[ImageJ-bugs] [Bug 901] Fiji cannot open stacks

[bugzilla at fiji.sc]

http://fiji.sc/bugzilla/show_bug.cgi?id=901

Curtis Rueden <ctrueden at wisc.edu> changed:

           What    |Removed                     |Added
----------------------------------------------------------------------------
             Status|NEW                         |CONFIRMED
                 CC|                            |ctrueden at wisc.edu

--- Comment #2 from Curtis Rueden <ctrueden at wisc.edu> ---
No need to upload sample data; we already have MM datasets demonstrating this
issue, which I just confirmed still occurs with the most recent version of Fiji
with SCIFIO enabled.

Relevant stack trace is:

java.lang.ArrayIndexOutOfBoundsException: 2
    at
io.scif.formats.MicromanagerFormat$Position.getFile(MicromanagerFormat.java:870)
    at
io.scif.formats.MicromanagerFormat$Reader.openPlane(MicromanagerFormat.java:757)
    at
io.scif.formats.MicromanagerFormat$Reader.openPlane(MicromanagerFormat.java:721)
    at io.scif.AbstractReader.openPlane(AbstractReader.java:167)
    at io.scif.filters.ChannelFiller.openPlane(ChannelFiller.java:170)
    at io.scif.filters.ChannelFiller.openPlane(ChannelFiller.java:151)
    at io.scif.filters.PlaneSeparator.openPlane(PlaneSeparator.java:297)
    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:808)
    at io.scif.img.ImgOpener.read(ImgOpener.java:793)
    at io.scif.img.ImgOpener.read(ImgOpener.java:793)
    at io.scif.img.ImgOpener.read(ImgOpener.java:775)
    at io.scif.img.ImgOpener.readPlanes(ImgOpener.java:761)
    at io.scif.img.ImgOpener.openImgs(ImgOpener.java:362)
    at io.scif.img.ImgOpener.openImgs(ImgOpener.java:257)
    at io.scif.img.ImgOpener.openImgs(ImgOpener.java:145)
    at net.imagej.DefaultDatasetService.open(DefaultDatasetService.java:266)
    at net.imagej.DefaultDatasetService.open(DefaultDatasetService.java:250)
    at net.imagej.io.DatasetIOPlugin.open(DatasetIOPlugin.java:78)
    at net.imagej.io.DatasetIOPlugin.open(DatasetIOPlugin.java:50)
    at
net.imagej.legacy.plugin.DefaultLegacyOpener.open(DefaultLegacyOpener.java:136)
    at
net.imagej.legacy.DefaultLegacyHooks.interceptFileOpen(DefaultLegacyHooks.java:327)
    at
net.imagej.legacy.DefaultLegacyHooks.interceptRunPlugIn(DefaultLegacyHooks.java:150)

Using the dataset in our data repository's micromanager/colin folder.

-- 
You are receiving this mail because:
You are the assignee for the bug.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://imagej.net/pipermail/imagej-bugs/attachments/20140825/6254c27e/attachment-0001.html>