CIGAR and query sequence are of different length with art_illumina

[farchaab]

MeSS version

$ mess -v
mess, version 0.9.0

Describe the bug
Truncated SAM file when simulating reads with art_illumina. The cigar string length is wrongly printed as longer than the maximum read length. Example:

$ sed -n '82315p' NZ_CP033731.0.sam
NZ_CP033731.0-NZ_CP033731.065720	147	NZ_CP033731.0	940764	99	152M	=	940716	-198	TAAGGGAGTAGAACAAATGATTGATATTCAAATTCAAAAATGTGACTTAATTGAAGTAATGAATCAATAATCAATGAAAAGTCGAAGTTGACAATCAAGATGCATGTGAATATTTAGCGACTGAAATTGTGAATGGATTAGAAAGCTACA	CG=GGGGGCGGGGGGCCG8GGGG8GCGCG=CGGGGGCCGGC=CCJJ=CCGGCGG8CGGGCCGGGCG1GCGCGGCCJCGG8GCGGCCGCGCGCGGJGGCGGCJGJ8JGGJGJGGGJJJGJJJGGG8JJJ1JJJJJJJCGGGGGGGGGG=CC

Minimal example

• Files:
  NC.fna.gz
  simulate_test.csv

• Command:

mess simulate -i simulate_test.csv --fasta fasta/ --sdm apptainer --bam

Additional context
Error can be reproduced using samtools 1.20 :

• Files
  SAM

• Command

$ gunzip NZ_CP033731.0.sam.gz
$ samtools view -Sbh NZ_CP033731.0.sam > output.bam
[E::sam_parse1] CIGAR and query sequence are of different length
[W::sam_read1_sam] Parse error at line 1367
samtools view: error reading file "NZ_CP033731.0.sam"