Just to keep it on the bug log as well.
-- Forwarded message -
From: Pranav Ballaney
Date: Sun, Feb 23, 2020 at 3:07 PM
Subject: Request for sponsoring changes in idba
To:
Hi,
I have added autopkgtests for idba <https://salsa.debian.org/med-team/idba>.
(Closes #909716
Hello,
I am Pranav Ballaney, a Biology and Computer Science student from India,
and I have recently joined the Debian Med team, primarily writing
autopkgtests for various packages.
I tried running the tests present in this package, and they seem to
work well on my local machine. Can this bug
Hi,
I have added some autopkgtests to this package, and they seem to work well
on my local machine.
Since this was my first time working with Debian, I'm not aware of the
procedure to mark bugs resolved.
Is there a testing process where the code that I have committed will be
checked, and only then
bin/bugreport.cgi?bug=909710>) be
marked closed? Or is it enough if the tests are working on my local
machine, and can I close them right away?
Thanks a lot for your help.
Pranav
On Tue, Feb 18, 2020 at 8:35 PM Andreas Tille wrote:
> Hi Pranav,
>
> On Tue, Feb 18, 2020 at 05:07:44PM +0
Hi Andreas,
On Sun, Mar 8, 2020 at 12:54 PM Andreas Tille wrote:
> Hi Pranav,
> I hope you are happy with your result.
>
Thank you, they went quite well.
May be adding some binary package idba-extra (or some better name you
>
might find) to ship these additional tools that might be not needed
Hi Andreas,
On Tue, 10 Mar, 2020, 9:21 PM Andreas Tille, wrote:
>
> Fine. That works. Sorry when I have given a bit short-cutted advise.
> I've completed the long description.
>
Oh sorry I missed. Actually I changed it at first but it didn't work so I
went back and forth a few times and
Hi,
Yes, Kalign is on v3 now.
I've pushed some patches to fix this bug. All build-time tests pass now.
Autopkgtests don't, however, but that issue seems to be unrelated.
Please take a look at https://salsa.debian.org/med-team/bioperl-run and
verify the patches. This is my first time working with
Package: wnpp
Severity: wishlist
Subject: ITP: r-bioc-htsfilter -- Filter replicated high-throughput
transcriptome sequencing data
Package: wnpp
Owner: Pranav Ballaney
Severity: wishlist
* Package name: r-bioc-htsfilter
Version : 1.26.0
Upstream Author : Andrea Rau, Melina
Hi,
I've confirmed from upstream for tree-puzzle that the failing tests were
only due to formatting and rounding changes in the tests/check* files. I've
pushed a patch to update these files and also added autopkgtests. Please
review and sponsor.
https://salsa.debian.org/med-team/tree-puzzle
Hi,
I investigated the segfault issue in kallisto, and found a fix for it.
Details can be found at
https://github.com/pachterlab/kallisto/issues/254#issuecomment-629546051
I've written a patch to avoid the segfault, for the time being,
until upstream fixes it.
Please take a look.
Hi Andreas,
My mid-sem exams are over now, and I can resume work on idba.
On Mon, Feb 24, 2020 at 2:21 PM Andreas Tille wrote:
I'm now realising that idba build system builds a lot of other tools
> inside $(CURDIR)/bin which might (or might not?) be sensible to install.
>
Yes, there are over
Hi everyone,
The tests pass for me as well.
autopkgtest [22:46:32]: test binary-run: - - - - - - - - - - results - - -
- - - - - - -
binary-run PASS
autopkgtest [22:46:32]: summary
check-wo-arguments PASS
indexing-ref-genome PASS
binary-run PASS
Hi,
I've (apparently) managed to fix this bug although I'm not sure what the
original code was trying to do.
Originally, d/rules:
INCLUDE_PATHS = /usr/include/bamtools
space=
space+=
override_dh_auto_configure:
dh_auto_configure -- \
-DCMAKE_INCLUDE_PATH="$(subst $(space),:,$(strip
Hi,
This error occurs because gffread complains about tabs in comments for some
reason, even though GFF parsers are supposed to ignore all the lines that
start with #. Since these lines are human-readable comments anyway,
replacing tabs with spaces seems like the easiest fix. I've patched
Hi Andreas,
Yes definitely, this is long overdue. I have a report due for submission
tonight, so I'll get to this tomorrow for sure.
Regards,
Pranav
On Tue, 9 Jun, 2020, 7:41 PM Andreas Tille, wrote:
> Hi Pranav,
>
> since you dealt with tests in this package could you please have
> a look?
>
at can be used to reproduce this issue. Maybe now we wait for
upstream to take a look?
Regards,
Pranav
ᐧ
On Fri, May 22, 2020 at 3:37 AM Andreas Tille wrote:
> On Thu, May 21, 2020 at 06:33:05PM +0530, Pranav Ballaney wrote:
> > Yes, I've been able to reproduce and roughly pin
Hi,
I've pushed a patch for tree-puzzle to fix #960760. Please review.
https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=960760
https://salsa.debian.org/med-team/tree-puzzle
Regards,
Pranav
ᐧ
Control: tags -1 moreinfo
Control: severity -1 important
Control: tags -1 unreproducible
Hi Andreas,
I tried reproducing this bug but all tests simply pass for me, even when I
manually install the specified versions.
The compression doesn't seem to have any effect on the tests for me.
Regards,
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