Dear All, Thank you with the help with coot. Turning "desktop effects" on (found under 'system > pref. > Appearence') did the trick. Thank you for all your help!
Kind regards, Robert 2009/4/17 Robert <[email protected]> > Dear all, > > I have a small problem with the Coot on my Ubuntu computer. I installed > Ubunutu and coot(using a binary from ftp://ftp.ccp4.ac.uk/coot/0.5.2/) and > it works fine. Everything works only the display is very ugly. I get a lot > of gray and blue lines in my screen. When I move around with the mouse this > is solved and I get the normal black background but when I change something > (move to another atom or resize the window for example) the lines appear > again. Coot then also show the icon on the right of the screen twice. When > you move agian it turns into normal. I tried to make a screenshot but it > turns into normal as soon as I try to make it. So everything works fine the > display is just very stange. I think it might have to do something with my > videocard (Mobile Intel(R) 965 Express Chipset Family) but since I'm not > very good in Linux I don't know how to fix it. I attatched the details of > my computer and the coot startup file. Any help would be very welcome. > > Thank you in advance, > > Robert Floor > > *Computer * > Coot > Coot-0.5.2-linux-i386 > > OS (dual Boot) > Ubuntu 8.10 Intrepid Ibex > Kernel 2.6.27-11-generic > Gnome 2.24.1 > 2nd OS > Windows XP > > Processor > Model : Intel(R) Core(TM)2 Duo CPU T7100 @ 1.80GHz > Speed : 2.00GHz > Cores per Processor : 2 Unit(s) > Threads per Core : 1 Unit(s) > Type : Mobile, Dual-Core > Internal Data Cache : 2x 32kB, Synchronous, Write-Thru, 8-way, 64 byte line > size > L2 On-board Cache : 2MB, ECC, Synchronous, ATC, 8-way, 64 byte line size, 2 > threads sharing > > System : Dell Inc. Latitude D630 > Platform Compliance : Intel Centrino Duo Mobile Technology > Mainboard : Dell Inc. 0KU184 > Bus(es) : ISA X-Bus PCI PCIe IMB PCMCIA CardBus USB FireWire/1394 i2c/SMBus > Multi-Processor (MP) Support : No > Multi-Processor Advanced PIC (APIC) : Yes > System BIOS : Dell Inc. A15 > Total Memory : 1.99GB DDR2 SO-DIMM > > Chipset > Model : Dell Mobile PM965/GM965/GL960 Express Processor to DRAM Controller > Front Side Bus Speed : 4x 200MHz (800MHz) > Total Memory : 2GB DDR2 SO-DIMM > Shared Memory : 8MB > Memory Bus Speed : 2x 333MHz (666MHz) > > Memory Module(s) > Memory Module : Nanya NT1GT64U8HB0BN-3C 1GB DDR2 SO-DIMM PC2-5300U DDR2-666 > (5.0-5-5-15 3-20-5-3) > Memory Module : Nanya NT1GT64U8HB0BN-3C 1GB DDR2 SO-DIMM PC2-5300U DDR2-666 > (5.0-5-5-15 3-20-5-3) > > Video System > Adapter : Mobile Intel(R) 965 Express Chipset Family (384MB DDR2, 500MHz, > PCI, PS3.0, VS3.0) > > Peripherals > LPC Hub Controller 1 : Dell ICH8M-E (ICH8) LPC Interface Controller > LPC Legacy Controller 1 : SMSC LPC v1 > > *Coot output* > administra...@ubuntu:~$ coot > COOT_PREFIX is /usr/local/xtal/Coot-0.5.2 > /usr/local/xtal/Coot-0.5.2/bin/coot-real > Acquiring application resources from > /usr/local/xtal/Coot-0.5.2/share/coot/cootrc > INFO:: splash_screen_pixmap_dir > /usr/local/xtal/Coot-0.5.2/share/coot/pixmaps > INFO:: Colours file: /usr/local/xtal/Coot-0.5.2/share/coot/colours.def > loaded > INFO:: Using Standard CCP4 Refmac dictionary from CLIBD_MON: > /usr/local/xtal/ccp4-6.1.0/lib/data/monomers/ > There are 117 data in > /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//list/mon_lib_list.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/ALA.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/ASP.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/ASN.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//c/CYS.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GLN.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GLY.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GLU.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//p/PHE.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//h/HIS.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//i/ILE.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//l/LYS.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//l/LEU.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//m/MET.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//m/MSE.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//p/PRO.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/ARG.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//s/SER.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//t/THR.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//v/VAL.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//t/TRP.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//t/TYR.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//p/PO4.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//s/SO4.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GOL.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//e/ETH.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//c/CIT.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/AR.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//a/AD.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//c/CR.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//c/CD.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GR.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//g/GD.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//t/TD.cif > There are 2 data in /usr/local/xtal/ccp4-6.1.0/lib/data/monomers//u/UR.cif > Reading coordinate file: > /usr/local/xtal/Coot-0.5.2/share/coot/standard-residues.pdb > PDB file /usr/local/xtal/Coot-0.5.2/share/coot/standard-residues.pdb has > been read. > Spacegroup: P 1 > Cell: 40.631 109.18 93.243 90 90 90 > initalize graphics molecules...done. > (filter-fileselection-filenames-state) > (get-active-map-drag-flag) > (use-graphics-interface-state) > Loading scheme files from /usr/local/xtal/Coot-0.5.2/share/coot/scheme > load "filter.scm" > load "matrices.scm" > load "coot-utils.scm" > load "coot-gui.scm" > Coot Scheme Scripting GUI code found and loaded. > load "coot-lsq.scm" > load "shelx.scm" > load "get-ebi.scm" > WARNING: (net http client): imported module (net http message) overrides > core binding `version' > load "local-code.scm" > load "hello.scm" > Good morning administrator User,,,. Welcome to Coot. > (set-display-intro-string "Good morning administrator. Welcome to Coot") > load "mutate.scm" > load "refmac.scm" > load "brute-lsqman.scm" > load "libcheck.scm" > load "gap.scm" > load "fitting.scm" > load "raster3d.scm" > load "povray.scm" > load "remote-control.scm" > load "generic-objects.scm" > load "fascinating-things.scm" > load "ncs.scm" > load "cns2coot.scm" > load "clear-backup.scm" > load "tips.scm" > load "americanisms.scm" > load "group-settings.scm" > (set-display-lists-for-maps 0) > load "tips-gui.scm" > load "extensions.scm" > (filter-fileselection-filenames-state) > (get-active-map-drag-flag) > (use-graphics-interface-state) > (first-coords-imol) > (get-refmac-version) > /usr/local/xtal/ccp4-6.1.0/bin/refmac5 > exit status: 0 > (set-refmac-molecule -1) > (get-refmac-version) > (get-refmac-version) > (get-fps-flag) > (set-fps-flag 1) > INFO:: 0 frames in 30.32 seconds = 0.00 frames/sec > INFO:: 60 frames in 6.21 seconds = 9.67 frames/sec > INFO:: 63 frames in 6.07 seconds = 10.38 frames/sec > INFO:: 19 frames in 5.18 seconds = 3.67 frames/sec > > > >
