Re: Idea wanted: What is the most key open source projects to fight COVID-19?
On Tue, May 12, 2020 at 03:53:36AM +0200, Steffen Möller wrote:
> On 11.05.20 22:23, Andreas Tille wrote:
> > The current result can be found here
> > https://salsa.debian.org/blends-team/med/-/blob/master/covid-19_doc/bio_covid-19_dependencies_result
> I was hoping you would come up with something like this :o)
> @Jun, there is a database at udd.debian.org describing the packages in
> the distribution - including references to Conda and bio.tools.
OK, since you were asking for it, just check latest query result:
> > > I want to improve the situation contributing to nf-core project eventually.
> > I guess we all have a common interest. :-)
> > > > > cat
> > > > -> https://github.com/dutilh/CAT
> > > > BTW, its not a good idea to name a tool like a pretty generid UNIX command
> > > By the way, Steffen,
> > > Just keep in mind. "cat" is not the regular UNIX command's "cat", but
> > > "CAT", as Andreas mentioned it.
> > But its a proof that my remark about some unfortunate choice of the name
> > that Steffen misunderstood the package request.
> Just to truly stress the importance to not name a tool after an existing
> UNIX command, I cordially insist on changing this back to the UNIX cat.
> It is just upstream concatenating fastq files and they are doing this
> with a regular cat. You will also note that CAT is not listed on
> https://github.com/nf-core/viralrecon/blob/dev/environment.yml. And they
> give a ref to the UNIX tool in the readme.
> So, while I agree that we should package CAT, it looks like they indeed
> meant that good ole four-legged one.
Hmmm, would you mind filing an issue in the CAT bug tracker to change
the unfortunate name?