Open haleyhallowell opened 1 year ago
Hi Haley,
Are you still experiencing this issue? If so, could you show what your package versions are for all the tools in your vRhyme
environment?
Cody
It may be possible that no reads within any bam files specified had any alignments to the sequences input. The error message is actually a little misleading. This error can pop up after the bam files have been converted into the coverage table. Check "vRhyme_coverage_files/vRhyme_coverage_values.tsv" and make sure it's not empty.
hi, I have the same problem. i use my own data with the following code : vRhyme -i fasta -g genes -p proteins -r paired_reads_folder/*.fastq -t threads -o output_folder --method longest I get this error: Error. No file(s) for coverage information were identified. Check coverage inputs (c/b/s/r/u/v). Exiting.
Hello!
Super pumped to try out vRhyme. I followed instructions in downloading/installing from source and using pip to a conda environment.
test_vRhyme.py
as well as a test run with example data worked perfectly. However, when i use my own data with the following code :vRhyme -i all_vOTUs_combined_virome.fna -b bam_files/*.bam
I get this error:
I'm confused because i am specifying .bam files, which seems like should be enough to calculate coverage. Any ideas of fixing this? Thanks!