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chrisquince / STRONG

Strain Resolution ON Graphs
MIT License
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spades finished abnormally, OS return value: -9 on metagenomics data #105

Open marcomeola opened 3 years ago

marcomeola commented 3 years ago

Spades finished abnormally while running through the assembly part in the conda environment. Not sure whether is a RAM issue but at spades (https://github.com/ablab/spades/issues/472) they advised to update to spades version 3.15. Maybe possible tu udpate spades manually within the STRONG conda environment without compromising the whole pipeline? Alternatively would be good considering updating the recipe.

Sebastien-Raguideau commented 3 years ago

In all likelihood it's going to be an issue about insufficient RAM. How big is your dataset and how much RAM do you have available? Update of Spades is tricky, I'll see what can be done.

marcomeola commented 3 years ago

I confirm, increasing the RAM solved that issue