Re: vienna-rna is almost ready

2011-02-16 Thread Alex Mestiashvili
On 02/05/2011 12:05 PM, Steffen Möller wrote: On 02/04/2011 10:55 AM, Andreas Tille wrote: On Fri, Feb 04, 2011 at 08:59:37AM +0100, Alex Mestiashvili wrote: "popt" sounds like an awfully generic name for a binary. apt-file doesn't show that such name is in use , except li

Re: vienna-rna is almost ready

2011-02-14 Thread Andreas Tille
On Mon, Feb 14, 2011 at 07:18:42PM +0100, Alex Mestiashvili wrote: > > another thing is that we don't touch RNAforester/g2-0.70/ which is > excluded by one of the patches . > So I don't understand how dh --with autotools_dev $@ should help . It will most probably not help in this specific case (

Re: vienna-rna is almost ready

2011-02-14 Thread Alex Mestiashvili
On 02/10/2011 09:55 PM, Manuel Prinz wrote: Hi Alex! On Thu, Feb 03, 2011 at 05:04:34PM +0100, Alex Mestiashvili wrote: What else should be done to process this package ? Sorry for replying late! I had a quick look at your package. It's looks very good given that you just started to

Re: vienna-rna is almost ready

2011-02-11 Thread Manuel Prinz
Am Freitag, den 11.02.2011, 09:33 +0100 schrieb Andreas Tille: > I'd suggest the packaging list > debian-med-packag...@lists.alioth.debian.org for further discussion > because it might be to specific for this general list but enables > me to watch your discussion (because some bits of code are mine

Re: vienna-rna is almost ready

2011-02-11 Thread Andreas Tille
On Thu, Feb 10, 2011 at 09:55:55PM +0100, Manuel Prinz wrote: > - Please add DEP3 headers [1] to the patches. This helps others to >gain information about the patch status. (What does it do? Was it >forwarded to upstream?) This is especially important in patch file >naview_copyright.pa

Re: vienna-rna is almost ready

2011-02-10 Thread Manuel Prinz
Hi Alex! On Thu, Feb 03, 2011 at 05:04:34PM +0100, Alex Mestiashvili wrote: > What else should be done to process this package ? Sorry for replying late! I had a quick look at your package. It's looks very good given that you just started to learn how to package! There are a few glitches which yo

Re: vienna-rna is almost ready

2011-02-07 Thread Karsten Hilbert
On Mon, Feb 07, 2011 at 03:00:39PM +0100, Andreas Tille wrote: > This would mean a misuse of the alternatives system. Alternatives is > not intended to work around name spacing conflicts but rather to provide > a generic interface to packages which are providing the same > *functionality*. I kno

Re: vienna-rna is almost ready

2011-02-07 Thread Andreas Tille
On Mon, Feb 07, 2011 at 02:34:00PM +0100, Karsten Hilbert wrote: > Let's assume a conflict on the name popt from packages A and B. > > Here is what I would do: > > /usr/bin/popt.A > /usr/bin/popt.B > > /usr/bin/popt -> /etc/alternatives/popt > > /etc/alternatives/popt ->

Re: vienna-rna is almost ready

2011-02-07 Thread Karsten Hilbert
Let's assume a conflict on the name popt from packages A and B. Here is what I would do: /usr/bin/popt.A /usr/bin/popt.B /usr/bin/popt -> /etc/alternatives/popt /etc/alternatives/popt -> /usr/bin/popt.A or /usr/bin/popt.B /usr/share/doc/A/README.Debian

Re: Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-06 Thread Andreas Tille
On Sun, Feb 06, 2011 at 01:28:46AM +0100, Steffen Möller wrote: > > This is a good question. My main concern is that Debian for some > reason or another may be perceived as incompatible by the scientific > community. If anything would require manual adjustments then we then > lose our edge in auto

Re: Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-05 Thread Steffen Möller
On 02/05/2011 09:11 PM, Andreas Tille wrote: > On Sat, Feb 05, 2011 at 07:38:12PM +0100, Manuel Prinz wrote: >> >> Creating some sort of "science bin/ directory" is IMHO just asking for >> trouble. Also, if two scientific packages create a naming conflict, what >> to do then? > > Just for the sake

