Hi Michael, > The POM for io.scif:scifio:jar:0.17.1 is missing, no dependency > information available
Make sure you have the following <repositories> block in your POM: <repositories> <repository> <id>imagej.public</id> <url>http://maven.imagej.net/content/groups/public</url> </repository> </repositories> Then rebuild with the "-U" flag. I don't know how to do this from NetBeans, but you only need to do it once from the CLI -- then you can return to NetBeans and it should work. Regards, Curtis On Fri, Dec 5, 2014 at 6:07 AM, Michael Ellis <michael.el...@dsuk.biz> wrote: > I have followed the advice offered by Curtis regarding adding > the io.scif: scifio dependency to my POM > > The dependency part of my POM looks like this: > > <dependencies> > <dependency> > <groupId>net.imglib2</groupId> > <artifactId>imglib2</artifactId> > <version>2.2.1-SNAPSHOT</version> > <type>jar</type> > </dependency> > <dependency> > <groupId>io.scif</groupId> > <artifactId>scifio</artifactId> > <version>0.17.1</version> > <type>jar</type> > </dependency> > </dependencies> > > I am using NetBeans IDE, configured for use with maven project (I am slo > using Java 8 and JavaFX) > > However when I attempt to Build (or Build with Dependencies) within > NetBeans, I get the following error message: > ============================================================ > > cd /Users/michaelellis/Documents/Development/MavenImgLib2FX; > JAVA_HOME=/Library/Java/JavaVirtualMachines/jdk1.8.0_40.jdk/Contents/Home > "/Applications/NetBeans/NetBeans > 8.0.app/Contents/Resources/NetBeans/java/maven/bin/mvn" install > Scanning for projects... > > ------------------------------------------------------------------------ > Building MavenImgLib2FX 1.0-SNAPSHOT > ------------------------------------------------------------------------ > The POM for io.scif:scifio:jar:0.17.1 is missing, no dependency > information available > ------------------------------------------------------------------------ > BUILD FAILURE > ------------------------------------------------------------------------ > Total time: 0.341s > Finished at: Fri Dec 05 10:34:41 GMT 2014 > Final Memory: 7M/245M > ------------------------------------------------------------------------ > Failed to execute goal on project MavenImgLib2FX: Could not resolve > dependencies for project biz.dsuk:MavenImgLib2FX:jar:1.0-SNAPSHOT: Failure > to find io.scif:scifio:jar:0.17.1 in http://repo.maven.apache.org/maven2 > was cached in the local repository, resolution will not be reattempted > until the update interval of central has elapsed or updates are forced -> > [Help 1] > > To see the full stack trace of the errors, re-run Maven with the -e switch. > Re-run Maven using the -X switch to enable full debug logging. > > For more information about the errors and possible solutions, please read > the following articles: > [Help 1] > http://cwiki.apache.org/confluence/display/MAVEN/DependencyResolutionException > > ============================================================ > > If I open a terminal window and cd into the project directory and: > > mvn clean package > > It succeeds. > > However, when I then attempt to run the project with: > > java -cp MavenImgLib2FX-1.0-SNAPSHOT.jar biz.dsuk.mavenimglib2fx.MainApp > > The application starts to execute but throws “No compatible service: > io.scif.SCIFIOService” exception. > ============================================================ > > img1=CellImg [20x30] > BufferedImage=BufferedImage@3137c585: type = 10 ColorModel: #pixelBits = > 8 numComponents = 1 color space = java.awt.color.ICC_ColorSpace@134d9d5f > transparency = 1 has alpha = false isAlphaPre = false > ByteInterleavedRaster: width = 707 height = 699 #numDataElements 1 > dataOff[0] = 0 > Loading image... > Exception in Application start method > java.lang.reflect.InvocationTargetException > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:497) > at > com.sun.javafx.application.LauncherImpl.launchApplicationWithArgs(LauncherImpl.java:363) > at > com.sun.javafx.application.LauncherImpl.launchApplication(LauncherImpl.java:303) > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:497) > at sun.launcher.LauncherHelper$FXHelper.main(LauncherHelper.java:767) > Caused by: java.lang.RuntimeException: Exception in Application start > method > at > com.sun.javafx.application.LauncherImpl.launchApplication1(LauncherImpl.java:875) > at > com.sun.javafx.application.LauncherImpl.lambda$launchApplication$150(LauncherImpl.java:157) > at > com.sun.javafx.application.LauncherImpl$$Lambda$50/553264065.run(Unknown > Source) > at java.lang.Thread.run(Thread.java:745) > Caused by: java.lang.IllegalArgumentException: No compatible service: > io.scif.SCIFIOService > at org.scijava.service.ServiceHelper.loadService(ServiceHelper.java:243) > at org.scijava.service.ServiceHelper.loadService(ServiceHelper.java:194) > at org.scijava.service.ServiceHelper.loadServices(ServiceHelper.java:170) > at org.scijava.Context.