Alignment record is too long.

[hannah-doris]

Hey!

I have been trying to run Binsanity v2.0.0. I am able to produce the featureCounts files but then when I get to Running binning using the bam file I get an error saying that I need to use long read mode. I can not find anywhere in the --help or github page how to run long read mode. The current command I am running is:

Binsanity-profile -i contigs.fa -s sample.bam -c sample1
Binsanity-lc -f . -l contigs.fa -c sample1.cov.x100.lognorm -o sample_binsanity -C 5

I have also tried to run with but I get the same results

Binsanity-wf -f . -l -c sample1.cov.x100.lognorm -o sample_binsanity

Here are my results :

//========================== featureCounts setting ===========================\
|| ||
|| Input files : 1 BAM file ||
|| o D1060.bam ||
|| ||
|| Output file : D1060.bam.readcounts ||
|| Summary : D1060.bam.readcounts.summary ||
|| Annotation : D1060.bam.saf (SAF) ||
|| Dir for temp files : . ||
|| ||
|| Threads : 1 ||
|| Level : meta-feature level ||
|| Paired-end : no ||
|| Multimapping reads : counted ||
|| Multi-overlapping reads : counted ||
|| Min overlapping bases : 1 ||
|| ||
\============================================================================//

//================================= Running ==================================\
|| ||
|| Load annotation file D1060.bam.saf ... ||
|| Features : 373272 ||
|| Meta-features : 373272 ||
|| Chromosomes/contigs : 373272 ||
|| ||
|| Process BAM file D1060.bam... ||
|| ||
|| ERROR: Alignment record is too long. ||
|| Please use the long read mode. ||

FATAL Error: The program has to terminate and no counting file is generated.

How do I run long read mode? Thanks!

Hannah