Re: [GSoC 2022 Final Report] Quality assurance for biological and medical applications inside Debian
Hi Bilal,
thanks a lot for all your work. For me as a mentor the cooperation was
smooth and plain fun. Would you mind bouncing your report also to the
Debian Med list? I really hope you enjoy contributing to our team also
in future.
Kind regards
Andreas.
Am Sat, Sep 10, 2022 at 01:15:12PM +0530 schrieb Mohd Bilal:
> Hello everyone \o/ ,
>
> I'm Mohammed Bilal and I've been the GSoC intern working with the Debian Med
> Team during 2022.This is my final report for the GSoC project "Quality
> Assurance and Continuous Integration for Applications in Life Sciences and
> Medicine". This is an overview of the work done during my GSoC period with
> Debian Med Team.
>
> ** About the project
>
> The Debian Med project has packaged several applications in life sciences
> and medicine. Continuous integration for these packages is essential to
> ensure reproducible results and that all components work together. These,
> tests often uncover bugs in the code and the packaging process that can
> cause failures on end-user machines. The aim of my project was to write
> autopkgtests for Debian Med packages, fix existing tests, any pipeline
> failures and fix the bugs uncovered by these tests.
>
> ** Statistics:
>
> Autopkgtests added: 30
> Updates : 7
> Bugs fixed: 5
>
>
> Autopkgtests added:
>
> *python-datacache
> *parallel-fastq-dump
> *nifticlib
> *gifticlib
> *dicomnifti
> *openslide
> *minc-tools
> *dcm2niix
> *atropos
> *python-bioblend
> *python-cobra
> *intake
> *bmtk
> *nifti2dicom
> *biomaj3-cli
> *gdcm
> *megadepth
> *rockhopper
> *emmax
> *zalign
> *plastimatch
> *delly
> *dcmtk
> *nipype
> *emperor
> *python-wdlparse
> *libbigwig
> *libncl
> *gatb-core
> *tvc
>
>
> Package Updates:
>
> *q2-dada2
> *q2-feature-classifier
> *q2-fragment-insertion
> *q2-metadata
> *q2-phylogeny
> *delly
> *q2-sample-classifier
>
>
> RC Bugs fixed
>
> *dcm2niix (Closes: #1012336)
> *dicomnifti (Closes: #1013364)
> *gdcm (Closes: #1016450)
> *mothur (Closes: #1014104)
> *megadepth (Closes: #1016454)
>
> Apart from my gsoc work, I actively contributed to the Debain Ruby Team
> fixing some omniauth RC bugs[1],helped with some package updates and handled
> gitlab updates too.
>
> I became a Debian Maintainer right before the start of my gsoc journey and
> I'm thankful to my mentors for giving me access to upload some of my work on
> my own. Also during gsoc I got the chance to use some of the Debain
> Project's Infra like I got access to a s390 porterbox for fixing a bug in
> one of the packages I've worked on
>
> I would like to thank my mentors, Andreas Tille and Nilesh Patra for their
> constant support and encouragement. I had a wonderful experience working
> with these amazing DDs. They were very quick to respond to my queries,
> sponsoring uploads and were very supportive. Also I would like to thank
> other Debian-Med members on the debian-med mailing list and the matrix room
> who guided me during my GSoC period. Also I'm grateful to Salsa CI Team and
> Reproducible builds team for their help. I plan to stick around and continue
> my contributions to Debian in the near feature.
>
> A snippet containing the links of all packages I've worked can be found
> here[2]
>
> Finally thanking the Debian Project for giving me this opportunity.I had a
> fun and productive summer with Debian 😃
>
>
>
> [1] - https://bugs.debian.org/cgi-bin/pkgreport.cgi?dist=unstable;include=subject%3AFTBFS+with+ruby-omniauth+2.0.x;maint=pkg-ruby-extras-maintainers%40lists.alioth.debian.org
>
> [2] - https://salsa.debian.org/-/snippets/609
>
> Thanks
> --
> ╭───────────────────────────────────────────────────╮
> │ Mohammed Bilal │
> │ 2D65 BC1E B966 5A6E 97F9 730A B3F5 9452 8521 9E1F │
> ╰───────────────────────────────────────────────────╯
--
http://fam-tille.de
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