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dbcan 3 start from raw data,I got some problems with step 13 dbcan_utils to calculate the abundance of CAZyme families, subfamilies, CGCs, and substrates #180

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powerby66 opened this issue Jun 24, 2024 · 0 comments
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dbcan_utils fam_abund -bt /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_abund/EscheriaColiK12MG1655.depth.txt -i /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_fna.dbCAN -a TPM
dbcan_utils fam_substrate_abund -bt /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_abund/EscheriaColiK12MG1655.depth.txt -i /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_fna.dbCAN -a TPM
dbcan_utils CGC_abund -bt /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_abund/EscheriaColiK12MG1655.depth.txt -i /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_fna.dbCAN -a TPM
dbcan_utils CGC_substrate_abund -bt /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_abund/EscheriaColiK12MG1655.depth.txt -i /data2/jpc/project/project/db_test/output/EscheriaColiK12MG1655_fna.dbCAN -a TPM
This step shows 'dbcan_utils command not found', so I directly imported utils.py,
image
but there were no results output or error message. What is the correct way to proceed? Thank you!

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@powerby66 powerby66 added the bug Something isn't working label Jun 24, 2024
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