<init>(Context.java:244) > at org.scijava.Context.<init>(Context.java:203) > at org.scijava.Context.<init>(Context.java:142) > at org.scijava.Context.<init>(Context.java:128) > at io.scif.SCIFIO.<init>(SCIFIO.java:81) > at biz.dsuk.mavenimglib2fx.MainApp.start(MainApp.java:38) > at > com.sun.javafx.application.LauncherImpl.lambda$launchApplication1$156(LauncherImpl.java:821) > at > com.sun.javafx.application.LauncherImpl$$Lambda$53/681110827.run(Unknown > Source) > at > com.sun.javafx.application.PlatformImpl.lambda$runAndWait$169(PlatformImpl.java:326) > at > com.sun.javafx.application.PlatformImpl$$Lambda$47/693632176.run(Unknown > Source) > at > com.sun.javafx.application.PlatformImpl.lambda$null$167(PlatformImpl.java:295) > at > com.sun.javafx.application.PlatformImpl$$Lambda$49/1260282780.run(Unknown > Source) > at java.security.AccessController.doPrivileged(Native Method) > at > com.sun.javafx.application.PlatformImpl.lambda$runLater$168(PlatformImpl.java:294) > at > com.sun.javafx.application.PlatformImpl$$Lambda$48/1364335809.run(Unknown > Source) > at > com.sun.glass.ui.InvokeLaterDispatcher$Future.run(InvokeLaterDispatcher.java:95) > Exception running application biz.dsuk.mavenimglib2fx.MainApp > ============================================================ > > If I remove the calls to the SCIO code and build and run from the command > line, all works well. > > The SCIO source code that I am using is lifted/amended from one of the > tutorials and is as follows: > > ============================================================ > imagePath = > "8bit-signed&pixelType=int8&lengths=50,50,3,5,7&axes=X,Y,Z,Channel,Time.fake"; > System.out.println("Loading image... '" + imagePath + "'"); > SCIFIO scifio = new SCIFIO(); > final Reader reader = > scifio.initializer().initializeReader(imagePath); > ============================================================ > > This source code works file in the SCIFIO tutorial. > > Any help gratefully appreciated!!!!! > > — Michael Ellis > > > > > On 3 Dec 2014, at 19:31, Curtis Rueden <ctrue...@wisc.edu> wrote: > > Hi Michael, > > > How do I establish what Maven projects I need to include? > > One way to check is using the dependency-maven-plugin like so: > > mvn dependency:analyze > > This will tell you: > > A) Dependencies you declared but do not actually use; and > B) Dependencies you did not declare directly, but actually need. > > Note that this will only work if your project compiles successfully. In > other words, it is easier to start with "too many" dependencies and pare > down, rather than trying to "build up" from zero. > > So in your case, you can start with the ImgLib2 Examples dependencies > block, run dependency:analyze, and adjust the POM according to its > recommendations. > > > When I go to my NetBeans project dependence, select Add dependency, > > then type SCIF to the query text box, I get a huge list of > > possibilities. > > The dependency you probably want is io.scif:scifio (i.e.: a groupId of > io.scif, and an artifactId of scifio). Presumably at the latest version. > You can search for that here: > > http://maven.imagej.net/index.html#nexus-search;gav~io.scif~scifio~~~ > > So your dependency block in this case would be: > > <dependency> > <groupId>io.scif</groupId> > <artifactId>scifio</artifactId> > <version>0.17.1</version> > </dependency> > > Note that that block of XML is available for copy-pasting from the link > above. > > > I am completely new to maven > > For more information, see: > http://imagej.net/Maven > > Regards, > Curtis > > On Tue, Dec 2, 2014 at 6:05 PM, Michael Ellis <michael.el...@dsuk.biz> > wrote: > >> I am investigating the using ImgLib2 for a project. >> >> I am using NetBeans and have managed to create a NetBeans Mavern project >> and have added a dependency for ImgLib2 Core Library and that seems to be >> working OK. >> >> I now want to add the least possible requirements for the purpose of >> opening some image files. >> >> How do I establish what Maven projects I need to include? >> >> I have cloned the ImgLib2 Examples project and got that working but that >> seems to include all manner of things that I suspect I do not need. >> >> When I go to my NetBeans project dependence, select Add dependency, then >> type SCIF to the query text box, I get a huge list of possibilities. >> >> I am completely new to maven and so do not know what I am doing with it! >> >> — Michael Ellis >> Digital Scientific UK Ltd. >> >> >> >> >> _______________________________________________ >> ImageJ-devel mailing list >> ImageJ-devel@imagej.net >> http://imagej.net/mailman/listinfo/imagej-devel >> >> > > > _______________________________________________ > ImageJ-devel mailing list > ImageJ-devel@imagej.net > http://imagej.net/mailman/listinfo/imagej-devel > >
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