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Re: [GSoC Report] [Community Bonding and Week 1] Quality Assurance and Continuous Integration of Packages in Life Sciences and Medicine

Hi Andreas, 
I went through the Mentor Guide and the timeline, and I think there are three evaluations that mentors have to fill in. 
I've made a list here for easy access (in case other mentors on the list also find it helpful):

* Phase 1 Evaluation deadline: July 3 18:00 UTC
* Phase 2 Evaluation deadline: July 31 18:00 UTC
* Final evaluation deadline: September 7 18:00 UTC

I'll remind you a few days before the deadlines as well, just in case.
It's great to work with you too.


On Mon, Jun 8, 2020 at 11:33 AM Andreas Tille <andreas@fam-tille.de> wrote:
Hi Pranav,

thanks for the great work.  Just for our understanding:  My experience
from former GSoC/Outreachy projects is that I sometimes fail to realise
those mails from GSoC organisation and I have nearly missed some
deadlines for responsed I should give as a mentor.  So please watch me
closely and ping me always if your realise that I as a mentor should
do something like fill in some form about your performance or so.  Its
perfectly fine to nag me about this.

Its a pleasure to work together with you.

Thanks again


On Mon, Jun 08, 2020 at 03:24:55AM +0530, Pranav Ballaney wrote:
> Hi,
> Here's my report for the duration of community bonding and week 1 for the
> GSoC project: Quality Assurance and Continuous Integration of Packages in
> Life Sciences and Medicine.
> Since I had already worked on autopkgtests for the last few months, I
> started working on more packages during the community bonding period itself
> to avoid delays later.
> Here's all the work that has been accomplished in the GSoC period:
> Added/fixed examples, docs and autopkgtests:
>    1. hunspell-en-med
>    <https://salsa.debian.org/med-team/hunspell-en-med/-/commits/master?author=Pranav%20Ballaney>
>    2. ncbi-entrez-direct
>    <https://salsa.debian.org/med-team/ncbi-entrez-direct/-/commits/master?author=Pranav%20Ballaney>
>    3. parsnp
>    <https://salsa.debian.org/med-team/parsnp/-/commits/master?author=Pranav%20Ballaney>
>    4. fitgcp
>    <https://salsa.debian.org/med-team/fitgcp/-/commits/master?author=Pranav%20Ballaney>
>    5. tree-puzzle
>    <https://salsa.debian.org/med-team/tree-puzzle/-/commits/master?author=Pranav%20Ballaney>
>    6. filtlong
>    <https://salsa.debian.org/med-team/filtlong/-/commits/master?author=Pranav%20Ballaney>
>    7. cgview
>    <https://salsa.debian.org/med-team/cgview/-/commits/master?author=Pranav%20Ballaney>
>    8. libsmithwaterman
>    <https://salsa.debian.org/med-team/libsmithwaterman/-/commits/master?author=Pranav%20Ballaney>
>    9. transrate-tools
>    <https://salsa.debian.org/med-team/transrate-tools/-/commits/master?author=Pranav%20Ballaney>
>    10. biobambam2
>    <https://salsa.debian.org/med-team/biobambam2/-/commits/master?author=Pranav%20Ballaney>
>    11. paml
>    <https://salsa.debian.org/med-team/paml/-/commits/master?author=Pranav%20Ballaney>
>    12. bandage
>    <https://salsa.debian.org/med-team/bandage/-/commits/master?author=Pranav%20Ballaney>
>    13. freebayes
>    <https://salsa.debian.org/med-team/freebayes/-/commits/master?author=Pranav%20Ballaney>
>    14. seer
>    <https://salsa.debian.org/med-team/seer/-/commits/master?author=Pranav%20Ballaney>
>    15. norsp
>    <https://salsa.debian.org/med-team/norsp/-/commits/master?author=Pranav%20Ballaney>
>    16. gasic
>    <https://salsa.debian.org/med-team/gasic/-/commits/master?author=Pranav%20Ballaney>
> <#bugs-fixed>Bugs fixed:
>    1. #954511 <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=954511>:
>    Build time tests were fixed in bioperl-run.
>    2. #960368 <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=960368>:
>    Kallisto now shows an error instead of a segmentation fault.
>    3. #806214 <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=806214>
>    and #890790 <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890790>:
>    Build time tests had been failing in tree-puzzle for a long time. Upstream
>    was contacted and it was confirmed that failure was only because the output
>    files had not been updated for the last few versions. A patch was written
>    to fix this issue.
>    4. #961013 <https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=961013>
>    was also investigated for diamond-aligner, with limited success. It was
>    found that the error was not specific to Debian packaging. The issue was
>    narrowed down and a minimal dataset was created to help the upstream
>    authords debug it. Findings were reported at the upstream issue tracker
>    <https://github.com/bbuchfink/diamond/issues/351>.
> Looking forward to the rest of the GSoC period, especially with another
> CoViD-19 sprint also coming up!
> Thanks and regards,
> Pranav
> ᐧ


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