Error in Workflows Mapping #375
Description
Dear Dr. Faircloth,
I am currently trying to run the mapping step of the Phyluce Workflow. Upon running the following:
phyluce_workflow --config mapping.config.yaml \ --output mapping-out \ --workflow mapping \ --cores 20 \
it generates this error:
InputFunctionException in line 48 of /../phyluce-1.7.3/phyluce/workflows/mapping/Snakefile: Error: TypeError: string indices must be integers Wildcards: <...> Traceback: File "/../phyluce-1.7.3/phyluce/workflows/mapping/Snakefile", line 25, in get_fq1
I make my config file based on this template here https://github.com/faircloth-lab/phyluce/blob/main/phyluce/tests/test-conf/mapping.config.yaml, with the first section giving the paths to the "raw-reads" folder of each sample, and the second section to all the contigs. fasta. So, I was wondering what could potentially go wrong here. Thank you very much!
Best Regards,
Tianqi