Anacapa is a toolkit designed to construct reference databases and assign taxonomy, from eDNA sequences.
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Run the obiconvert command from the anacapa Singularity image.
Important: You need to change every instance of /home/your_home_directory in the below command to your actual home directory (this is because obiconvert requires absolute paths). To find your home directory path, type cd ~ and then pwd. Use the path that this displays to replace the /home/your_home_directory.
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singularity exec /home/whatmorp/nextflow/pia_eDNAFlow/Anacapa/anacapa-1.5.0.img /bin/bash /home/whatmorp/nextflow/pia_eDNAFlow/Anacapa/anacapa/Anacapa_db/anacapa_classifier.sh -o /home/whatmorp/nextflow/pia_eDNAFlow/Anacapa/16Smam_anacapa_output -d /home/whatmorp/nextflow/pia_eDNAFlow/Anacapa/anacapa/Anacapa_db -l |
chmod 777 /home/whatmorp/nextflow/pia_eDNAFlow/Anacapa/16Smam_anacapa_output/Run_info/run_scripts/16Smam_bowtie2_blca_job.sh
Cleanup
Running the anacapa workflow involves downloading and generating various large databases. These will just take up space on the HPC unless removed.
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