[ImageJ-bugs] [Bug 957] New: 3D viewer | Session file doesn't keep records of images filenames

Mon Nov 10 18:13:48 CST 2014

http://fiji.sc/bugzilla/show_bug.cgi?id=957

            Bug ID: 957
           Summary: 3D viewer | Session file doesn't keep records of
                    images filenames
           Product: Fiji
           Version: unspecified
          Hardware: PC
                OS: Windows
            Status: NEW
          Severity: normal
          Priority: P5
         Component: 3D Viewer
          Assignee: imagej-bugs at imagej.net
          Reporter: nicolas.vanderesse at ens.etsmtl.ca

Hello,

I have a problem with the "Save session" command of 3D viewer.
Basically, the .scene file doesn't keep track of the image filename.

Reproducing the bug:
1) Create a stack, save it (temp folder), close it, open it again and import it
to 3D viewer:

  close("*");
  newImage("Untitled", "8-bit black", 256, 256, 50);
  setSlice(25);
  makeOval(59, 70, 121, 115);
  setForegroundColor(255, 255, 255);
  run("Fill", "slice");
  temp = getDirectory("temp");
  saveAs("Tiff", temp + File.separator + "stack.tif");
  run("Close");
  open(temp + File.separator + "stack.tif");
  run("3D Viewer");
  call("ij3d.ImageJ3DViewer.add", "stack.tif", "None", "stack.tif", "0",
"true", "true", "true", "2", "0");

2) Save the session and load it again (don't know how to do it in a macro,
sorry). 

=> "Cannot load image: Untitled".

Here's what the .scene session file looks like (beginning omitted for
conciseness):

  BeginView
  [...]
  imgfile = Untitled
  EndContentInstant
  EndContent

The image filename is indeed untitled.

Now, if the value of imgfile is set to the correct path, it works.

Various alternatives give the same outcome:
- Opening the stack within 3D viewer, than saving the session. 
- Leaving the stack open after saving it, importing it into 3d viewer, then
saving the session.
- Working with several stacks or images.

Thank you for your help and for the plugin, which otherwise works perfectly.

***************
Information about your version of Java:

  os.arch => amd64
  os.name => Windows 7
  os.version => 6.1
  java.version => 1.6.0_24
  java.vendor => Sun Microsystems Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_24-b07
  java.vm.name => Java HotSpot(TM) 64-Bit Server VM
  java.vm.version => 19.1-b02
  java.vm.vendor => Sun Microsystems Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => sun.awt.Win32GraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => windows
  file.separator => \

The up-to-date check says: REMIND_LATER

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to:
C:\Users\NVANDE~1\Desktop\Fiji.app/java/win64/jdk1.6.0_24//jre
  imagej.dir => C:\Users\NVANDE~1\Desktop\Fiji.app

Information about the version of each plugin:

Activated update sites:
ImageJ: http://update.imagej.net/ (last check:20141110001443)
Fiji: http://fiji.sc/update/ (last check:20141110053746)
3D ImageJ Suite: http://sites.imagej.net/Tboudier/ (last check:20141003004536)
Morphology: http://sites.imagej.net/Landini/ (last check:20140723105558)

Files not up-to-date:
  31beac84 (LOCAL_ONLY) 20140523110906 luts/255_red.lut
  8f04217e (LOCAL_ONLY) 20140730160025 macros/AutoRun/quick_segmentation.ijm
  07b34393 (LOCAL_ONLY) 20140729162244 macros/binarize.ijm
  ee9202e4 (LOCAL_ONLY) 20140627145944 macros/fusion_centers_of_grid.ijm
  d4f4e312 (LOCAL_ONLY) 20140218154529 macros/manualModif.ijm
  29c2eab0 (LOCAL_ONLY) 20140801181242 macros/overlay_red.ijm
  a73e44c5 (LOCAL_ONLY) 20140620135929 macros/saveImageFile.ijm
  2d99fc1d (LOCAL_ONLY) 20140627161532 macros/terminal_branches_skel.ijm
  6964f24e (LOCAL_ONLY) 20140826140950 plugins/ActionBar/Action_Bar$1.class
  5f0d9b2f (LOCAL_ONLY) 20140826140950 plugins/ActionBar/Action_Bar$2.class
  d75b6ac7 (LOCAL_ONLY) 20140826140950 plugins/ActionBar/Action_Bar$3.class
  721175f6 (LOCAL_ONLY) 20140826140950 plugins/ActionBar/Action_Bar.class
  55edd78e (LOCAL_ONLY) 20140826100114 plugins/ActionBar/Close_AB.class
  5f528b8a (LOCAL_ONLY) 20121111202706 plugins/ActionBar/Code_Bar.txt
  bf42f6f3 (LOCAL_ONLY) 20130111104432 plugins/ActionBar/Magic_Montage.txt
  da8b6c01 (LOCAL_ONLY) 20121111202630 plugins/ActionBar/_AnimationBar.txt
  ae0b8ebb (LOCAL_ONLY) 20140127110708 plugins/ActionBar/_Demo.txt
  34f09b1f (LOCAL_ONLY) 20121111202630 plugins/ActionBar/_StickyBarDemo1.txt
  1496e128 (LOCAL_ONLY) 20121111202630 plugins/ActionBar/_StickyBarDemo2.txt
  4c0331a3 (LOCAL_ONLY) 20121111202630 plugins/ActionBar/_ZoomBar.txt
  b3fcedf1 (LOCAL_ONLY) 20121111202630 plugins/ActionBar/_lookuptables.txt
  2e285230 (LOCAL_ONLY) 20140826140544 plugins/ActionBar/createAB.txt
  a16f6bc4 (LOCAL_ONLY) 20121111202706 plugins/ActionBar/design_action_bar.txt
  d59b3d17 (LOCAL_ONLY) 20140828102026 plugins/ActionBar/quick_segmentation.txt
  5c08b2d7 (LOCAL_ONLY) 20140609112752 plugins/IO/IOSettings-12.jar
  0f8f7174 (LOCAL_ONLY) 20140609112752 plugins/IO/Macro_IO_Settings-12.jar
  355d395c (LOCAL_ONLY) 20140609112752 plugins/IO/mri-base-lib-150.jar
  b832d4ce (LOCAL_ONLY) 20140609112752 plugins/IO/mri-comp-lib-150.jar
  8c8fb725 (LOCAL_ONLY) 20140609112752 plugins/IO/mri-util-lib-150.jar
  93fb435c (LOCAL_ONLY) 20140801145840 plugins/Mean_Shift.class
  9ac96a54 (LOCAL_ONLY) 20140522112600 plugins/OrientationJ.txt
  c8bd9352 (LOCAL_ONLY) 20140520145938 plugins/OrientationJ_.jar
  30180f68 (LOCAL_ONLY) 20141110104727 plugins/fourier2.5_.jar

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