Bug: CZI does not support multiple file reading

[omero-qa]

Multi-file support does not appear to work correctly:

​https://www.openmicroscopy.org/qa2/qa2/qa/feedback/7271/
​http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20130523/57117226/attachment.html

% CLASSPATH=artifacts/loci_tools.jar LOCI_DEVEL=1 ./tools/showinf /ome/apache_repo/7271/bioformats_multifile.czi
Checking file format [Zeiss CZI]
Initializing reader
Unknown segment type: DELETED
Unknown segment type: DELETED
Unknown segment type: ZISRAWATTDIR
Exception in thread "main" java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
	at java.util.ArrayList.RangeCheck(ArrayList.java:547)
	at java.util.ArrayList.get(ArrayList.java:322)
	at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:386)
	at loci.formats.FormatReader.setId(FormatReader.java:1183)
	at loci.formats.ImageReader.setId(ImageReader.java:727)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:529)
	at loci.formats.tools.ImageInfo.testRead(ImageInfo.java:992)
	at loci.formats.tools.ImageInfo.main(ImageInfo.java:1035)

[mlinkert]

See also ​https://www.openmicroscopy.org/qa2/qa/feedback/7276/

[rleigh]

From Lorenz Maier:

I've just uploaded a new set of multi-file images (QA 7276, "Experiment-297.czi"), because even the original Zeiss "Zen blue" software has problems opening the first set of files since I renamed them to bioformats_multifile.czi.

The exception noted in Ticket 10966 remains the same as before.

I was already referring to the new set of files when I wrote to the mailing list about the expected dimensions.

On the QA site I've also tried to note this, but I get a "CSRF verification failed" message when I'm not logged in. I tried registering and logging in, but then it does not accept my password (on 2 accounts I tried).

[jburel]

Moved from sprint FS Demo 4.3

[mlinkert]

See ​https://github.com/openmicroscopy/bioformats/pull/562

The forthcoming 5.0.0-beta1 builds will contain these changes.