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Type: Bug
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Status: Closed
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Priority: Major
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Resolution: Fixed
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Affects Version/s: 34
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Fix Version/s: 35
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Component/s: Basic-Nucl
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Story Points:3
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Epic Link:
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Sprint:DEV-35-2
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Affect Type:Userdefined
See the attached "chr1-10000-lines.gtf" file. This data were downloaded from UCSC and should be considered as valid. However, UGENE outputs a lot of messages into the log like:
[TRACE] GTF parsing error: invalid attributes format at line 9950!
And an error message:
[ERROR]GTF parsing error: one or more errors occurred while parsing the input file, see TRACE log for details!
It seems the problem is additional space characters in a line. Fix the issue in a similar way as UGENE-6406, i.e. open the file without errors, however write the following INFO message:
The 'file_name' file GTF format is not strict — there are unexpected whitespace characters in some lines.
- relates to
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UGENE-6406 GTF parsing errors for chr20.gtf
- Closed