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Re: packages for analyses of DNA structural variations



On 11/07/21 10:04 PM, Steffen Möller wrote:
> Hello,
> 
> I went a bit over packages listed in the "genome structure" tab
> https://docs.google.com/spreadsheets/d/1tApLhVqxRZ2VOuMH_aPUgFENQJfbLlB_PFH_Ah_q7hM/edit#gid=701092179
> 
> and have

> surpyvor

Did the following things:

* Add missing build-depends and depends -- please build in a clean chroot :-)
* Updated d/u/metadata

However, this depends on the upsetplot package[1], which is not in the
archive -- can you please package this?

I can't even run a --help command without this package installed.

$ grep -irn upsetplot
surpyvor/plots.py:6:from upsetplot import plot as upsetplot
surpyvor/plots.py:50:def upset_plot(upsets, outname="UpSetPlot.png"):
surpyvor/plots.py:51:    upsetplot(upsets, sort_by='cardinality')
surpyvor/parse_arguments.py:172:                           default="UpSetPlot.png")

> tandem-genotypes considered worthy for sponsoring.
>

* Updated to new upstream
* Upstream seems to vendor tests, but it does not seem to vendor those
in the tarball. So for now, I pulled those manually and did a multi-orig
tarball solution for the same.
Maybe we can convince upstream to vendor these in the next release
* Added autopkgtests
* minor fixes in d/control
* Fixed shebang

I also went ahead and added myself to uploaders, hoping that to be OK
Since I was happy with the package, I uploaded.

Please consider enabling Salsa-CI for any packages you work on, I did it
for thesew two for now
and as I said earlier, I also added this in the inject-into-salsa-git
script[2] so this is done by default please consider to pull my changes
from there

With this, I have 32 packages in new, and I really do hope that FTP
masters get to it soonish.

Thanks a lot for having worked on these packages, and please consider to
do the needful to get surpyvor in as well

[1]: https://github.com/jnothman/UpSetPlot
[2]: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/ae237adad67d6501459706f53eba89992b21e694

Nilesh

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