Re: RFS: transrate-tools

2020-05-25 Thread Andreas Tille
Hi Pranav, On Mon, May 25, 2020 at 01:38:34AM +0530, Pranav Ballaney wrote: > I've added autopkgtests to transrate-tools. Please review and sponsor. > https://salsa.debian.org/med-team/transrate-tools Thanks a lot for the autopkgtest. Please also do a test build with your changes. You would hav

loki2.4.x for binary traits

2020-05-25 Thread Wouter van Rheenen
Dear debian-med team, I was hoping to use the loki package for MCMC-based linkage analyses for both quantitative and binary traits. The package description states: "The current package supports analyses on quantitative traits only, although this restriction will be lifted in later versions." Will

tiddit is using patched BamTools - do we want to incorporate this patch?

2020-05-25 Thread Andreas Tille
Hi, as per the COVID-19 list given by Jun I intend to package tiddit[1]. I just realised that the code copy of Bamtools upstream is shipping is patched $ grep -Ri -A1 SUPPLEMENTARY src/api/BamAlignment.h: bool IsSupplementaryAlignment(void) const; src/api/BamAlignment.h- -- src/api/Bam

Re: RFS: transrate-tools

2020-05-25 Thread Pranav Ballaney
Hi Andreas, Sure, I'll keep that in mind for next time. Thanks a lot! Regards, Pranav On Mon, 25 May, 2020, 2:07 PM Andreas Tille, wrote: > Hi Pranav, > > On Mon, May 25, 2020 at 01:38:34AM +0530, Pranav Ballaney wrote: > > I've added autopkgtests to transrate-tools. Please review and sponsor.

Re: loki2.4.x for binary traits

2020-05-25 Thread Pranav Ballaney
Hi Wouter, I think some support has been introduced for qualitative traits as well from version 2.4 onwards, but the description has not been updated. The original website of the package is not accessible anymore, but please take a look at this archived version, http://web.archive.org/web/2006

Re: loki2.4.x for binary traits

2020-05-25 Thread Andreas Tille
On Mon, May 25, 2020 at 06:48:46PM +0530, Pranav Ballaney wrote: > @debian-med Should we patch the readme to include the updated description? This would probably be helpful to make things more clear for users. Thanks for spotting this. Kind regards Andreas. -- http://fam-tille.de

Re: [RFS] opensurgsim

2020-05-25 Thread Andreas Tille
Hi Nilesh, On Mon, May 25, 2020 at 12:02:02PM +0530, Nilesh Patra wrote: > > Not very sure as to how to go about this, since there are multiple .so > files. Just maybe, this can be ignored. Yes, this was ignored all the time. Fixing it would mean to create as many lib* packages as there are *.s

umap, vep and guppy (Was: Idea wanted: What is the most key open source projects to fight COVID-19?)

2020-05-25 Thread Andreas Tille
Hi again, On Mon, May 11, 2020 at 10:23:36PM +0200, Andreas Tille wrote: > On Mon, May 11, 2020 at 06:33:15PM +0200, Jun Aruga wrote: > > Many thanks for updating the spread sheet adding the Debian and > > Bio.tools status! > > You are welcome. I've done some more updates meanwhile. > > I add

RFS : libdistlib-java

2020-05-25 Thread Pierre Gruet
Hi, I have packaged libdistlib-java, which is a Java implementation of several cdf, pdf, quantile and simulation functions from R, originally written in C. This was announced in ITP bug #961158. Would it be possible to have a review? It would be precious, as this is my first initial packaging! I

Re: RFS : libdistlib-java

2020-05-25 Thread Andreas Tille
Hi Pierre, On Mon, May 25, 2020 at 10:47:58PM +0200, Pierre Gruet wrote: > I have packaged libdistlib-java, which is a Java implementation of > several cdf, pdf, quantile and simulation functions from R, originally > written in C. > > This was announced in ITP bug #961158. Thanks a lot for worki