First I would try to use sage as your regular user, then we can talk about any problems arising.
François > On 14/07/2015, at 13:27, rt. <rtgisk...@gmail.com> wrote: > > It's strange that all the file in the directory is empty，and I find > scene.spt.zip > in the subdirectory，but when try to display it directly with Jmol: > > jmol /root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip > splash_image=jar:file:/usr/share/sage-jmol-bin/lib/Jmol.jar!/org/openscience/jmol/app/images/Jmol_splash.jpg > history file is /root/.jmol/history > (C) 2012 Jmol Development > Jmol Version: 14.2.11_2015.01.20 2015-01-20 12:29 > java.vendor: Java: Oracle Corporation > java.version: Java 1.7.0_79 > os.name: Linux > Access: ALL > memory: 44.5/97.4 > processors available: 4 > useCommandThread: false > User macros dir: /root/.jmol/macros > exists: false > isDirectory: false > Executing script: load "/root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip"; > > FileManager.getAtomSetCollectionFromFile(/root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip) > cacheGet file://root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip false > cacheGet file://root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip false > FileManager opening 2 /root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip > cacheGet file://root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip false > cacheGet file://root/.sage/temp/rt./29736/dir_fz8ajw/scene.spt.zip false > The Resolver thinks Xyz > line cannot be read for XYZ atom data: -3 -2.84615 0.0919047 > line cannot be read for XYZ atom data: -3 -2.69231 0.806228 > ... > line cannot be read for XYZ atom data: 2.69231 -1.61538 1.4976 > line cannot be read for XYZ atom data: 2.69231 2.69231 1.49328 > line cannot be read for XYZ atom data: 2.84615 1.46154 -1.48303 > line cannot be read for XYZ atom data: 2.84615 2.53846 1.49646 > line cannot be read for XYZ atom data: 1521 > line cannot be read for XYZ atom data: 1 > line cannot be read for XYZ atom data: 41 > line cannot be read for XYZ atom data: 40 > ... > > I'm wondering is there something wrong with the data file > > > > 在 2015年7月14日星期二 UTC+8上午3:28:16，François写道： > Hi rt, > > sage-on-gentoo bugs are best discussed in a github issue unless you > can reproduce it in a “vanilla” sage build. Github issue for sage-on-gentoo: > https://github.com/cschwan/sage-on-gentoo/issues > > Funny that your message lead Volker to something that was wrong > in vanilla when your problem is unrelated. Volker's advice is not applicable > to your install since “sage -i” doesn’t exist in sage-on-gentoo. > > Can you post "/root/.sage/temp/rt./12958/tmp_KGOIjb.txt” so I can try > to figure it out. > > François > > > On 14/07/2015, at 04:50, rt. <rtgi...@gmail.com> wrote: > > > > this is a newly built version together with gentoo, while the other > > functions works well with only 3d plot failed. > > As I excute the following command: > > > > sage: var('x,y') > > sage: plot3d(sin(x*y), (x, -pi, pi), (y, -pi, pi)) > > > > it returns : > > > > /usr/lib64/python2.7/site-packages/sage/repl/rich_output/display_manager.py:561: > > RichReprWarning: Exception in _rich_repr_ while displaying object: Jmol > > failed to create file '/root/.sage/temp/rt./12958/dir_W9ZHtR/preview.png', > > see '/root/.sage/temp/rt./12958/tmp_KGOIjb.txt' for details > > RichReprWarning, > > Graphics3d Object > > > > Not knowing what's going wrong, I have rebuild Jmol, but it changed nothing > > maybe I can find the solution or reason here, and just around these days, > > thanks to any help very much. > > If needed, more information would be provided (as now I don't know what's > > neesded. > > > > Thanks very much! > > > > -- > > You received this message because you are subscribed to the Google Groups > > "sage-devel" group. > > To unsubscribe from this group and stop receiving emails from it, send an > > email to sage-devel+...@googlegroups.com. > > To post to this group, send email to sage-...@googlegroups.com. > > Visit this group at http://groups.google.com/group/sage-devel. > > For more options, visit https://groups.google.com/d/optout. > > > -- > You received this message because you are subscribed to the Google Groups > "sage-devel" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-devel+unsubscr...@googlegroups.com. > To post to this group, send email to sage-devel@googlegroups.com. > Visit this group at http://groups.google.com/group/sage-devel. > For more options, visit https://groups.google.com/d/optout. -- You received this message because you are subscribed to the Google Groups "sage-devel" group. To unsubscribe from this group and stop receiving emails from it, send an email to sage-devel+unsubscr...@googlegroups.com. To post to this group, send email to sage-devel@googlegroups.com. Visit this group at http://groups.google.com/group/sage-devel. For more options, visit https://groups.google.com/d/optout.
