Title: Re: Voxel image stack and then what? Post by: SABLE on March 11, 2015, 11:57:51 PM Hey Guys,
Was wondering if anyone here could help me out with fixing this error i get by trying to import a image sequence. I went through the posts but couldn't find a similar problem.. so i tried a new one, the default mandelbulb without changing any preferences. Use voxelstack, saved it in a folder on my desktop, nothing in there besides the .png's. Tried to make an animation of it in sequimago and it works fine, In Fiji i choose file, import, image sequence. Open the folder and the error pops up. I work on mac, yosemite, have the latest Java installed so really don't have a clue. I also tried changing the file names to 1.png, 2.png, 3.png.. This is the error i get. --- (Fiji Is Just) ImageJ 2.0.0-rc-25/1.49p; Java 1.6.0_65 [64-bit]; Mac OS X 10.10; 34MB of 3333MB (1%) java.lang.ArithmeticException: / by zero at io.scif.filters.ChannelFiller.openPlane(ChannelFiller.java:226) at io.scif.filters.ChannelFiller.openPlane(ChannelFiller.java:151) at io.scif.filters.PlaneSeparator.openPlane(PlaneSeparator.java:304) at io.scif.filters.PlaneSeparator.openPlane(PlaneSeparator.java:208) at io.scif.filters.AbstractReaderFilter.openPlane(AbstractReaderFilter.java:225) at io.scif.filters.AbstractReaderFilter.openPlane(AbstractReaderFilter.java:191) at io.scif.img.ImgOpener.read(ImgOpener.java:805) at io.scif.img.ImgOpener.read(ImgOpener.java:790) at io.scif.img.ImgOpener.read(ImgOpener.java:771) at io.scif.img.ImgOpener.readPlanes(ImgOpener.java:758) at io.scif.img.ImgOpener.openImgs(ImgOpener.java:361) at io.scif.img.ImgOpener.openImgs(ImgOpener.java:257) at io.scif.img.ImgOpener.openImgs(ImgOpener.java:146) at io.scif.services.DefaultDatasetIOService.open(DefaultDatasetIOService.java:123) at io.scif.services.DefaultDatasetIOService.open(DefaultDatasetIOService.java:109) at io.scif.io.DatasetIOPlugin.open(DatasetIOPlugin.java:75) at io.scif.io.DatasetIOPlugin.open(DatasetIOPlugin.java:50) at net.imagej.legacy.plugin.DefaultLegacyOpener.open(DefaultLegacyOpener.java:135) at net.imagej.legacy.DefaultLegacyHooks.interceptOpenImage(DefaultLegacyHooks.java:336) at ij.plugin.FolderOpener.run(FolderOpener.java:114) at ij.IJ.runPlugIn(IJ.java:169) at ij.Executer.runCommand(Executer.java:131) at ij.Executer.run(Executer.java:64) at java.lang.Thread.run(Thread.java:695) :'( Title: Re: Voxel image stack and then what? Post by: thargor6 on March 12, 2015, 12:51:42 AM I don't know how to resolve the problem with Fiji, but you can also use JWildfire to create meshes from a Voxel stack, it may need more memory (not sure), but is much faster and has more options regarding this.
To do this, enter the "3DMesh Generation"-tab, and then the "Mesh generation"-tab, and press "Load sequence". But please note that your frame-names must be in zero-padded format (e.g. "pic0001.png", ... and not "pic1.png") Andreas Title: Re: Voxel image stack and then what? Post by: SABLE on March 12, 2015, 05:30:56 PM Thx a lot Andreas, i'll will be trying this out tonight and let you know. |