NEW PORT PyMOL-1.1

[adfernandes (Andrew Fernandes)]

Here is a port for an X11 build of PyMOL. The fany installer is because of the brain-dead linux-assuming install script from the autohell tools.

[adfernandes (Andrew Fernandes)]

initial portfile

[dwing84@…]

Cc Me!

[nerdling (Jeremy Lavergne)]

The portfile failed to fetch. Please update svn.url in the portfile.

svn: PROPFIND request failed on '/svnroot/pymol/branches/b11/pymol'
svn: PROPFIND of '/svnroot/pymol/branches/b11/pymol': Server certificate verification failed: issuer is not trusted (https://pymol.svn.sourceforge.net)
Warning: the following items did not execute (for pymol): org.macports.activate org.macports.fetch org.macports.extract org.macports.checksum org.macports.patch org.macports.configure org.macports.build org.macports.destroot org.macports.archive org.macports.install

Error: Target org.macports.fetch returned: Subversion check out failed
Error: Status 1 encountered during processing.

[adfernandes (Andrew Fernandes)]

The svn.url as per the portfile is correct.

The port fails to fetch because of something going wrong between SVN's certificate repository and/or sourceforge's SSL certificate.

Note that the current svn.url is https://pymol.svn.sourceforge.net/svnroot/pymol/branches/b11/pymol. You can change the url to attempt to match the certificate better by adding the HTTPS port as https://pymol.svn.sourceforge.net:443/svnroot/pymol/branches/b11/pymol, but get identical results (see below).

My interpretation is that subversion is incorrectly failing to parse sourceforge's wildcard SSL certificate.

Summary - I believe that this behaviour is a bug in MacPorts/SVN. (In fact, the sourceforge certificate was issued on 12 Nov 2008, so I'm guessing that the Root CA is not in SVN's trusted CA database.

dyn129-100-144-235:pymol andrew$ mkdir tmp
dyn129-100-144-235:pymol andrew$ cd tmp
dyn129-100-144-235:tmp andrew$ svn co https://pymol.svn.sourceforge.net:443/svnroot/pymol/branches/b11/pymol
Error validating server certificate for 'https://pymol.svn.sourceforge.net:443':
 - The certificate is not issued by a trusted authority. Use the
   fingerprint to validate the certificate manually!
Certificate information:
 - Hostname: *.svn.sourceforge.net
 - Valid: from Wed, 12 Nov 2008 01:25:27 GMT until Tue, 12 Jan 2010 01:25:27 GMT
 - Issuer: Equifax Secure Certificate Authority, Equifax, US
 - Fingerprint: 04:b2:70:e9:ba:cf:70:fc:e8:8a:22:86:14:13:51:97:1b:6a:de:38
(R)eject, accept (t)emporarily or accept (p)ermanently? t
A    pymol/configure
A    pymol/Makefile.in
A    pymol/ov
A    pymol/ov/src
A    pymol/ov/src/Makefile.delsci
A    pymol/ov/src/OVContext.h
A    pymol/ov/src/OVOneToOne.h
A    pymol/ov/src/Makefile.in
A    pymol/ov/src/OVOneToAny.c
A    pymol/ov/src/OVLexicon.c
A    pymol/ov/src/OVOneToAny.h
A    pymol/ov/src/ov_utility.c
A    pymol/ov/src/OVLexicon.h
A    pymol/ov/src/ov_utility.h
A    pymol/ov/src/OVreturns.h
[... remainder deleted ...]

[(none)]

Milestone Port Submissions deleted

[ryandesign (Ryan Carsten Schmidt)]

It looks like this ticket will be obsoleted by #21376 which is a request for pymol 1.2r1.

[adfernandes (Andrew Fernandes)]

pymol 1.2r2 - almost

[adfernandes (Andrew Fernandes)]

Ha! Funny - I've spent part of the afternoon getting 1.2r2 (released October 05) running. My port is attached.

The thing builds... BUT... It needs either (a) pwm and tkinter OR (b) wxpython.

My 1.1 port built and ran fine with tkinter. However, this 1.2r2 portfile works fine until we get a crash in python 2.6.3's tkinter. (I have updated all versions on my local ports; the crash seems unavoidable). So... I decided to build wxPython... and the latest 2.8.10.1 won't build on the mac because they've left in all sorts of win/gtk-specific functions on the swig wrappers.

Yuck.

I'm building an old version of wxPython now, hoping it works.

[adfernandes (Andrew Fernandes)]

Huh. Just looked at the submitter's Portfile from #21376... I think it might be better than mine.

Also, looks like #21968 is the tkinter problem I was having.

Thanks for the head's up!