ERROR: File supplied on command line; use -s, -pacbio-raw, -pacbio-corrected, -nanopore-raw, or -nanopore-corrected
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4.2 years ago

Hi everyone, I have tried to run the tutorial on ecoli supplied on the CANU readthedocs http://canu.readthedocs.io/en/latest/quick-start.html. I downloaded the supplied pacbio file and run the script, and then: ERROR: File supplied on command line; use -s, -pacbio-raw, -pacbio-corrected, -nanopore-raw, or -nanopore-corrected. Have anyone experienced this before or have a explanation?

Assembly CANU • 1.3k views
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I've never used CANU, but have you tried adding the flag "-pacbio-raw"?

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I just tried it, and it didn't help.

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got answer? having same problem

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3.6 years ago
lagartija ▴ 140

I use these flags for the inputs and it works. Are you sure that you have correctly downloaded the fastq or fasta file ? Can you copy your entire canu command so we can see ?

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