我正在尝试为czi文件构建一个imagej插件。要调试插件我有一个主要的＆＃39;打开imagej并打开图像的功能。要打开czi图像，我需要使用loci bioformat插件。
public static void main(String[] args) {
// set the plugins.dir property to make the plugin appear in the Plugins menu
Class<?> clazz = Confocal_Montage.class;
String url = clazz.getResource("/" + clazz.getName().replace('.', '/') + ".class").toString();
String pluginsDir = url.substring("file:".length(), url.length() - clazz.getName().length() - ".class".length());
System.out.println(pluginsDir);
System.setProperty("plugins.dir", pluginsDir);
// start ImageJ
new ImageJ();
// open the sample czi file
try {
ImagePlus[] imps = BF.openImagePlus(System.getProperty("user.dir")+"\\0min_sonicate1.czi");
for (ImagePlus imp :imps) imp.show();
}
catch(IOException exc){
IJ.error("sorry an error occurred: " + exc.getMessage());
}
catch(FormatException exc){
IJ.error("Sorry an error occured: " + exc.getMessage());
}
// run the plugin
IJ.runPlugIn(clazz.getName(), "");
}
但是当我尝试运行调试器（VSCode）时遇到此错误
SLF4J: The requested version 1.5.10 by your slf4j binding is not compatible with [1.6, 1.7]
SLF4J: See http://www.slf4j.org/codes.html#version_mismatch for further details.
Exception in thread "main" java.lang.NoSuchMethodError: org.slf4j.helpers.MessageFormatter.format(Ljava/lang/String;Ljava/lang/Object;Ljava/lang/Object;)Ljava/lang/String;
at org.slf4j.impl.Log4jLoggerAdapter.debug(Log4jLoggerAdapter.java:246)
at ome.scifio.common.IniParser.parseINI(IniParser.java:144)
at ome.scifio.common.IniParser.parseINI(IniParser.java:101)
at loci.common.IniParser.parseINI(IniParser.java:97)
at loci.plugins.prefs.OptionsList.<init>(OptionsList.java:66)
at loci.plugins.in.ImporterOptions.<init>(ImporterOptions.java:158)
at loci.plugins.BF.openImagePlus(BF.java:78)
at com.mycompany.imagej.Confocal_Montage.main(Confocal_Montage.java:77)
我在Maven + SLF4J: Version conflict when using two different dependencies that require two different SLF4J versions中尝试了解决方案。将slf4j版本1.7.5的依赖项添加到我的pom中，但是当我这样做时，我得到了这个错误。
log4j:WARN No appenders could be found for logger (ome.scifio.common.IniParser).
log4j:WARN Please initialize the log4j system properly.
Exception in thread "main" java.lang.NumberFormatException: null
at java.base/java.lang.Integer.parseInt(Integer.java:614)
at java.base/java.lang.Integer.parseInt(Integer.java:770)
at loci.formats.in.ZeissCZIReader.translateExperiment(ZeissCZIReader.java:1870)
at loci.formats.in.ZeissCZIReader.translateMetadata(ZeissCZIReader.java:965)
at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:540)
at loci.formats.FormatReader.setId(FormatReader.java:1333)
at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:482)
at loci.plugins.in.ImportProcess.execute(ImportProcess.java:146)
at loci.plugins.BF.openImagePlus(BF.java:95)
at loci.plugins.BF.openImagePlus(BF.java:80)
at com.mycompany.imagej.Confocal_Montage.main(Confocal_Montage.java:77)
我的maven依赖树看起来像这样
[INFO] --- maven-dependency-plugin:3.0.0:tree (default-cli) @ File_To_Montage ---
[INFO] com.mikedavies:File_To_Montage:jar:0.1.0-SNAPSHOT
[INFO] +- net.imagej:ij:jar:1.51h:compile
[INFO] +- loci:loci_plugins:jar:5.0.0-beta1:compile
[INFO] | +- loci:bio-formats:jar:5.0.0-beta1:compile
[INFO] | | +- loci:mdbtools-java:jar:5.0.0-beta1:compile
[INFO] | | +- loci:metakit:jar:5.0.0-beta1:compile
[INFO] | | +- loci:poi-loci:jar:5.0.0-beta1:compile
[INFO] | | | \- commons-logging:commons-logging:jar:1.1.1:compile
[INFO] | | +- loci:turbojpeg:jar:5.0.0-beta1:compile
[INFO] | | \- edu.ucar:netcdf:jar:4.0.03:compile
[INFO] | +- loci:loci-legacy:jar:5.0.0-beta1:compile
[INFO] | | +- loci:scifio-devel:jar:5.0.0-beta1:compile
[INFO] | | +- xalan:serializer:jar:2.7.1:runtime
[INFO] | | | \- xml-apis:xml-apis:jar:1.3.04:runtime
[INFO] | | \- xalan:xalan:jar:2.7.1:runtime
