update version number

.vscode/extensions.json

@@ -1,8 +1,9 @@
 {
     "recommendations": [
-        "vscjava.vscode-java-pack",
         "esbenp.prettier-vscode",
         "mosapride.zenkaku",
-        "streetsidesoftware.code-spell-checker"
+        "redhat.fabric8-analytics",
+        "streetsidesoftware.code-spell-checker",
+        "vscjava.vscode-java-pack"
     ]
 }

.vscode/settings.json

@@ -1,7 +1,7 @@
 {
     "editor.formatOnSave": true,
     "editor.codeActionsOnSave": {
-        "source.organizeImports": true
+        "source.organizeImports": "explicit"
     },
     "[jsonc]": {
         "editor.defaultFormatter": "esbenp.prettier-vscode"
@@ -13,5 +13,6 @@
     "prettier.printWidth": 120,
     "prettier.singleQuote": true,
     "prettier.tabWidth": 4,
-    "java.configuration.updateBuildConfiguration": "interactive"
+    "java.configuration.updateBuildConfiguration": "interactive",
+    "java.compile.nullAnalysis.mode": "automatic"
 }

README.md

@@ -2,31 +2,38 @@
 
 Metadata extraction tool based on Bio-Formats
 
-### make package
+## make package
 
 ```shell
 mvn package
 ```
 
-### run
+## run
 
 ```shell
-./target/dist/bin/bioformats-imageinfo "[path to image file]"
+./target/dist/bin/bioformats-imageinfo "[OPTION]" "[path to image file]"
 ```
 
 ### run by jar
 
 ```shell
-java -jar ./target/dist/lib/bioformats-imageinfo-1.1.4.jar "[path to image file]"
+java -jar ./target/dist/lib/bioformats-imageinfo-1.2.4.jar "[OPTION]" "[path to image file]"
 ```
 
 ### run by fat jar
 
 ```shell
-java -jar ./target/bioformats-imageinfo-1.1.4-jar-with-dependencies.jar "[path to image file]"
+java -jar ./target/bioformats-imageinfo-1.2.4-jar-with-dependencies.jar "[OPTION]" "[path to image file]"
 ```
 
-### library usage
+### OPTION
+
+```shell
+-M output metadata
+-T output thumbnail
+```
+
+## library usage
 
 ```java
 import java.util.LinkedHashMap;

pom.xml

@@ -5,13 +5,13 @@
   <modelVersion>4.0.0</modelVersion>
   <groupId>jp.riken.neurodata.tools.BioFormatsImageInfo</groupId>
   <artifactId>bioformats-imageinfo</artifactId>
-  <version>1.1.4</version>
+  <version>1.2.4</version>
 
   <name>bioformats-imageinfo</name>
   <url>https://neurodata.riken.jp</url>
 
   <properties>
-    <bio-formats.version>6.14.0</bio-formats.version>
+    <bio-formats.version>7.3.0</bio-formats.version>
     <bioformats-imageinfo.mainClass>jp.riken.neurodata.tools.BioFormatsImageInfo</bioformats-imageinfo.mainClass>
 
     <maven.compiler.source>1.8</maven.compiler.source>
@@ -30,7 +30,7 @@
     <dependency>
       <groupId>org.slf4j</groupId>
       <artifactId>slf4j-nop</artifactId>
-      <version>1.7.30</version>
+      <version>2.0.9</version>
     </dependency>
   </dependencies>
 
@@ -39,7 +39,7 @@
       <plugin>
         <groupId>org.apache.maven.plugins</groupId>
         <artifactId>maven-enforcer-plugin</artifactId>
-        <version>3.3.0</version>
+        <version>3.5.0</version>
         <executions>
           <execution>
             <id>enforce-maven</id>
@@ -59,7 +59,7 @@
       <plugin>
         <groupId>org.apache.maven.plugins</groupId>
         <artifactId>maven-dependency-plugin</artifactId>
-        <version>3.6.0</version>
+        <version>3.6.1</version>
         <executions>
           <execution>
             <id>copy-dependencies</id>
@@ -76,7 +76,7 @@
       <plugin>
         <groupId>org.apache.maven.plugins</groupId>
         <artifactId>maven-jar-plugin</artifactId>
-        <version>3.3.0</version>
+        <version>3.4.1</version>
         <configuration>
           <archive>
             <manifest>
@@ -113,7 +113,7 @@
       <plugin>
         <groupId>org.apache.maven.plugins</groupId>
         <artifactId>maven-assembly-plugin</artifactId>
-        <version>3.6.0</version>
+        <version>3.7.1</version>
         <configuration>
           <descriptorRefs>
             <descriptorRef>jar-with-dependencies</descriptorRef>
@@ -140,7 +140,7 @@
       <plugin>
         <groupId>org.owasp</groupId>
         <artifactId>dependency-check-maven</artifactId>
-        <version>8.3.1</version>
+        <version>9.0.9</version>
         <executions>
           <execution>
             <goals>

src/main/java/jp/riken/neurodata/tools/BioFormatsImageInfo.java

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