Sequence 1 not found at MaSuRCA/4.0.9-foss-2021a-Perl-5.32.1/bin/output_reconciled_scaffolds.pl line 36, <STDIN> line 1.

[max-baer]

Hello Masurca developers,

When running chromosome_scaffolder.sh I run into the following error:
Sequence 1 not found at MaSuRCA/4.0.9-foss-2021a-Perl-5.32.1/bin/output_reconciled_scaffolds.pl line 36, line 1.

Command line:
chromosome_scaffolder.sh -r ../trichuris_trichiura.fa -q ../primary.genome.scf.fasta -t 16 -nb

masurca version:
MaSuRCA/4.0.9-foss-2021a-Perl-5.32.1

Any ideas what might be going wrong?

Best,
Max

[adarsh-pp]

Hi Max

Did you find any solution for this issue? I got a similar error with the following command:
chromosome_scaffolder.sh -r NC_029243.1.fasta -q assembly.fasta -t 30 -nb

Regards,
Adarsh