Hi Ben, On Wed, Mar 25, 2020 at 02:05:34PM +0100, Ben Tris wrote: > > This way I direct from FSD to Debian Med, (and maybe other) consider it > a FSD special. > > It also acts as a tasklist for people (like myself) to add and update > entries. > > That is where my focus will be.
I fully accept your focus. But you could automatically generate your page by accessing the publicly available UDD[1] mirror[2]. So you can get all the data in you manual page (with exception of the FSD id) automatically updated. It would simply be a shame if you would waste your time on manual updates. Hope this helps Andreas. [1] https://wiki.debian.org/UltimateDebianDatabase/ [2] https://udd-mirror.debian.net/ > On 25-03-20 12:31, Andreas Tille wrote: > > Hi Tris, > > > > On Wed, Mar 25, 2020 at 12:02:17PM +0100, Ben Tris wrote: > >> Thanks, Andreas, > >> > >> This is the title now: COronaVIrus Disease 2019 (COVID-19) Special: Free > >> Software Directory > >> > >> https://qa.debian.org/developer.php?email=debian-med-packaging%40lists.alioth.debian.org > > I'd like to repeat that I consider it more sensible not to check what > > we package (which might be basic predependencies) but what we consider > > helpful for certain tasks: > > > > https://blends.debian.org/med/tasks/ > > > > This gives you a preselection including detailed descriptions. Have you > > ever checked these out? Your link is really not that helpful. > > > >> That is my base, only non-free I will not use. > > The tasks are listing non-free in a separate section. Just ignore this. > > > >> The packages now listed seem to be updated from source this year. (Have > >> 74 more to list) > > Sure. We are working a bit. ;-) > > > >> Now Im going to insert an extra column with COVID-19 YES/NO (something > >> like that) > >> > >> Then Im going to insert 74 more packages. > >> > >> Eventually I want to expand it and list every package from that page. > >> > >> Everything I do is not automated, it takes some time. > > The task pages are **fully** automated just based on a more or less > > simple list. You simply add "Recommends" here: > > > > https://salsa.debian.org/blends-team/med/-/blob/master/tasks/covid-19 > > > > everything else is rendered right after pushing. > > > >> Im not a coder etc and not involved with Debian internals. > > Help from everybody is perfectly welcome. But I'd recommend to > > save your time from maintaining manual html pages. We invented > > the automated tasks pages since this is no fruitful work. > > > >> I am not related to work in health care. > > Would you mind explaining your background? > > > >> Thank you for reviewing, It takes more time for me to invest this > >> correspondings. > >> > >> For the next couple of days I will only inform If Im sure a package is > >> COVID-19 related. > > > > Simply tell me what binary packag is missing here > > > > https://salsa.debian.org/blends-team/med/-/blob/master/tasks/covid-19 > > > > which is rendered here > > > > https://blends.debian.org/med/tasks/covid-19 > > > > Thanks a lot for your input > > > > Andreas. > > > >> On 25-03-20 10:49, Andreas Tille wrote: > >>> Hi Ben, > >>> > >>> On Tue, Mar 24, 2020 at 10:51:07PM +0100, Ben Tris wrote: > >>>> I have put up a list with recent updated Debian Med packages. > >>> Could you please explain on what basis you assembled this list. > >>> > >>> To give only two examples that make me wondering about this: > >>> > >>> kleborate - tool to screen Klebsiella genome assemblies > >>> > >>> Well, I injected this package since it helps my colleagues and its a > >>> useful package, thought. However, I fail to see the connection between > >>> Klebsiella and COVID-19. > >>> > >>> libspdlog-dev - Very fast, header only or compiled, C++ logging library > >>> (source: spdlog mentioned in your list) > >>> > >>> Well, sure this is used in some of our Debian Med packages. But adding > >>> this to such a list opens the question why you leave out libc and linux > >>> kernel. IMHO we need to track issues inside these packages via > >>> dependencies. I plan to enhance our Blends QA tools by a page which > >>> lists testing migration issues that are showing issues inside dependant > >>> packages. Similarly with libopencv-dev (source opencv). > >>> > >>> We have lots of packages that might be more relevant currently on our > >>> med-bio list[1] (which you hopefully consulted when you assembled your > >>> list). > >>> > >>>> Also inviting to update or add entries to the Free Software Directory. > >>>> > >>>> https://www.gezapig.nl/debianmedcovid.html > >>> In your list you are naming source packages. The Blends framework is > >>> based on binary packages so I will translate this to the probably most > >>> relevant binary package. Regarding debian-science I admit I do not > >>> really know what exactly you might have in mind. Debian-Science > >>> contains *a huge amount* of packages. Do you consider some specific > >>> metapackage more relevant? > >>> > >>> In any case I have added the extract of your list[2] to the covid-19 > >>> task. I admit if you want changes here I'd really appreciate merge > >>> requests (or simply send me a diff to the list I attached to this mail: > >>> sourcepkg.list is basically column three of your web page above and > >>> pkg.list is my translation to binary packages). > >>> > >>>> Debian Meds r-cran-surveillance relates to predicting outbreaks? . > >>> Well, probably I could cut-n-paste the whole med-epi task. So I did in > >>> my latest commit[3]. Rendering the web pages will take say one hour > >>> after pushing the new data. > >>> > >>> As a first work item: I remember that I failed to solve bug #813821 > >>> (of source package pynn - see my bug log). > >>> > >>>> May be interesting: > >>>> > >>>> https://www.eff.org/deeplinks/2020/03/embracing-open-science-medical-crisis-0 > >>>> > >>>> With these mentioned links > >>>> > >>>> https://nextstrain.org/ https://www.gisaid.org/ https://openpcr.org/ > >>> I just inspected nextstrain.org. All those tools are requiring > >>> > >>> https://blends.debian.org/med/tasks/covid-19#auspice > >>> > >>> This in turn needs about 20 nodejs packages. Do we want to tackle > >>> these in a COVID-19 web tools effort? > >>> > >>> Looking at gisaid.org I think that's just a data exchange. If you > >>> find some software tool we could package it would be great if we > >>> could help. > >>> > >>> Openpcr.org does not really look like Open Source: > >>> > >>> OpenPCR Software > >>> The OpenPCR application runs on both Windows > >>> and Mac OS X platforms using Adobe Air. > >>> > >>> For sure we could use the COVID-19 crisis as a chance to ask software > >>> authors to free their code - but we have other work to do now IMHO. > >>> > >>> Thanks a lot for all your input > >>> > >>> Andreas. > >>> > >>> [1] > >>>>>> https://blends.debian.org/med/tasks/bio > >>>>>> https://blends.debian.org/med/tasks/bio-dev > >>>>>> https://blends.debian.org/med/tasks/epi > >>>>>> ??? > >>> [2] > >>> https://salsa.debian.org/blends-team/med/-/commit/3e8075e331a90c494fbf1dfaa4bb6acc2cdd1815 > >>> [3] > >>> https://salsa.debian.org/blends-team/med/-/commit/b0229eafc61f9a32fa892fc2847b0a818dfb9aa3 > >>> > >> > > -- http://fam-tille.de