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I tried to run the pipeline but as a new user, I got some difficulties. I have 8 fastq files and tried to make the files necessary to run the pipeline.
If you are working on SCG cluster, then run caper init slurm and follow instruction in the configuration file ~/.caper/default.conf (e.g. define slurm partition name).
Yes, replace "${INPUT_JSON}" with your input JSON file path. Your input JSON looks good.
I tried to run the pipeline but as a new user, I got some difficulties. I have 8 fastq files and tried to make the files necessary to run the pipeline.
OS/Platform
Input JSON file
Here is my json file:
I am not sure what to put in the input file because I see there is a section name input file in the instruction. Is it something like this?
After having a correct json file, I should run:
Is that correct? Thank you so much 😃.
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