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Task #12938 (new)

Opened 6 years ago

Last modified 5 years ago

Text image file support

Reported by: omero-qa Owned by:
Priority: minor Milestone: Unscheduled
Component: Bio-Formats Version: 5.1.2
Keywords: new-format, external Cc: pognonec@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.


Comment: This is a .txt image file, that can be open succesfuly in ImageJ through File/Import/Text? Image. OMERO nimporter does not recognize it though (Unknown format). Is there a way to load that type of images onto OMERO nevetheless?

loci.formats.UnknownFormatException: Unknown file format: /home/philippe/Desktop/PHA aplani_ SID4Bio 20130727-071005.935.txt
	at loci.formats.ImageReader.getReader(
	at loci.formats.ImageReader.setId(
	at loci.formats.ReaderWrapper.setId(
	at loci.formats.ChannelFiller.setId(
	at loci.formats.ReaderWrapper.setId(
	at loci.formats.ChannelSeparator.setId(
	at loci.formats.ReaderWrapper.setId(
	at loci.formats.Memoizer.setId(
	at loci.formats.ReaderWrapper.setId(
	at ome.formats.importer.ImportCandidates.singleFile(
	at ome.formats.importer.ImportCandidates.handleFile(
	at ome.formats.importer.ImportCandidates.execute(
	at ome.formats.importer.ImportCandidates.<init>(
	at ome.formats.importer.ImportCandidates.<init>(
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$

Change History (3)

comment:1 Changed 6 years ago by jburel

Card added to trello board
Ticket to link all the pieces together

comment:3 Changed 5 years ago by mlinkert

  • Component changed from from QA to Bio-Formats
  • Keywords new-format external added
  • Owner mlinkert deleted

Not sure there is anything we can do with QA 11132 - those don't look like images. The QA 11126 file should be easy to parse - the only difficult part is figuring out how to do type detection, since there is no unique extension or header. Note that we do have a TextReader? already, but it reads a different format of text pixels (see data_repo/curated/text).

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