Hi,
first of all, thank you for circompara2 tool.
I've tried both the 'quick install' and docker installation.
However, when I run the pipeline, I encounter the following error :
'requested chromosome chr1 does not exist in the genome file circular_expression/circrna_linexp/chr_len.genome' .
The command that raises the error is :
parallel --pipepart -k -j 8 -a circular_expression/circrna_linexp/sorted_sn_circ.gtf --block -10 "bedtools coverage -counts -sorted -g circular_expression/circrna_linexp/chr_len.genome -a stdin -b samples/ERR315479/processings/hisat2_out/ERR315479_hisat2.bam" > circular_expression/circrna_linexp/ERR315479_bks_linear_counts.tab
Could you please provide some guidance on how to resolve this issue? Thank you!
Hi, first of all, thank you for circompara2 tool. I've tried both the 'quick install' and docker installation. However, when I run the pipeline, I encounter the following error :
'requested chromosome chr1 does not exist in the genome file circular_expression/circrna_linexp/chr_len.genome' .
The command that raises the error is : parallel --pipepart -k -j 8 -a circular_expression/circrna_linexp/sorted_sn_circ.gtf --block -10 "bedtools coverage -counts -sorted -g circular_expression/circrna_linexp/chr_len.genome -a stdin -b samples/ERR315479/processings/hisat2_out/ERR315479_hisat2.bam" > circular_expression/circrna_linexp/ERR315479_bks_linear_counts.tab
Could you please provide some guidance on how to resolve this issue? Thank you!