Hi,
I also tried my luck to find the source code for guppy base caller - but
failed. It would of great help if somebody could find out.
Thanks a lot Jun for giving detailed hints so far
Andreas.
On Fri, Apr 24, 2020 at 08:41:22PM +0200, Jun Aruga wrote:
> > > https://github.com/nf-core/nanoseq/blob/master/bin/scrape_software_versions.py
> > > guppy
> > Missing in Debian. Is it this project
> > https://staff.aist.go.jp/yutaka.ueno/guppy/ ?
>
> Hi, Andreas,
> No, it seems that guppy is a base caller provided by Oxford Nanopore
> technologies.
>
> ```
> $ pwd
> /home/jaruga/git/nf-core/nanoseq
>
> $ grep -r guppy *
> ...
> conf/base.config: container = 'genomicpariscentre/guppy-gpu:3.4.4'
> conf/base.config: container = 'genomicpariscentre/guppy:3.4.4'
> ...
>
> Then check the containers Dockerfile.
>
> https://hub.docker.com/r/genomicpariscentre/guppy/dockerfile
> > wget -q https://mirror.oxfordnanoportal.com/software/analysis/ont_guppy_cpu_${PACKAGE_VERSION}-1~xenial_amd64.deb
>
> https://hub.docker.com/r/genomicpariscentre/guppy-gpu/dockerfile
> > wget -q https://mirror.oxfordnanoportal.com/software/analysis/ont_guppy_${PACKAGE_VERSION}-1~xenial_amd64.deb
> ```
>
> It might not be open source software, seeing the following page.
> Here is a user's page about guppy in Japanese. I could not find the
> English page.
> You can see the guppy's screen shot on
> https://community.nanoporetech.com/downloads page.
>
> http://kazumaxneo.hatenablog.com/entry/2020/01/19/145940
>
> > Thanks again Jun for your very helpful contribution
>
> You are welcome. Let me comment on your comments later.
>
> Cheers,
> Jun
>
> --
> Jun | He - His - Him
>
>
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