target/dist/bin/bioformats-imageinfo "[OPTION]" "[path to image file]" ./target/dist/bin/bioformats-imageinfo "[path to image file]"
``` ```
### run by jar ### run by jar
```shell ```shell
java -jar ./target/dist/lib/bioformats-imageinfo-1.2.4.jar "[OPTION]" "[path to image file]" java -jar ./target/dist/lib/bioformats-imageinfo-1.2.2.jar "[path to image file]"
``` ```
### run by fat jar ### run by fat jar
```shell ```shell
java -jar ./target/bioformats-imageinfo-1.2.4-jar-with-dependencies.jar "[OPTION]" "[path to image file]" java -jar ./target/bioformats-imageinfo-1.2.2-jar-with-dependencies.jar "[path to image file]"
```
### OPTION
```shell
-M output metadata
-T output thumbnail
``` ```
## library usage ## library usage

10
pom.xml
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@ -5,13 +5,13 @@
<modelVersion>4.0.0</modelVersion> <modelVersion>4.0.0</modelVersion>
<groupId>jp.riken.neurodata.tools.BioFormatsImageInfo</groupId> <groupId>jp.riken.neurodata.tools.BioFormatsImageInfo</groupId>
<artifactId>bioformats-imageinfo</artifactId> <artifactId>bioformats-imageinfo</artifactId>
<version>1.2.4</version> <version>1.2.2</version>
<name>bioformats-imageinfo</name> <name>bioformats-imageinfo</name>
<url>https://neurodata.riken.jp</url> <url>https://neurodata.riken.jp</url>
<properties> <properties>
<bio-formats.version>7.3.0</bio-formats.version> <bio-formats.version>7.1.0</bio-formats.version>
<bioformats-imageinfo.mainClass>jp.riken.neurodata.tools.BioFormatsImageInfo</bioformats-imageinfo.mainClass> <bioformats-imageinfo.mainClass>jp.riken.neurodata.tools.BioFormatsImageInfo</bioformats-imageinfo.mainClass>
<maven.compiler.source>1.8</maven.compiler.source> <maven.compiler.source>1.8</maven.compiler.source>
@ -39,7 +39,7 @@
<plugin> <plugin>
<groupId>org.apache.maven.plugins</groupId> <groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-enforcer-plugin</artifactId> <artifactId>maven-enforcer-plugin</artifactId>
<version>3.5.0</version> <version>3.4.1</version>
<executions> <executions>
<execution> <execution>
<id>enforce-maven</id> <id>enforce-maven</id>
@ -76,7 +76,7 @@
<plugin> <plugin>
<groupId>org.apache.maven.plugins</groupId> <groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-jar-plugin</artifactId> <artifactId>maven-jar-plugin</artifactId>
<version>3.4.1</version> <version>3.3.0</version>
<configuration> <configuration>
<archive> <archive>
<manifest> <manifest>
@ -113,7 +113,7 @@
<plugin> <plugin>
<groupId>org.apache.maven.plugins</groupId> <groupId>org.apache.maven.plugins</groupId>
<artifactId>maven-assembly-plugin</artifactId> <artifactId>maven-assembly-plugin</artifactId>
<version>3.7.1</version> <version>3.6.0</version>
<configuration> <configuration>
<descriptorRefs> <descriptorRefs>
<descriptorRef>jar-with-dependencies</descriptorRef> <descriptorRef>jar-with-dependencies</descriptorRef>

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@ -248,34 +248,17 @@ public class BioFormatsImageInfo {
boolean status = true; boolean status = true;
String message = ""; String message = "";
String format = ""; String format = "";
boolean metadataON = true;
boolean thumbnailON = true;
String path = "";
final Map<String, Object> metadata = new LinkedHashMap<String, Object>(); final Map<String, Object> metadata = new LinkedHashMap<String, Object>();
final Map<String, Object> thumbnail = new LinkedHashMap<String, Object>(); final Map<String, Object> thumbnail = new LinkedHashMap<String, Object>();
if (args.length == 1) { if (args.length != 1) {
path = args[0];
} else if (args.length == 2) {
if (args[0].startsWith("-")) {
metadataON = args[0].toUpperCase().contains("M");
thumbnailON = args[0].toUpperCase().contains("T");
}
path = args[1];
} else {
status = false; status = false;
message = "invalid parameters"; message = "filename argument required";
message += "\nUsage ./target/dist/bin/bioformats-imageinfo \"[OPTION]\" \"[path to image file]\""; } else {
message += "\n-M output metadata\n-T output thumbnail"; final String path = args[0];
}
if (status) {
try { try {
DebugTools.enableLogging("OFF"); DebugTools.enableLogging("OFF");
if (metadataON) { format = readMetadata(path, metadata);
format = readMetadata(path, metadata); BioFormatsImageThumbnail.readThumbnail(path, thumbnail);
}
if (thumbnailON) {
BioFormatsImageThumbnail.readThumbnail(path, thumbnail);
}
} catch (Throwable t) { } catch (Throwable t) {
status = false; status = false;
message = t.getMessage(); message = t.getMessage();