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ablab / spades

SPAdes Genome Assembler
http://ablab.github.io/spades/
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== Error == system call for: "[~~~]" finished abnormally, OS return value: -7 #482

Open maorkn opened 4 years ago

maorkn commented 4 years ago

hey, I'm trying to RNAspades on paired Illumina reads which didn't align to my reference. and I'm getting the following error: == Error == system call for: "['/apps/RH7U2/gnu/SPAdes/3.14.0/bin/spades-core', '~/spadesOutput3/K73/configs/config.info', '~/spadesOutput3/K73/configs/mda_mode.info', ~/spadesOutput3/K73/configs/rna_mode.info']" finished abnormally, OS return value: -7

params.txt spades.log

also, should I be using --isolate if I have different individuals in each library/file pair?

thanks a lot for your help

asl commented 4 years ago

Hello

Thank you for your interest in SPAdes. It's likely an I/O problem at your side. Do you have enough free space available?

maorkn commented 4 years ago

how much space should I allocate? at the moment I'm allocating 20gb RAM at 5 cores. any other suggestions?