Re: Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-05 Thread Andreas Tille
Hi again, I guess my proposal was a bit missunderstood. On Sat, Feb 05, 2011 at 11:16:25PM +0100, Manuel Prinz wrote: > I'm specifically concerned about confusing users/admins. Let's assume that > there exists such a place. There are two ways to put binaries in there: One > would be to install al

Re: Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-05 Thread Manuel Prinz
On Sat, Feb 05, 2011 at 09:11:56PM +0100, Andreas Tille wrote: > Just for the sake of interest: Do you see any other problems than a name > space conflict in the scientific field (which I just assumed for a > moment when I wrote the proposal which is probably not very well > thought). I'm specific

Re: Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-05 Thread Andreas Tille
On Sat, Feb 05, 2011 at 07:38:12PM +0100, Manuel Prinz wrote: > > Creating some sort of "science bin/ directory" is IMHO just asking for > trouble. Also, if two scientific packages create a naming conflict, what > to do then? Just for the sake of interest: Do you see any other problems than a nam

Renaming binaries with conflicting name (Was: Re: vienna-rna is almost ready)

2011-02-05 Thread Manuel Prinz
On Sat, Feb 05, 2011 at 06:02:40PM +0100, Andreas Tille wrote: > I refuse to spend my time in fights were I see no chance to win and > an obvios workaround for the conflict is avialable (see above). I totally agree with that one. > The time could better been spended in writing a [solution follows

Re: vienna-rna is almost ready

2011-02-05 Thread Andreas Tille
On Sat, Feb 05, 2011 at 12:05:17PM +0100, Steffen Möller wrote: > > I still think we were too nice back then. We should have a policy > that scientific binaries shall not be renamed if not in conflict with > essential packages. I do not consider this as a valid suggestion because there is no guar

Re: vienna-rna is almost ready

2011-02-05 Thread Steffen Möller
On 02/04/2011 10:55 AM, Andreas Tille wrote: > On Fri, Feb 04, 2011 at 08:59:37AM +0100, Alex Mestiashvili wrote: >>> "popt" sounds like an awfully generic name for a binary. >> >> apt-file doesn't show that such name is in use , except libpopt which >> is different thing . > > Despite the fact

Re: vienna-rna is almost ready

2011-02-04 Thread Andreas Tille
On Fri, Feb 04, 2011 at 08:59:37AM +0100, Alex Mestiashvili wrote: >> "popt" sounds like an awfully generic name for a binary. > > apt-file doesn't show that such name is in use , except libpopt which > is different thing . Despite the fact that technically we do not have a conflict in name spa

Re: vienna-rna is almost ready

2011-02-04 Thread Alex Mestiashvili
On 02/03/2011 06:21 PM, Karsten Hilbert wrote: $lintian vienna-rna_1.8.4-1_amd64.deb W: vienna-rna: binary-without-manpage usr/bin/ct2b W: vienna-rna: binary-without-manpage usr/bin/dpzoom W: vienna-rna: binary-without-manpage usr/bin/popt "popt" sounds like an awfully generic name for a b

Re: vienna-rna is almost ready

2011-02-03 Thread Manuel Prinz
Hi Alex! On Thu, Feb 03, 2011 at 05:04:34PM +0100, Alex Mestiashvili wrote: > I also have sent a message with patches to upstream maintainer . Thanks for taking care of that! > What else should be done to process this package ? I just had a quick glance at the package and it seems that all of t

Re: vienna-rna is almost ready

2011-02-03 Thread Karsten Hilbert
> $lintian vienna-rna_1.8.4-1_amd64.deb > W: vienna-rna: binary-without-manpage usr/bin/ct2b > W: vienna-rna: binary-without-manpage usr/bin/dpzoom > W: vienna-rna: binary-without-manpage usr/bin/popt "popt" sounds like an awfully generic name for a binary. Karsten -- Neu: GMX De-Mail - Einfach

vienna-rna is almost ready

2011-02-03 Thread Alex Mestiashvili
Hello , I almost finished packaging for vienna-rna (with great help of Andreas Tille ). linitian gives only 3 warnings : $lintian vienna-rna_1.8.4-1_amd64.deb W: vienna-rna: binary-without-manpage usr/bin/ct2b W: vienna-rna: binary-without-manpage usr/bin/dpzoom W: vienna-rna: binary-without-ma