search

KChen-lab / Monopogen

SNV calling from single cell sequencing
GNU General Public License v3.0
68 stars 16 forks source link

region "-o" specifies an unknown reference name #51

Open ariannadib opened 2 months ago

ariannadib commented 2 months ago

HI! I'm having a problem with the cellScann module, in particular I can't understand the reason for this error: INFO Monopogen.py Get single cell level information from sequencing data... INFO:main:Get single cell level information from sequencing data... [main_samview] region "-o" specifies an unknown reference name. Continue anyway. [main_samview] region "/Users/Arianna/Monopogen/out_D545/Bam/chr1.filter.targeted.bam" specifies an unknown reference name. Continue anyway.

the samtools version should be the correct one (samtools 1.2, htslib1.2.1)

jinzhuangdou commented 2 months ago

Do you still have such issue?