Hi Mike, before you source any information to do with PHENIX is you LD_LIBRARY_PATH set to anything? One thing you could try, is to rerun the installer (you don't need to remove the installation, just go to the installer directory and execute the ./install command again). But first set LD_LIBRARY_PATH to something like: setenv LD_LIBRARY_PATH /lib:/usr/lib:/usr/local/lib Cheers, Paul On Sep 28, 2007, at 7:23 PM, Michael Sawaya wrote:
Dear Phenixbb,
My recent installation of Phenix completed successfully, but the font in the Phenix graphics window is replaced by little rectangles. So, I cannot read any of the menus. Does anyone know how to fix this problem?
I just installed phenix-1.3b-d7-intel-linux-2.6 on our Linux machine 2.6.19-1.2911.fc6 i686
During installation, the following warning is reported : ...
(pango-querymodules:17819): Pango-WARNING **: Engine reported invalid script value 56 (pango-querymodules:17819): Pango-WARNING **: Engine reported invalid script value 63 (pango-querymodules:17819): Pango-WARNING **: Engine reported invalid script value 64 updating fonts/local.conf file running mkfontdir rebuilding font cache fc-cache: symbol lookup error: fc-cache: undefined symbol: FcConfigNormalizeFontDir
generating index.theme file ...
And I also get the following message when executing phenix
Shell variable RSH_PATH not set Error reading Pango modules file
(python:26803): Pango-WARNING **: pango_shape called with bad font, expect ugly output (python:26803): Pango-WARNING **: pango_font_get_glyph_extents called with null font argument, expect ugly output (python:26803): Pango-WARNING **: pango_font_get_metrics called with null font argument, expect ugly output (python:26803): Pango-WARNING **: _pango_cairo_font_install called with bad font, expect ugly output
Thank you for any help you can give.
Mike Sawaya _______________________________________________ phenixbb mailing list [email protected] http://www.phenix-online.org/mailman/listinfo/phenixbb
-- Paul Adams Senior Scientist, Physical Biosciences Division, Lawrence Berkeley Lab Adjunct Professor, Department of Bioengineering, U.C. Berkeley Head, Berkeley Center for Structural Biology Deputy Principal Investigator, Berkeley Structural Genomics Center Building 64, Room 248 Tel: 510-486-4225, Fax: 510-486-5909 http://cci.lbl.gov/paul Lawrence Berkeley Laboratory 1 Cyclotron Road BLDG 64R0121 Berkeley, CA 94720, USA. --