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BWA ERROR on Terminal: [E::bwa_idx_load_from_disk] fail to locate the index files

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Hi I have created the index files for my reference genome following the guidelines and had no errors.

This is what I wrote:

$PICARD CreateSequenceDictionary \
REFERENCE=Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa \
OUTPUT=Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.dict

samtools faidx Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa

bwa index -a bwtsw Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa

When I try to use the command:

bwa mem -M -t 1 -p Path/to/Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa \
HEX-50_samtofastq_interleaved.fq > HEX-50_bwa_mem.sam

I get this error:
[E::bwa_idx_load_from_disk] fail to locate the index files

Everything is within the same directory, so what have I done wrong here?


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