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Isoseq3 : Floating point exception

Greetings, I have Isoseq3 installed in the conda environment and worked in refine step, [unnamed.png] Here is my original "refine" step script: enter image description here

I looked over isoseq 3 guide (see the refine step), it just shows Floating point exception error

enter image description here

Just FYI, the input ccs files can be either <movie.primer--pair>.fl.bam or <movie.primer--pair>.fl.consensusreadset.xml, I have tried using .xml files as input ccs, still got the same floating point exception messages, and none of input files are empty If you have suggestions, please let me know, thank you!

pacbio isoseq
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updated by GenoMax GenoMax • written by slin023 • slin023

Make sure you're using an ECC RAM machine.

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written by andorjkiss • andorjkiss

can you be more clear, please? I just use campus HPC cluster to run the job

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written by slin023 • slin023

A HPC cluster should have nodes with ECC RAM (error correcting).

@magdoll I believe works at PacBio so based on the comment below it sounds like it would best for you to email PacBio support for help with this.

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written by GenoMax GenoMax

1 answer

Hi, just an FYI - if this issue doesn't resolve you can always email PacBio tech support, support@pacb.com, so they can assist you. Good luck!

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written by magdoll • magdoll

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