Re: Requested reminder for Andreas: Put EDAM version into udd
I just saw the first Topics on the Debian Med task pages. This is so nice. Many thanks! @Hervé, would you possibly also find a link to be added for your browser that accepts the name, not the identifier? I am traveling next week but when I return I would very much like to have a quick round of discussion about the links back that we started at the Sprint. I had completed the work on the web service to find the Debian packages for a given topic. That has to still be migrated to work with the EDAM ontology IDs. Best, Steffen On 24.03.19 15:37, Andreas Tille wrote: > On Fri, Mar 22, 2019 at 09:30:36AM +0100, Andreas Tille wrote: >> The problem is not that the data are missing in UDD. The query that is >> fetching the data from UDD to build the task pages is just querying what >> is needed (and topic was not needed before). > I realised that this assumption was wrong. Topics is parsed but it was > not really consumed and added to the properties dict but was only triggering > a log entry. That is fixed in my last commit[1]. > > Moreover Steffen did not used the Genshy syntax correctly: The py:when > clause needs to be used in connection with py:choose - otherwise nothing > is printed at all. I simply turned py:when into py:if[1] (we only have > a single condition and not several) and now it works. I might add that > the topics list is turned into a '; ' separated list in the reading > process (not in the Genshi template). That's a bit more safe. > > Steffen, there is no topics CSS class - you might possibly want some > layout feature. > > Kind regards > >Andreas. > > [1] > https://salsa.debian.org/blends-team/website/commit/2f23445d510717d19b85a428ba2f5d83c0f4a1c4 >
Re: Processed: Bug#925400: ITP: q2cli -- Click-based command line interface for QIIME 2
On Sun, 24 Mar 2019 at 21:53, Andreas Tille wrote: > Dear Liubov, > > On Sun, Mar 24, 2019 at 09:27:55PM +0100, Liubov Chuprikova wrote: > > > > Sorry for this mess! In the beginning, I set the bug owner to "Debian Med > > Packaging Team " (just > how I > > did it earlier), but strangely it appeared truncated to "Debian Med > > Packaging Team <". I was trying to fix this a couple of times. Then I had > > tried to set the owner to "Debian Med team >" > > just to see if it also would appear truncated, but it was set properly. > > Ahh, OK. Its no real problem. > > > > > The changelog entry which will close the bug > > > mentions your ID - so that ITP bug belongs to you and is closed by you. > > > > Okay, next time I will set my ID then :-) > > You do not even need to set something explicitly. Just file the ITP > bug - either manually or by using > > > https://salsa.debian.org/r-pkg-team/dh-r/blob/master/scripts/itp_from_debian_dir I am using the script but I had no time to configure reportbug, so those could be Gmail's glucks. > > > Just let me know if you consider the package ready for upload > > > > Yes, I think it's ready for uploading. Thank you! > > Just uploaded. Thanks a lot for the preparation of your first package! > :-) > One more thing, related to QIIME 2. I have found recently that qiime2 and > > q2cli are just frameworks for plugins [1][2] that do the real job. I am > > fine with packaging all of them but in my case, it will not be very soon. > > Are we in a big hurry to finish everything related to QIIME 2? > > Just work on it if your time permits. If there is a real user request > for a certain plugin we might see whether somebody can help. > OK. __ Liubov > Un saludo, > > Saludos > > Andreas. > > > [1] https://docs.qiime2.org/2019.1/install/ > > [2] https://anaconda.org/qiime2/repo > > -- > http://fam-tille.de >
Re: Processed: Bug#925400: ITP: q2cli -- Click-based command line interface for QIIME 2