[INFO] | +- loci:ome-xml:jar:5.0.0-beta1:compile
[INFO] | +- loci:scifio:jar:5.0.0-beta1:compile
[INFO] | | +- loci:jai_imageio:jar:5.0.0-beta1:compile
[INFO] | | +- loci:lwf-stubs:jar:5.0.0-beta1:compile
[INFO] | | +- loci:specification:jar:5.0.0-beta1:compile
[INFO] | | | +- junit:junit:jar:4.12:test
[INFO] | | | | \- org.hamcrest:hamcrest-core:jar:1.3:test
[INFO] | | | \- org.testng:testng:jar:6.8:compile
[INFO] | | | +- org.beanshell:bsh:jar:2.0b4:compile
[INFO] | | | +- com.beust:jcommander:jar:1.27:compile
[INFO] | | | \- org.yaml:snakeyaml:jar:1.6:compile
[INFO] | | +- org.scijava:native-lib-loader:jar:2.1.4:compile
[INFO] | | +- com.esotericsoftware.kryo:kryo:jar:shaded:2.21:compile
[INFO] | | \- org.perf4j:perf4j:jar:0.9.13:compile
[INFO] | +- com.jgoodies:forms:jar:1.2.1:compile
[INFO] | \- log4j:log4j:jar:1.2.14:compile
[INFO] \- org.slf4j:slf4j-log4j12:jar:1.5.10:test
[INFO] \- org.slf4j:slf4j-api:jar:1.7.21:compile
开始我的Pom.xml看起来像这样
<?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/xsd/maven-4.0.0.xsd">
<modelVersion>4.0.0</modelVersion>
<parent>
<groupId>org.scijava</groupId>
<artifactId>pom-scijava</artifactId>
<version>14.0.0</version>
</parent>
<groupId>com.mycompany</groupId>
<artifactId>File_To_Montage</artifactId>
<version>0.1.0-SNAPSHOT</version>
<url>mycompany.com</url>
<repositories>
<repository>
<id>imagej.public</id>
<url>http://maven.imagej.net/content/groups/public</url>
</repository>
</repositories>
<dependencies>
<dependency>
<groupId>net.imagej</groupId>
<artifactId>ij</artifactId>
</dependency>
<dependency>
<groupId>loci</groupId>
<artifactId>loci_plugins</artifactId>
<version>5.0.0-beta1</version>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-log4j12</artifactId>
<version>1.7.5</version>
</dependency>
</dependencies>
关于如何解决这个问题的任何想法都会很棒，它会把我推到墙上
答案 0 :(得分：1)
想出来，所以对于遇到这个问题的其他人来说，有两个问题。第一个是我确实需要包含slf4j依赖项（简单和api）和scijava-log-slf4j（不确定我是否需要所有这些但是它们都可以使用它们全部声明）。
<dependency>
<groupId>org.scijava</groupId>
<artifactId>scijava-log-slf4j</artifactId>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-api</artifactId>
</dependency>
<dependency>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-simple</artifactId>
</dependency>
因为这些依赖关系已经在scijava pom中管理，所以不需要包含版本号。 我还在loci中包含了一个排除：loci_plugins依赖
<exclusion>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-log4j12</artifactId>
</exclusion>
这摆脱了slf4j问题和警告，但留下了NumberFormatException。
Exception in thread "main" java.lang.NumberFormatException: null
at java.base/java.lang.Integer.parseInt(Integer.java:614)
at java.base/java.lang.Integer.parseInt(Integer.java:770)
at loci.formats.in.ZeissCZIReader.translateExperiment(ZeissCZIReader.java:1870)
at loci.formats.in.ZeissCZIReader.translateMetadata(ZeissCZIReader.java:965)
at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:540)
at loci.formats.FormatReader.setId(FormatReader.java:1333)
at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:482)
at loci.plugins.in.ImportProcess.execute(ImportProcess.java:146)
at loci.plugins.BF.openImagePlus(BF.java:95)
at loci.plugins.BF.openImagePlus(BF.java:80)
at com.mycompany.imagej.Confocal_Montage.main(Confocal_Montage.java:77)
这取决于我正在使用的生物形式的版本，该版本已在以后的版本中修复。不幸的是，后来的版本不在maven中央存储库上，而是在OpenMicroscopy存储库中，这意味着将它包含在pom中
<repository>
<id>OpenMicroscopy</id>
<url>http://maven.imagej.net/content/groups/public</url>
</repository>
以及bioformats插件的依赖
<dependency>
<groupId>ome</groupId>
<artifactId>bioformats_package</artifactId>
<version>5.3.3</version>
<type>pom</type>
<exclusions>
<exclusion>
<groupId>org.slf4j</groupId>
<artifactId>slf4j-log4j12</artifactId>
</exclusion>
<exclusion>
<groupId>ch.qos.logback</groupId>
<artifactId>logback-classic</artifactId>
</exclusion>
</exclusions>
</dependency>
ch.qos.logback：logback-classic排除是因为它中的重复类和org.slf4j：slf4j-simple，并且它有效！