Re: Idea wanted: What is the most key open source projects to fight COVID-19?

[Jun Aruga <jaruga@redhat.com>]

> > 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