Thanks Scott. I'm running Lion with Macports 2.0. So that is good information.
On Fri, Jul 29, 2011 at 3:54 PM, Scott Webster <[email protected]> wrote: > I just installed py27-biopython without incident on my snow leopard > system. The dependencies that were installed because of this were: > py27-numeric > py27-tkinter > py27-pil > py27-reportlab > > I already had everything else. > > Scott > > On Fri, Jul 29, 2011 at 12:40 PM, JP Glutting <[email protected]> > wrote: > > No, I don't understand it either. In fact, I am not sure why Reportlab or > > Biopython depend on numeric, if anything is should be numpy (there may be > > some issues I don't understand, but Reportlab should only depend on the > > PIL: http://www.reportlab.com/software/installation/ ). I don't really > want > > numeric, it is old and has been pretty much replaced by numpy, as far as > I > > am aware. Biopython specifically mentions NumPy, and Reportlab doesn't > > mention either. > > http://biopython.org/DIST/docs/install/Installation.html#htoc11 > > > > On Fri, Jul 29, 2011 at 2:56 PM, Jeremy Huddleston < > [email protected]> > > wrote: > >> > >> Adding jmr. > >> > >> I'm not sure why you're seeing "is replaced by py24-numeric" because > there > >> is no py24-numeric. You should use py-numeric. > >> > >> > >> On Jul 29, 2011, at 11:51, Frank Schima wrote: > >> > >> > I see the same problem and it occurred because of selfupdate. > >> > > >> > $sudo port selfupdate > >> > .... > >> > $ port outdated > >> > The following installed ports are outdated: > >> > py26-numeric 24.2_0 < 24.2_2 > >> > $ port installed py26-numeric > >> > The following ports are currently installed: > >> > py26-numeric @24.2_0 (active) > >> > $ sudo port upgrade py26-numeric > >> > ---> py26-numeric is replaced by py24-numeric > >> > ... > >> > > >> > > >> > > >> > > >> > On Jul 29, 2011, at 11:35 AM, Jeremy Huddleston wrote: > >> > > >> >> port selfupdate > >> >> > >> >> On Jul 29, 2011, at 10:26, JP Glutting wrote: > >> >> > >> >>> I just tried to upgrade outdated packages, and the first message on > >> >>> the list > >> >>> was: > >> >>> > >> >>> --> py27-numeric is replaced by py24-numeric > >> >>> > >> >>> I imagine that pyXX-numeric is deprecated, to fall back on > >> >>> py24-numeric, but > >> >>> this affects py27-reportlab (which in turn affects py27-biopython, > >> >>> which is > >> >>> what I want). It seems like it would be awkward to run biopython > using > >> >>> python 2.4. Especially since biopython is dropping python2.4 support > ( > >> >>> http://news.open-bio.org/news/2010/11/dropping-python24-support/ ). > >> >>> > >> >>> Biopython should depend on numpy, not numeric. I can't see a ticket > on > >> >>> this > >> >>> yet. Should I open one? > >> >>> > >> >>> Thanks, > >> >>> JP > >> >>> _______________________________________________ > >> >>> macports-users mailing list > >> >>> [email protected] > >> >>> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > >> >> > >> >> _______________________________________________ > >> >> macports-users mailing list > >> >> [email protected] > >> >> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > >> > > >> > >> _______________________________________________ > >> macports-users mailing list > >> [email protected] > >> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > > > > > > _______________________________________________ > > macports-users mailing list > > [email protected] > > http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > > > > >
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