Installing dorado

[CHoeeghGuldberg]

Issue Report

Please describe the issue:

I cannot get dorado installed correctly so that it will run. I keep getting the error "dorado: command not found".

Steps to reproduce the issue:

After downloading the .tar archive (dorado-0.6.0-linux-arm64.tar.gz) I unpacked the archive using:

tar -xf dorado-0.6.0-linux-arm64.tar.gz

After that I tried to run:

dorado -h

However I get the error message "dorado: command not found".

Run environment:

• Dorado version: 0.6.0
• Dorado command: dorado -h
• Operating system: Linux
• Hardware (CPUs, Memory, GPUs):
• Source data type (e.g., pod5 or fast5 - please note we always recommend converting to pod5 for optimal basecalling performance):
• Source data location (on device or networked drive - NFS, etc.):
• Details about data (flow cell, kit, read lengths, number of reads, total dataset size in MB/GB/TB):
• Dataset to reproduce, if applicable (small subset of data to share as a pod5 to reproduce the issue):

Logs

(base) cguld@node1:~/barcodes/dorado$ dorado -v dorado: command not found

[HalfPhoton]

@CHoeeghGuldberg, Has dorado been added to your $PATH? Can you try ./dorado -v please?

Kind regards, Rich

[sklages]

@CHoeeghGuldberg -- you could also run dorado by calling it with its absolute path, e.g. /path/to/dorado-0.6.0-linux-x64/bin/dorado.

Your archive name suggests that you don't have downloaded dorado, but guppy .. see https://github.com/nanoporetech/dorado?tab=readme-ov-file#installation

[malton-ont]

Hi @CHoeeghGuldberg,

The dorado executable is not included with guppy 6.5. If you want the latest dorado you should download the binary package as described in https://github.com/nanoporetech/dorado/blob/release-v0.6.0/README.md#installation

[CHoeeghGuldberg]

Hi @CHoeeghGuldberg,

The dorado executable is not included with guppy 6.5. If you want the latest dorado you should download the binary package as described in https://github.com/nanoporetech/dorado/blob/release-v0.6.0/README.md#installation

My bad, I added the wrong .tar archive in my question. This is the one I used: dorado-0.6.0-linux-arm64.tar.gz. I have tried to install both today, and apologize for the mix up.

I have also now edited my question to reflect this.

[CHoeeghGuldberg]

@CHoeeghGuldberg, Has dorado been added to your $PATH? Can you try ./dorado -v please?

Kind regards, Rich

Hi Rich, I tried what you suggested and this is what came up.

(base) cguld@node1:~/barcodes/dorado/dorado-0.6.0-linux-arm64/bin$ ./dorado -v bash: ./dorado: cannot execute binary file: Exec format error

[malton-ont]

@CHoeeghGuldberg,

You have downloaded the arm64 version - is that correct for your system? The error message suggests perhaps you need the x86-64 build.