Ticket #667 (closed defect: fixed)
Opened 2011-07-08T16:44:36-05:00
Last modified 2011-08-11T13:32:08-05:00
Stack To Images problematic with RGB input
| Reported by: | bdezonia | Owned by: | bdezonia |
|---|---|---|---|
| Priority: | major | Milestone: |
|
| Component: | Legacy Compatibility | Version: | |
| Severity: | serious | Keywords: | |
| Cc: | Blocked By: | ||
| Blocking: |
Description
The stack to images command does not react well with RGB data. Open Leaf and Edit Colors to grayscale. Now try Stack To Images. Usually it will complain that a stack is required. Sometimes it will reset the view luts so that the image colors change. And sometimes it throws an exception:
java.lang.IndexOutOfBoundsException: Index: 1, Size: 1
at java.util.ArrayList.RangeCheck(ArrayList.java:547)
at java.util.ArrayList.get(ArrayList.java:322)
at imagej.display.AbstractDatasetView.updateLUTs(AbstractDatasetView.java:298)
at imagej.display.AbstractDatasetView.setColorTable(AbstractDatasetView.java:135)
at imagej.legacy.LegacyUtils.assignColorTables(LegacyUtils.java:1187)
at imagej.legacy.LegacyUtils.setDisplayLuts(LegacyUtils.java:748)
at imagej.legacy.DatasetHarmonizer.updateDisplay(DatasetHarmonizer.java:165)
at imagej.legacy.plugin.LegacyPlugin.postPluginHarmonization(LegacyPlugin.java:164)
at imagej.legacy.plugin.LegacyPlugin.run(LegacyPlugin.java:109)
at imagej.plugin.PluginRunner.run(PluginRunner.java:84)
at imagej.plugin.PluginManager$1.run(PluginManager.java:151)
at java.lang.Thread.run(Thread.java:680)
Change History
comment:1 Changed 2011-07-11T14:16:57-05:00 by bdezonia
comment:2 Changed 2011-07-29T14:01:29-05:00 by bdezonia
- Milestone changed from biweekly-2011: Jul-18 to Jul-29 to imagej-2.0-alpha5
comment:3 Changed 2011-08-11T13:32:08-05:00 by bdezonia
- Status changed from new to closed
- Resolution set to fixed
Fixed in 97ba2789250130ab526723082e0e3b2bc82b968f.
After fixing an issue with RGB data in DatasetHarmonizer (272a63e1739a422394bcbe72707d58e966e17409) I can no longer duplicate the exception.
But the lut changing is still happening. Basically the plugin sees the input data is invalid and does nothing. But the Harmonizer assumes things have changes and manipulates the ColorTables. The LUT/ColorTable code is inconsistent.