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I am trying to run TEfinder on the test dataset and it is returning the following error #6

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Subhajeet1997 opened this issue Aug 14, 2023 · 0 comments

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INFO 2023-08-14 20:54:10 FilterSamReads 52 SAMRecords written to Foxy2_DiscordantPairs.bam
[Mon Aug 14 20:54:10 IST 2023] picard.sam.FilterSamReads done. Elapsed time: 0.02 minutes.
Mon Aug 14 20:54:10 IST 2023 TE insertions for HopAY267761 have been reported.

Runtime.totalMemory()=2097152000
Mon Aug 14 20:54:10 IST 2023 Transposon named HopAY267761 is processed.

Mon Aug 14 20:54:10 IST 2023 Filtering original alignment based on discordant reads IDs is complete for Fot1Active

Mon Aug 14 20:54:10 IST 2023 Primary reads from the + strand have been merged if read count greater than 3 for Fot1Active

Mon Aug 14 20:54:10 IST 2023 Primary reads from the - strand have been merged if read count greater than 3 for Fot1Active

Error: The genome file TEfinder_20230814205406/reference.fa.fai has no valid entries. Exiting.

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