Task #12598 (closed)
Opened 10 years ago
Closed 9 years ago
Bug: GatanReader/DM3 initFile negative array index
| Reported by: | omero-qa | Owned by: | mlinkert |
|---|---|---|---|
| Priority: | major | Milestone: | 5.1.1 |
| Component: | Bio-Formats | Version: | 5.0.5 |
| Keywords: | n.a. | Cc: | |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | n.a. |
| Sprint: | n.a. |
Description
http://qa.openmicroscopy.org.uk/qa/feedback/10298/
% showinf 10298/MoS2Lamella1_0005.dm3
Checking file format [Gatan Digital Micrograph]
Initializing reader
GatanReader initializing 10298/MoS2Lamella1_0005.dm3
Verifying Gatan format
Reading tags
Populating metadata
Not adjusting for unknown units:
Unknown Correction value 'Unknown' will be stored as "Other"
Unknown Immersion value 'Unknown' will be stored as "Other"
Exception in thread "main" java.lang.StringIndexOutOfBoundsException: String index out of range: -1
at java.lang.String.substring(String.java:1911)
at loci.formats.in.GatanReader.initFile(GatanReader.java:287)
at loci.formats.FormatReader.setId(FormatReader.java:1321)
at loci.formats.ImageReader.setId(ImageReader.java:753)
at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:569)
at loci.formats.tools.ImageInfo.testRead(ImageInfo.java:992)
at loci.formats.tools.ImageInfo.main(ImageInfo.java:1074)
All of the images result in the same exception.
Change History (3)
comment:1 Changed 10 years ago by rleigh
- Component changed from from QA to Bio-Formats
- Priority changed from minor to major
comment:2 Changed 9 years ago by mlinkert
- Milestone changed from Unscheduled to 5.1.1
comment:3 Changed 9 years ago by jburel
- Resolution set to fixed
- Status changed from new to closed
The problem has been fixed
The 3 files submitted now opened w/o any problems.
Closing
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Moving to 5.1.1 for triage.