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Bugzilla – Bug 591 |
can't compile Fiji: the updater fails to compile, and ./Build.sh clean also fails |
Last modified: 2013-07-07 08:58:31 CDT |
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NOTICE! This is a static HTML version of a legacy Fiji BugZilla bug. The Fiji project now uses GitHub Issues for issue tracking. Please file all new issues there. |
| can't compile Fiji: the updater fails to compile, and ./Build.sh clean also f... | |
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Compiling 3 files in /home/albert/Programming/fiji/src-plugins/Bug_Submitter /home/albert/Programming/fiji/src-plugins/Bug_Submitter/src/main/java/Bug_Submitter/Bug_Submitter.java:374: cannot find symbol symbol : method getInstalledVersions(java.io.File,imagej.updater.util.Progress) location: class imagej.updater.core.FilesCollection FilesCollection.getInstalledVersions(new File(System.getProperty("ij.dir")), progress); ^ 1 error Exception in thread "main" imagej.build.minimaven.JavaCompiler$CompileError: Compile error: 1 at imagej.build.minimaven.JavaCompiler.call(JavaCompiler.java:83) at imagej.build.minimaven.MavenProject.build(MavenProject.java:444) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:332) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:327) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:327) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:289) at imagej.build.MiniMaven.main(MiniMaven.java:138) Additionally: (master)$ ./Build.sh clean Exception in thread "main" java.lang.NullPointerException at imagej.build.minimaven.MavenProject.clean(MavenProject.java:135) at imagej.build.minimaven.MavenProject.clean(MavenProject.java:135) at imagej.build.minimaven.MavenProject.clean(MavenProject.java:135) at imagej.build.minimaven.MavenProject.clean(MavenProject.java:135) at imagej.build.MiniMaven.main(MiniMaven.java:142) Currently at branch master, commit: commit ec77f4104caf5068ed03136e622a2806e84a96ce Merge: ba13c16 d3d10da Author: Stephan Preibisch <stephan.preibisch@gmx.de> Date: Fri Apr 19 13:47:14 2013 -0400 Merge branch 'spim-integral' Information about your version of Java - this information is useful for the Fiji developers: os.arch => amd64 os.name => Linux os.version => 3.2.0-40-generic java.version => 1.6.0_30 java.vendor => Sun Microsystems Inc. java.runtime.name => Java(TM) SE Runtime Environment java.runtime.version => 1.6.0_30-b12 java.vm.name => Java HotSpot(TM) 64-Bit Server VM java.vm.version => 20.5-b03 java.vm.vendor => Sun Microsystems Inc. java.vm.info => mixed mode java.awt.graphicsenv => sun.awt.X11GraphicsEnvironment java.specification.name => Java Platform API Specification java.specification.version => 1.6 sun.cpu.endian => little sun.desktop => gnome file.separator => / The up-to-date check says: CHECK_TURNED_OFF Information relevant to JAVA_HOME related problems: JAVA_HOME is set to: /home/albert/Programming/fiji/java/linux-amd64/jdk1.6.0_30//jre ij.dir => /home/albert/Programming/fiji Information about the version of each plugin: 23d2e881e03b84cdd96125889c0e44a53cfc40bf:9e3d487895ceb9bebe1e8f1e30547d5589becbd6:9e3d487895ceb9bebe1e8f1e30547d5589becbd6 20121211164720 :027b06b3152fa3e5bb4f4bdcd35cd283322e736e 0201f5e74bced97c17fa41713227008f7ce8c246:1c68dd90f6bbbff0ff1616e1fcb4342685d42c84:1c68dd90f6bbbff0ff1616e1fcb4342685d42c84 20121211171553 :027d9714531206abe8866d8586befa2b73c8f32d 5bdfafcc812f7bc382348990bfee546c6cef2bd4:bd5e090e50472ca54538a1bda66588afab07a4b7:9bf3116f6fd6fb2ce5c349f88d401c6573ccf627 20130416002143 :038ca0011f735a15688e208f9b2d59a888a17c03 