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No error code metaspades just terminate after 13 hours of running kmer counting #1317

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stopguessingwho1am opened this issue Jun 20, 2024 · 3 comments
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outdated Issues with legacy SPAdes versions

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@stopguessingwho1am
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Description of bug

My HPC job is set to run for 3 + days, I sent 3 jobs all of them terminate at 13 hours mark idk what is wrong

spades.log

spades.log

params.txt

params.txt

SPAdes version

Spades 4.0

Operating System

linux hpc

Python Version

No response

Method of SPAdes installation

manual

No errors reported in spades.log

  • Yes
@asl
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asl commented Jun 20, 2024

SPAdes 3.13.0 you are using is ancient. Please try the latest SPAdes 4.0

@asl asl added the outdated Issues with legacy SPAdes versions label Jun 20, 2024
@stopguessingwho1am
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SPAdes 3.13.0 you are using is ancient. Please try the latest SPAdes 4.0

May I ask how to update to spades 4.0 on hpc ;-; Conda doesnt work :( and I also tried to drag the downloaded packet to my hpc but it cannot activate

@asl
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asl commented Jun 20, 2024

May I ask how to update to spades 4.0 on hpc ;-; Conda doesnt work :( and I also tried to drag the downloaded packet to my hpc but it cannot activate

You may want to ask your system administrator for this. Conda definitely contains 4.0

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