I am getting the error that my fastq files are not actual fastq files from Centrifuge. Not sure what is wrong with my files. They seem like normal fastq files and have run successfully through other metagenomic pipelines like metaphlan2, but fail with Centrifuge. Here is prep & my command:

nufile=echo $file | cut -d '_' -f 1
if [[ $file == "${nufile}_1.fastq" ]]; then

    echo "Now processing: $nufile"

    centrifuge -x /home/ubuntu/GTDB_r89_54k/gtdb_r89_54k \
        -1 /home/ubuntu/HMP2_MGX/reads/${nufile}_1.fastq \
        -2 /home/ubuntu/HMP2_MGX/reads/${nufile}_2.fastq \
        -q -S ${nufile}_classification \
        --report-file ${nufile}_report.tsv -t -p 32

Here is a sample of my fastq files:

@CAPPMANXX170326:7:1101:10001:90412/1
TTCTAAATGATCAAGACATATTAAATGCTCTATTATACGACCAAAAGGTACTAATAGATATAAAGTGG
+
BBBBBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF<FFFF
@CAPPMANXX170326:7:1101:10004:75175/1
GCAGGGAGAAGACCGCTGTATTGTGGCCATCGAAGTGAACGGCGAAGCAAAGAAGTTCTTCACCAACAGCGAGGAAATGAAG
+
/BBBBFBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFFFFFFFFF
@CAPPMANXX170326:7:1101:10005:95028/1
CTCTTAACACTTATGAGTGGTTCCCTAAAAATACAGATCCATATCCGGTAGAGGCTGTTGATGCTGAATTTATTACCTCGGATATACTTACTTTGCCTGAT

Here is my error:

Time loading forward index: 00:06:00 Error: reads file does not look like a FASTQ file terminate called after throwing an instance of 'int' (ERR): centrifuge-class died with signal 6 (ABRT) (core dumped) `

Any ideas on what could be causing this problem ?