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Le 5/19/12 10:39 PM, Manuel Prinz a écrit :<br>
<span style="white-space: pre;">> Hi Olivier!<br>
> <br>
> On Sat, May 19, 2012 at 12:00:05AM +0200,
<a class="moz-txt-link-abbreviated" href="mailto:olivier.sallou@codeless.fr">olivier.sallou@codeless.fr</a><br>
> wrote:<br>
>> I tried to get pdb2pqr to build and upload it. However,
new<br>
>> version does not build at all (failure at install time).
I think I<br>
>> will need Manuel help to get the package ready.<br>
> <br>
> I'll have a look into it. Guess you now know why I said it's
not <br>
> trivial to package! ;)<br>
</span>I completly understand !!!! ;-)<br>
<span style="white-space: pre;">> <br>
> Could you send my a Debdiff so I can see what you did
exactly? I did <br>
> not see any changes in the SVN. (And non-functional changes
should<br>
> not be commited in the first place, IMHO.)<br>
</span>I skipped install step with the following, just keeping
configure and make steps.<br>
The install step was well done in debian/* files.<br>
<br>
--- a/Makefile.in<br>
+++ b/Makefile.in<br>
@@ -644,7 +644,7 @@<br>
<br>
install:<br>
make<br>
- @if test "$(PREFIX)" == "$(CWD)/" ; then \<br>
+ @if test "1" == "1" ; then \<br>
echo Your current source directory is the install directory.
Nothing <br>
to be done. ; \<br>
else \<br>
c=`pwd`; \<br>
<br>
Install step tries to instal stuff in //usr, symlink web server
etc.... and creates lots of errors.<br>
Additionally, all propka stuff is missing regarding
debian/pdb2pqr.install and debian/proka.docs<br>
<br>
<br>
<span style="white-space: pre;">> <br>
>> As I have no idea of what propka is...<br>
> <br>
> PROPKA is a tool that calculates pKa, the negative log of a <br>
> dissociation constant. It's measure for the the strength of
an acid<br>
> or base.<br>
> <br>
</span>In fact, it seems that in new upstream tarball, propka is not
shipped anymore, only wrappers.<br>
Though, what is strange, is in DISTRIB files they include
propkpa/*.py, but they only have a directory named propka30.<br>
propka wrappers are in propka30 instead of prokpa<br>
<br>
So a basic configure/make/make install, besides Debian stuff, should
not work properly.<br>
<br>
This certainly means that either provided tarball is not complete or
propka should be packaged separately.<br>
<br>
<span style="white-space: pre;">> PROPKA is a seperate software
tool but distributed in the PDB2PQR <br>
> software package. It's different from an embedded code copy,
as this <br>
> is the only channel of publication (meaning there is no
download<br>
> site to get PROPKA, although it is standalone). There was a
new<br>
> upstream release lately, so this might cause things to break.<br>
> <br>
>> Additional stuff is needed as they had a web server,
/var/www <br>
>> content should be moved, but this can be done easilly
with a new <br>
>> directive in install file<br>
> <br>
> I did not ship the web server previously (as documented in
the <br>
> package) and I do not want to do that in the future. In order
to get<br>
> a working web service the tool needs heavy patching and I do
not see<br>
> any value in that. There are a lot of PDB2PQR servers around
the web<br>
> which usually run on some SVN checkout, so that bugs are
fixed soon.<br>
> Given the time that's needed to get a working web server in
the<br>
> Debian package and the very low number of people who will run
that, I<br>
> think this time can be better spent elsewhere.<br>
</span>That's fine for me.<br>
<span style="white-space: pre;">> <br>
> If you want to do that, though, I'm not stopping you.<br>
> <br>
> Best regards, Manuel<br>
> <br>
> </span><br>
<br>
-- <br>
Olivier Sallou<br>
IRISA / University of Rennes 1<br>
Campus de Beaulieu, 35000 RENNES - FRANCE<br>
Tel: 02.99.84.71.95<br>
<br>
gpg key id: 4096R/326D8438 (keyring.debian.org)<br>
Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438<br>
<br>
<br>
<pre class="moz-signature" cols="72">--
gpg key id: 4096R/326D8438 (keyring.debian.org)
Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438</pre>
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