Re: Finishing ncbi-vdb and sra-sdk
- To: <debian-med@lists.debian.org>
- Subject: Re: Finishing ncbi-vdb and sra-sdk
- From: ucko@debian.org (Aaron M. Ucko)
- Date: Mon, 10 Oct 2022 22:57:27 -0400
- Message-id: <[🔎] udlzge3nk2w.fsf@mit.edu>
- In-reply-to: <[🔎] udl4jwboz1h.fsf@mit.edu> (Aaron M. Ucko's message of "Mon, 10 Oct 2022 22:48:58 -0400")
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"Aaron M. Ucko" <ucko@debian.org> writes:
> ucko@debian.org (Aaron M. Ucko) writes:
>
>> Ah, right, sra-sdk will need to go through NEW too -- the ngs-sdk code
>> it absorbed underwent an SONAME bump along the way. (All necessary
>> ncbi-vdb changes passed NEW a few weeks ago, but ncbi-vdb 3.x is sitting
>> in experimental until sra-sdk joins it.) I'll see what I can do.
>
> I've made a fair bit of progress, and pushed what I have so far --
> though one commit accidentally wound up with a stray change, so I'd
> appreciate it if somebody could please grant me whatever access I need
> to proceed with a force-push to master so I can clean that up properly.
>
> It's still not entirely ready, though. In particular:
> - Three tests are failing; I need to investigate why. (I've been
> building in nocheck mode for now to sort out everything else.)
> - On a possibly related note, I should see if anything from ngs-sdk's
> debian/patches is of interest here.
> - The javadocs contain embedded copies of files from libjs-jquery and
> libjs-jquery-ui that should become symlinks (with dependencies added).
> - Lower priority: I have not yet taught the Java bindings to look for
> full SONAMEs, so they still depend on a -dev package. I'd appreciate
> help from someone more familiar with Java.
I'll also need help getting CI to pick VDB build dependencies up from
experimental; as it is, it complains of an unsatisfiable version
constraint.
Thanks!
--
Aaron M. Ucko, KB1CJC (amu at alum.mit.edu, ucko at debian.org)
http://www.mit.edu/~amu/ | http://stuff.mit.edu/cgi/finger/?amu@monk.mit.edu
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