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Description
Thank you for providing ScatTR. I tried to run this tool using a human dataset containing the GRCh38 reference fasta, a bam file for chr20 (30x 150 bp PE short reads), and a tandem repeat catalog corresponding to chr20 (N = 25,682). The stats, extract, and define steps appeared to complete without errors, but the final genotype step failed to generate its output file. The message displayed on the console was follows:
Dec 04 10:00:45.048 INFO Loaded haplotype depth distribution with mean = 24.932874627540574
Dec 04 10:00:45.048 INFO Loaded insert size distribution with mean = 444.2482023881525 and sd = 104.3883724298505
Dec 04 10:00:45.048 INFO Loading problem definitions
Dec 04 10:25:26.279 INFO [TR588903] Starting genotype estimation for locus
Dec 04 10:25:27.450 INFO [TR588903] Genotype = 21/149, confidence interval = 21-21/148-149
Dec 04 10:25:27.450 INFO [TR578816] Starting genotype estimation for locus
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
note: run with RUST_BACKTRACE=1 environment variable to display a backtrace
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
thread '' panicked at src/alignment.rs:305:45:
called Option::unwrap() on a None value
Any comments or solutions regarding this issue would be appreciated.