[Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
Dear all, Clustal W and Clustal X are the most popular software for multiple alignment of biological sequences. Their source package was NMUed during the lesstif transition, but not built on enough architectures, and was therefore removed from testing. http://packages.qa.debian.org/c/clustalw.html Can some DD help clustalw to get back into Etch as we still have the opportunity ? I just entered the NM queue and therefore can not do this kind of work by myself. Thank you so much in advance! Have a nice day, -- Charles Plessy Debian-Med packaging team Wako, Saitama, Japan -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: [Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
[Charles Plessy] Clustal W and Clustal X are the most popular software for multiple alignment of biological sequences. Their source package was NMUed during the lesstif transition, but not built on enough architectures, and was therefore removed from testing. http://packages.qa.debian.org/c/clustalw.html Ah, the pain with no autobuilders for non-free packages. You will have to find a developer with access to all of the architectures ia64, mips, mipsel and s390 (m68k is ignored), and get them to build binaries of the package. Or you can ask the ftpmasters to remove the binaries for these archs, but that normally take longer time. I only have i386 machines myself, so I can not help you. What about convincing the upstream developers to change the license to one of the free software licenses? It would solve the problem for good. Friendly, -- Petter Reinholdtsen -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: [Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
On Tue, 17 Oct 2006, Petter Reinholdtsen wrote: Ah, the pain with no autobuilders for non-free packages. Exactly. You will have to find a developer with access to all of the architectures ia64, mips, mipsel and s390 (m68k is ignored), and get them to build binaries of the package. In principle this might be every developer via http://db.debian.org/machines.cgi but it is just a pain to do it this way (and does not always work - at least when I tried some months ago I was not able to compile the package I tried). Or you can ask the ftpmasters to remove the binaries for these archs, but that normally take longer time. That would be stupid because we *want* the architectures. What about convincing the upstream developers to change the license to one of the free software licenses? It would solve the problem for good. When I maintained this package I tried and I guess my successors tried as well. Another solution was suggested nearly 5 years ago http://lists.debian.org/debian-devel/2001/11/msg01472.html and if I remember also at other occurences but the search interface for the list archive does not uncover these mails and Google found only this one for a quick glance. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: [Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
On Tue, 17 Oct 2006, Andreas Tille wrote: When I maintained this package I tried and I guess my successors tried as well. Another solution was suggested nearly 5 years ago http://lists.debian.org/debian-devel/2001/11/msg01472.html and if I remember also at other occurences but the search interface Just to reply to my own mail: I blamed the search interface to fast: http://lists.debian.org/debian-devel/2002/11/msg00270.html Just read the mails of these both threads and learn why we have not yet autobuilders for non-free. IMHO the main issue is that nobody really _did_ it. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: [Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
On Tue, Oct 17, 2006 at 02:38:49PM +0200, Andreas Tille wrote: On Tue, 17 Oct 2006, Andreas Tille wrote: When I maintained this package I tried and I guess my successors tried as well. Another solution was suggested nearly 5 years ago http://lists.debian.org/debian-devel/2001/11/msg01472.html and if I remember also at other occurences but the search interface Just to reply to my own mail: I blamed the search interface to fast: http://lists.debian.org/debian-devel/2002/11/msg00270.html Just read the mails of these both threads and learn why we have not yet autobuilders for non-free. IMHO the main issue is that nobody really _did_ it. There are two issues at hand that explain why there is no non-free autobuilder: * Most people who could set up one (because they have the hardware and the skillz) do not want to, either because they feel that maintaining buildd machines for main takes up more than enough of their time, or because they oppose to working on non-free as a principle. * Packages in main are required to be DFSG-free; therefore, it cannot be illegal to install or build this package if you live in Europe, are male, do not speak English, or any other silly requirement. The only requirement for a package to appear in Debian is that Debian must be allowed to *distribute* it. A requirement that we are allowed to build or even install it, is not part of the requirement of non-free. While the examples I gave above are obviously silly and over the top, there are actual examples of packages in non-free that have license requirements which would make autobuilding them (or their reverse dependencies) cumbersome, at the very least (though I can't recall which they were). Therefore, anyone interested in building non-free would need to maintain a list of packages that do not have such problematic restrictions. TTBOMK, this has not happened. -- Lo-lan-do Home is where you have to wash the dishes. -- #debian-devel, Freenode, 2004-09-22 -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: [Help] Please compile clustalw on architectures ia64, mips, mipsel, s390 and m68k
Le Tue, Oct 17, 2006 at 02:30:59PM +0200, Frank Küster a écrit : Petter Reinholdtsen [EMAIL PROTECTED] wrote: What about convincing the upstream developers to change the license to one of the free software licenses? It would solve the problem for good. Judging from the mail recorded in its copyright file, this isn't likely to happen. http://packages.debian.org/changelogs/pool/non-free/c/clustalw/clustalw_1.83-1.1/clustalw.copyright Dear all, Eight years have passed since the authors of Clustal gave a special permission to Debian. There could be hope that the non-exclusive licences they sold to companies have expired, removing the reason for which they are reluctant to give Clustal away for free. Indeed, as there are now some competitors in the public domain, I see more and more commercial products using them instead of Clustal, so it is predictable that the authors will not get revenues from this program for ever, if they still do. When the Debian-Med project will have some authority in the field of molecular biology and bioinformatics, I think that it will be a good idea to contact the academic authors of non-free software, and ask them if they would like to reconsider their choice. But for this, we need success, and for success we need to listen to our users, and our users still massively use Clustal compared to the free competitors. http://people.debian.org/~igloo/popcon-graphs/index.php?packages=kalign+dialign+probcons+clustalx+clustalw+muscle+t-coffee+poa+amap-align+sigma-alignshow_installed=onwant_legend=onbeenhere=1 I do not know how to interpret the popcon data: either some users are swiching from the clustal programs to alternatives, or we are losing some users since clustalw was removed from testing. Already 10 % less... Ouch, it bleeds... In conclusion: by building this non-free package and allowing clustalw to migrate in testing, you will help to increase our user base and promote all the free software we promote together with clustalw: http://wiki.debian.org/SequenceAlignment PS: depending on the answer, debian-science can be a better list than debian-devel. PPS: I would bet that half of the architectures on which clustalw is missing are architectures on which nobody uses Clustal W or Clustal X, but this is another story... Have a nice day, -- Charles Plessy Debian-Med Packaging Team Wako, Saitama, Japan -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
