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Question: How to debug VT normalize on the Galaxy cloud instance?
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gravatar for msprindzhuk
21 months ago by
msprindzhuk • 50
msprindzhuk • 50 wrote:

How to debug VT normalize on the Galaxy cloud instance?

Here is the log:

Dataset 116: VT normalize on data 23, data 21, and data 105 Tool execution generated the following error message:

Fatal error: Exit code 1 () [genome_interval.cpp:94 set] Invalid genomic interval: CP003248.2 0 4411709 region 0 +

Thank you
vttools amazon vcf vt cloud • 445 views
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modified 20 months ago by Jennifer Hillman Jackson ♦ 25k • written 21 months ago by msprindzhuk • 50
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gravatar for Jennifer Hillman Jackson
20 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

This looks like an input format or metadata problem. Double check the interval file to ensure all lines contain the expected data content and that the metadata is assigned correctly.

Click on the pencil icon per dataset to reassign datatype or to modify the metadata column assignments on the Edit Attribute forms.

Thanks, Jen, Galaxy team
ADD COMMENT • link written 20 months ago by Jennifer Hillman Jackson ♦ 25k
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