BWA index getting killed

Question

[abbysue]

I'm trying to index fastq files using this command

bwa index -p testbwaidx -a bwtsw test.fastq

However, the process keeps getting killed after ~10 minutes despite having 53G of memory open. Here's the error message

[bwa_index] Pack FASTA...
Killed

Answer 1

[swbarnes2]

Why are you trying to index a fastq file?

You are supposed to index your reference file, not your read file. Your reference file should be fasta format.

[abbysue]

I realized that recently, stupid mistake by me. Thanks!!

[GenoMax]

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