9a4a14542ba61a12e4aa9ea19f873f7c3a6d20a1:2014aa806c155a14556a2a2e849f5010566b0a66:d237e54eb8089734c977715026d09c55faa25aca 20130418154601 :03d2e8bfd4e7d687e3016fa6f761e51bd1dfe294 3837d3fb70e1ee44f8538b86f8003b17f83b2073:c52faaabe003d22729b7690343127af3235ae62f:18ad6b98880dd71e9ab153ecf7f20e1000bb1b73 20121211171314 :0433ba9377f3778fa7d9a37b971783342cb6b0c9 8d2c1f933eefe37aeab4b2c5999b0760c0944544:ca4cd08767ac59a72870197830c447872df03e0e:ca4cd08767ac59a72870197830c447872df03e0e 20121211164751 :051171f90144bb892c4167d1a9a5152cd0bb8ee7 7e4c3b7c71de3b56914d5a994392373061932a9f:bac4cb1a6d160b87da2d11bd85094e4ad29e47f8:bac4cb1a6d160b87da2d11bd85094e4ad29e47f8 20121211171314 :053fe155174fc905ca9395bb44d9bbbc0d6b0812 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In addition, when attempting to compile with mvn directly, I get: [ERROR] BUILD ERROR [INFO] ------------------------------------------------------------------------ [INFO] Failed to resolve artifact. Missing: ---------- 1) jama:Jama:jar:1.0.2 Try downloading the file manually from the project website. Then, install it using the command: mvn install:install-file -DgroupId=jama -DartifactId=Jama -Dversion=1.0.2 -Dpackaging=jar -Dfile=/path/to/file Alternatively, if you host your own repository you can deploy the file there: mvn deploy:deploy-file -DgroupId=jama -DartifactId=Jama -Dversion=1.0.2 -Dpackaging=jar -Dfile=/path/to/file -Durl=[url] -DrepositoryId=[id] Path to dependency: 1) sc.fiji:Image_Expression_Parser:jar:2.0.0-SNAPSHOT 2) sc.fiji:jep:jar:2.4.1 3) jama:Jama:jar:1.0.2 ---------- 1 required artifact is missing. for artifact: sc.fiji:Image_Expression_Parser:jar:2.0.0-SNAPSHOT from the specified remote repositories: imagej.releases (http://maven.imagej.net/content/repositories/releases), central (http://repo1.maven.org/maven2), imagej.snapshots (http://maven.imagej.net/content/repositories/snapshots), java.net (http://download.java.net/maven/2), imagej.thirdparty (http://maven.imagej.net/content/repositories/thirdparty)That version of Jama is in the maven.imagej.net repository: http://maven.imagej.net/content/repositories/thirdparty/jama/jama/1.0.2/ However, it looks like Jama is now available in Central so maybe we can avoid this specific issue by simply switching to the official Jama artifact: <dependency> <groupId>gov.nist.math</groupId> <artifactId>jama</artifactId> <version>1.0.2</version> </dependency> Of course, that would be papering over any real cause of this problem. Dscho, what do you think?So I removed all *SNAPSHOT* jars and tried again. I got: $ find . -name *SNAPSHOT* -exec rm {} \; $ ./Build.sh [...] Compiling 3 files in /home/albert/Programming/fiji/src-plugins/Bug_Submitter /home/albert/Programming/fiji/src-plugins/Bug_Submitter/src/main/java/Bug_Submitter/Bug_Submitter.java:374: cannot find symbol symbol : method getInstalledVersions(java.io.File,imagej.updater.util.Progress) location: class imagej.updater.core.FilesCollection FilesCollection.getInstalledVersions(new File(System.getProperty("ij.dir")), progress); ^ 1 error Exception in thread "main" imagej.build.minimaven.JavaCompiler$CompileError: Compile error: 1 at imagej.build.minimaven.JavaCompiler.call(JavaCompiler.java:83) at imagej.build.minimaven.MavenProject.build(MavenProject.java:444) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:332) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:327) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:327) at imagej.build.minimaven.MavenProject.buildAndInstall(MavenProject.java:289) at imagej.build.MiniMaven.main(MiniMaven.java:138)