Segmentation fault (core dumped) after loading contigs from BAM file

[vmkalbskopf]

Hi

I am trying to run gencore on sorted RNA reads mapped with STAR. The input bam file is 708 MB. The reference genome is 22MB. Here is the command I used to run gencore:

 `gencore -i mapped_reads/R51 -o gencore_bams/R51_gencore.bam -r PlasmoDB-39_PrelictumSGS1-like_Genome.fasta --debug`

It reads in the ref file great, then it lists all the contigs present in the BAM file. Then it crashes:

Starting contig 0 Segmentation fault (core dumped)

I installed gencore using conda.