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 <jpglutt...@gmail.com> 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 <jerem...@macports.org> > 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 $ port outdated 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 The following installed ports are outdated: 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 I just tried to upgrade outdated packages, and the first message on 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 >> >>> macports-users@lists.macosforge.org >> >>> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users >> >> >> >> _______________________________________________ >> >> macports-users mailing list >> >> macports-users@lists.macosforge.org >> >> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users >> > >> >> _______________________________________________ >> macports-users mailing list >> macports-users@lists.macosforge.org >> http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > > > _______________________________________________ > macports-users mailing list > macports-users@lists.macosforge.org > http://lists.macosforge.org/mailman/listinfo.cgi/macports-users > > _______________________________________________ macports-users mailing list macports-users@lists.macosforge.org http://lists.macosforge.org/mailman/listinfo.cgi/macports-users