Dear Andreas, On Sun, 24 Mar 2019 at 15:07, Andreas Tille wrote: > Dear Liubov, > > On Sun, Mar 24, 2019 at 12:30:03PM +, Debian Bug Tracking System wrote: > > > owner 925400 Debian Med team > > Bug #925400 [wnpp] ITP: q2cli -- Click-based command line interface for > QIIME 2 > > Owner changed from Liubov Chuprikova to Debian > Med team . > > While I think there is no harm done by changing the owner of this ITP > bug its rather unusual. Sorry for this mess! In the beginning, I set the bug owner to "Debian Med Packaging Team " (just how I did it earlier), but strangely it appeared truncated to "Debian Med Packaging Team <". I was trying to fix this a couple of times. Then I had tried to set the owner to "Debian Med team " just to see if it also would appear truncated, but it was set properly. > The changelog entry which will close the bug > mentions your ID - so that ITP bug belongs to you and is closed by you. > Okay, next time I will set my ID then :-) Just let me know if you consider the package ready for upload Yes, I think it's ready for uploading. Thank you! One more thing, related to QIIME 2. I have found recently that qiime2 and q2cli are just frameworks for plugins [1][2] that do the real job. I am fine with packaging all of them but in my case, it will not be very soon. Are we in a big hurry to finish everything related to QIIME 2? Un saludo, Liubov [1] https://docs.qiime2.org/2019.1/install/ [2] https://anaconda.org/qiime2/repo
Re: Requested reminder for Andreas: Put EDAM version into udd
On Fri, Mar 22, 2019 at 09:30:36AM +0100, Andreas Tille wrote: > > The problem is not that the data are missing in UDD. The query that is > fetching the data from UDD to build the task pages is just querying what > is needed (and topic was not needed before). I realised that this assumption was wrong. Topics is parsed but it was not really consumed and added to the properties dict but was only triggering a log entry. That is fixed in my last commit[1]. Moreover Steffen did not used the Genshy syntax correctly: The py:when clause needs to be used in connection with py:choose - otherwise nothing is printed at all. I simply turned py:when into py:if[1] (we only have a single condition and not several) and now it works. I might add that the topics list is turned into a '; ' separated list in the reading process (not in the Genshi template). That's a bit more safe. Steffen, there is no topics CSS class - you might possibly want some layout feature. Kind regards Andreas. [1] https://salsa.debian.org/blends-team/website/commit/2f23445d510717d19b85a428ba2f5d83c0f4a1c4 -- http://fam-tille.de
Re: Processed: Bug#925400: ITP: q2cli -- Click-based command line interface for QIIME 2
Dear Liubov, On Sun, Mar 24, 2019 at 12:30:03PM +, Debian Bug Tracking System wrote: > > owner 925400 Debian Med team > Bug #925400 [wnpp] ITP: q2cli -- Click-based command line interface for QIIME > 2 > Owner changed from Liubov Chuprikova to Debian Med > team . While I think there is no harm done by changing the owner of this ITP bug its rather unusual. The changelog entry which will close the bug mentions your ID - so that ITP bug belongs to you and is closed by you. Just let me know if you consider the package ready for upload Andreas. -- http://fam-tille.de
Processed: Bug#925400: ITP: q2cli -- Click-based command line interface for QIIME 2
Processing commands for cont...@bugs.debian.org: > owner 925400 Debian Med team Bug #925400 [wnpp] ITP: q2cli -- Click-based command line interface for QIIME 2 Owner changed from Liubov Chuprikova to Debian Med team . > End of message, stopping processing here. Please contact me if you need assistance. -- 925400: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925400 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Re: Outreachy current
Dear Liubov, On Sat, Mar 23, 2019 at 01:17:27PM +0100, Liubov Chuprikova wrote: > > thanks a lot for your comments. I have no idea whether there is some > > point in making you an official co-mentor but if you see some advantage > > for you in adding you officially that would be perfectly fine for me. > > > > Thank you for the offer! I would like co-mentoring, especially given that > it will be during the summer months when I will not have many > university-related things to do. What should I do to apply officially? I'm really happy to hear this. Thanks a lot Andreas. -- http://fam-tille.de
