numpy
=====
numba was the last blocker preventing the migration of numpy
1:1.20.2-1ubuntu1. It takes upstream some time to add support for new
major python versions, and in the course of the python 3.9 transition
it was temporarily removed from the archive. I filed LP: #1951814
requesting removal, which sil2100 took care of (thanks!).
Once numpy had migrated, I retried all failed autopkgtests and another
127 packages followed. I then sponsored dbungert's sync request of
1:1.21.4-2 in LP: #1951860.
gsl
===
libmath-gsl-perl's autopkgtest failure is caused by an ABI break in
gsl. I filed LP: #1951828 to track this and linked to the bug in
Debian. Per Debian bug #998192, it should be resolved shortly.
netcdf
======
Previously, I had uploaded no-change rebuilds for the netcdf
transition, but libpdl-netcdf-perl, ferret-vis and vtk6 still FTBFS
(thanks cpaelzer for pointing these out).
libpdl-netcdf-perl was missing a build dependency on pdl, pdl was
missing a build dependency on libmoosex-getopt-perl, and
libmoosex-getopt-perl was missing a build dependency on... itself. I
tried a 'nocheck' build in a PPA in an attempt to break the cycle,
which was successful, and I was about to upload and follow up with a
normal upload, but locutusofborg suggested it may be possible to build
against -release in bileto, which he then did and saved me the two
uploads. With libmoosex-getopt-perl built, I was able to successfully
retry autopkgtests of libmarkdent-perl, libmoosex-app-cmd-perl and
libmoosex-getopt-perl itself on behalf of xypron.
ferret-vis only needed a merge, which I did.
vtk6 FTBFS against GCC 11, and I found Debian intend to remove older
versions of vtk, in favour of the current vtk9. I filed LP: #1952422
requesting removal, and doko took care of that (thanks!).
Unfortunately, netcdf remains entangled with proj, glew and vtk9.
r-api-bioc-3.14
===============
There was another r-bioc* transition incoming from debian. I set up a
tracker and retried builds when they were attempted in the incorrect
order when autosync-ing from Debian.
https://people.canonical.com/~ubuntu-archive/transitions/html/r-api-bioc-3.14.html
Once the builds were complete, I triggered autopkgtests of all the
r-bioc* packages with all-proposed=1. There are still two
regressions; r-bioc-biocparallel and r-bioc-gviz for which we should
get fixes from Debian soon enough.
python-skbio
============
python-skbio needed re-cythonizing and some fixes from upstream for
python 3.10. I uploaded 0.5.6-5ubuntu1 and forwarded my changes to
Debian.
segyio
======
There was an incoming NMU from Debian which fixed the FTBFS with
python 3.10. Once that had been autosync'd, I applied a patch to fix
the test failure with glibc 2.34 and filed a bug in Debian for when
they eventually upgrade glibc.
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