[original discussion on developer list on alioth - since it is down I "misuse" this list]
Hi, in the past we had some positive feedback from meme authors (not only the one below also others - searchable once alioth might be back) to use the glam2 copy inside Debian under the old PD license. Since I'm doing a "month of upgrading of packages not touched >3 years" currently I stumbled upon glam2 and was giving it a try. You can see my preliminary work here: http://blends.debian.net/tmp/packages/glam2/ The reason why I'm publishing this here is, that alioth is down but also that I want to hear opinions first. 1. I have choosen the same version number as meme (using epoch in changelog) 2. I have used enhanced uscan[1] to strip everything that is not needed. 3. I droped some makefile and missing files I kept from old glam2 packages into debian/ dir 4. glam2-purge is lost. The thing is that unfortunately some files from main meme, namely alphabet.[ch] array.[ch] array-list.[ch] binary-search.[ch] ceqlogo.[ch] eps2png.[ch] hash_alph.h io.[ch] macros.h matrix.[ch] motif.[ch] motif-in-flags.h motif-in.h motif-spec.h red-black-tree.[ch] regex-utils.[ch] string-builder.[ch] string-list.h user.h utils.[ch] (see debian/README.source). So before we could distribute the given orig.tar.xz tarball we need to ask upstream whether they might extend the permission to use a free license also to these files which are actually some general utilities and surely not the main part of MEME itself. Even if I see good chances that upstream will agree here I would like you to run some tests (perhaps even write some test case) whether the new code really behaves like the old one. Otherwise I do not think that it is worth the trouble to start a licensing discussion and we might rather stick to the old code. I also wonder whether there is any need for glam2-purge which was not taken over by the MEME project. If it is needed the issue is quite simple and we could create a separate package since the code remains freely available anyway. The next step would be to pick up the meme packaging for non-free and just leave out the glam2 binaries for the installation. Kind regards Andreas. [1] http://wiki.debian.org/UscanEnhancements On Thu, Feb 28, 2013 at 11:58:46AM +1000, Timothy Bailey wrote: > James, > > On 28/02/13 11:09 AM, James Johnson wrote: > >Hi Tim, > > > >On 28/02/13 11:05, Timothy Bailey wrote: > >>David, > >> > >>I assume the most important thing is that the copyright and "for > >>non-profit use only" > >>warning is included in the Debian repackaging. If those are > >>preserved, I'm happy. > >If you refer to the original email, that's exactly what they were > >hoping to avoid. GLAM2 has a more permissive license than the MEME > >Suite. The reason they want to keep the 2 packages is so that > >people can use GLAM2 under the more permissive license... They > >were hoping to back-port any improvements to GLAM2 while keeping > >its original license. > > Sorry about the confusion I may have called. I am completely happy > to have them > back-port changes from MEME Suite Glam2 to stand-alone Glam2. The Glam2 > license can remain as before. > > My earlier comment referred to the Debian port of MEME Suite, not > stand-alone Glam2. > > Cheers, > > Tim > > > >~James > >> > >>Cheers, > >> > >>Tim > >>On 28/02/13 2:07 AM, Gibbons, David wrote: > >>> > >>>Hi Tim, > >>> > >>>My only concern would be that we not create any conflict with > >>>the arrangement we have between the University of Washington, > >>>UC San Diego and the University of Queensland regarding The > >>>Meme Suite. The technical compatibilities of the various > >>>versions are outside of my scope, but as long as we are not > >>>deviating from the agreement between our institutions, I have > >>>no issues with the request. > >>> > >>> > >>>Thanks for copying me. > >>> > >>>Dave > >>> > >>>David G. Gibbons, PE, MBA > >>> > >>>Assistant Director > >>> > >>>Physical Sciences Licensing > >>> > >>>Technology Transfer Office, UC San Diego > >>> > >>>9500 Gilman Drive, MC 0910 > >>> > >>>La Jolla, CA 92093-0910 > >>> > >>>(858)534-0175 > >>> > >>>[email protected] > >>> > >>>http://invent.ucsd.edu > >>> > >>>*From:*Timothy Bailey [mailto:[email protected]] > >>>*Sent:* Wednesday, February 27, 2013 12:13 AM > >>>*To:* James Johnson > >>>*Cc:* Gibbons, David; Martin Frith; MEME Support; Debian Med > >>>Packaging Team > >>>*Subject:* Re: Fwd: Re: [[email protected]: Re: > >>>Installation of binary tools inside MEME] > >>> > >>>James, > >>> > >>>On 18/02/13 11:51 AM, James Johnson wrote: > >>> > >>> Hi Tim, Dave, > >>> > >>> The Debian Med Packaging Team want to know if they can backport > >>> GLAM2 improvements (presuming there are any?) in the MEME Suite > >>> to the more permissively licensed GLAM2 repository? > >>> > >>>I have no problems with this as long as they do the work. > >>> > >>>However, that will mean that the Debian version of Glam2 > >>>differs from the "standalone" version > >>>Martin created. It will match the "MEME Suite" version, though. > >>> > >>>Cheers, > >>> > >>>Tim > >>> > >>> > >>>~James > >>> > >>> > >>>-------- Original Message -------- > >>> > >>>*Subject: * > >>> > >>> > >>> > >>>Re: [[email protected] <mailto:[email protected]>: > >>>Re: Installation of binary tools inside MEME] > >>> > >>>*Date: * > >>> > >>> > >>> > >>>Fri, 15 Feb 2013 11:04:58 +0000 > >>> > >>>*From: * > >>> > >>> > >>> > >>>Tim Booth <[email protected]> <mailto:[email protected]> > >>> > >>>*To: * > >>> > >>> > >>> > >>>Andreas Tille <[email protected]> <mailto:[email protected]> > >>> > >>>*CC: * > >>> > >>> > >>> > >>>Debian Med Packaging Team > >>><[email protected]> > >>><mailto:[email protected]>, James > >>>Johnson <[email protected]> > >>><mailto:[email protected]> > >>> > >>>Hi, > >>>> On Thu, Feb 14, 2013 at 06:08:08PM +0000, Tim Booth wrote: > >>>> > Yes, I did start looking at Meme but quickly realised it was a lot more > >>>> > work than I thought to do a proper job on it. I think all I wanted to > >>>> > do in the first instance was to get an updated glam2 binary package > >>>> > based upon the improved glam2 source within the meme code. I guess > >>>> > this > >>>> > is now the definitive glam2 as the original standalone source hasn't > >>>> > been updated since 2008. > >>>> > >>>> We might try to do some comparison. Charles previously mentioned that > >>>> we should keep the glam2 package from Debian which is free (PD) and meme > >>>> currently has a non-free license (according to DFSG). So if glam2 inside > >>>> meme is basically unchanged it might be reasonable to ignore the code > >>>> inside meme (or asking upstream for permission to backport the changes.) > >>>A quick "diff" across the original glam2 vs. the meme glam2 suggests > >>>that several new options have been added for meme - see > >>>src/glam2_args.c. > >>>I would imagine that scripts within meme rely on these options. In > >>>fact, a quick grepping shows that scripts/glam2_webservice.pl.in calls > >>>"glam2 -M" which is an option added for meme. I've not looked for other > >>>examples. > >>>I hope that upstream can at least be persuaded to put their changes to > >>>glam2 under a free license like the original glam2. They may not be > >>>legally bound to do so but it would be highly disingenuous of them to > >>>refuse. > >>>Cheers, > >>>TIM > >>>-- > >>>If you can't find an apposite quote for your sig, just make one up. > >>> - Anon > >>> > >>>-- > >>> > >>>Timothy L. Bailey > >>> > >>> > >>> > >>>[email protected] <mailto:[email protected]> > >>> > >>>Institute for Molecular Bioscience > >>> > >>> > >>> > >>>VOICE: (61)-(7)-3346-2614 > >>> > >>>The University of Queensland > >>> > >>> > >>> > >>>FAX: (61)-(7)-3346-2101 > >>> > >>>Brisbane, Qld. 4072 Australia > >>> > >>> > >>> > >>>http://research.imb.uq.edu.au/~tbailey > >>><http://research.imb.uq.edu.au/%7Etbailey> > >>> > >> > >>-- > >>Timothy L. Bailey > >> [email protected] <mailto:[email protected]> > >>Institute for Molecular Bioscience > >> VOICE: (61)-(7)-3346-2614 > >>The University of Queensland > >> FAX: (61)-(7)-3346-2101 > >>Brisbane, Qld. 4072 Australia > >> http://research.imb.uq.edu.au/~tbailey > >> > > > > -- > Timothy L. Bailey > [email protected] <mailto:[email protected]> > Institute for Molecular Bioscience > VOICE: (61)-(7)-3346-2614 > The University of Queensland > FAX: (61)-(7)-3346-2101 > Brisbane, Qld. 4072 Australia > http://research.imb.uq.edu.au/~tbailey > > _______________________________________________ > Debian-med-packaging mailing list > [email protected] > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging -- http://fam-tille.de -- To UNSUBSCRIBE, email to [email protected] with a subject of "unsubscribe". Trouble? Contact [email protected] Archive: http://lists.debian.org/[email protected]
