Greg, Looks like we have to copy the data or sshfs to the Amazon Workspace X11 is the only X11 client that displays Chimera from a Linux server or get the scientist a Linux workstation. Macintosh XQuartz was what was crashing Chimera from my RHEL 7.6 EC2. Chimera crashed MobaXterm on Windows when displaying from the RHEL 7.6 EC2 as well. Thank you very much for all your help. -Darin On Thu, Apr 18, 2019 at 6:17 PM Greg Couch <gregc@cgl.ucsf.edu> wrote:
Chimera works best when it is running directly on your local computer. So you would ideally copy the data you want to visualize from the AWS Workspace (i.e, cloud) to your local disk to visualize it. Or, perhaps, you could use a program like sshfs to remotely mount your data. And on your local computer, if you have NVIDIA graphics, you should install the proprietary NVIDIA graphics driver; if you have AMD graphics, both the open source and the proprietary drivers should work; and if you have Intel graphics, your only choice is the open source driver.
However, remotely displaying, like you are trying to do, should work if your local computer is running Linux. Since the AWS Workspace has open source drivers installed, you might need to switch your local graphics to the open source version. Or copy the libGL.so from your local computer, to the AWS Workspace. That is, the two drivers need to be compatible.
In the AWS workspace, run the glxinfo problem to see what its OpenGL setup is like. glxinfo is in the glx-utils package.
Good luck,
Greg On 4/18/19 1:23 PM, Darin Lory wrote:
Dear ChimeraGurus,
I'm trying to get Chimera 1.13.1 working on RHEL 7.6. I have it working on Amazon Linux 2 in AWS Workspace.
Does anybody know what the yum package dependencies are for REHL or CentOS 7?
Chimera is crashing after "initializing graphics" as per the --debug command line option.
I know that I had to do this to fix a few errors:
yum install tkinter yum install tk-devel yum install libXScrnSaver yum install mesa-libGL mesa-libGL-devel yum install firefox
Kindly advise.
Best regards,
-Darin
on RHEL 7.6: $ which chimera /usr/local/bin/chimera [s.darin.lory@ip-10-246-148-209 ~]$ chimera --debug initializing general preferences loading Tix initializing graphics X Error of failed request: BadValue (integer parameter out of range for operation) Major opcode of failed request: 149 (GLX) Minor opcode of failed request: 3 (X_GLXCreateContext) Value in failed request: 0x0 Serial number of failed request: 1439 Current serial number in output stream: 1440
RHEL 7.6:
$ cat /etc/redhat-release Red Hat Enterprise Linux Server release 7.6 (Maipo)
$ rpm -qa |grep mesa mesa-libGLw-8.0.0-4.el7.x86_64 mesa-libGLw-devel-8.0.0-4.el7.x86_64 mesa-libGL-devel-18.0.5-4.el7_6.x86_64 mesa-libGLES-18.0.5-4.el7_6.x86_64 mesa-libGL-18.0.5-4.el7_6.x86_64 mesa-libGLU-9.0.0-4.el7.x86_64 mesa-libxatracker-18.0.5-3.el7.x86_64 mesa-dri-drivers-18.0.5-3.el7.x86_64 mesa-libEGL-18.0.5-4.el7_6.x86_64 mesa-libglapi-18.0.5-4.el7_6.x86_64 mesa-filesystem-18.0.5-3.el7.x86_64 mesa-libGLU-devel-9.0.0-4.el7.x86_64 mesa-libgbm-18.0.5-4.el7_6.x86_64 +++++++++++++++++++++++ $ rpm -qa |grep GL mesa-libGLw-8.0.0-4.el7.x86_64 mesa-libGLw-devel-8.0.0-4.el7.x86_64 mesa-libGL-devel-18.0.5-4.el7_6.x86_64 ghc-GLUT-2.4.0.0-40.el7.x86_64 mesa-libGLES-18.0.5-4.el7_6.x86_64 ghc-OpenGL-devel-2.8.0.0-40.el7.x86_64 mesa-libGL-18.0.5-4.el7_6.x86_64 mesa-libGLU-9.0.0-4.el7.x86_64 mesa-libEGL-18.0.5-4.el7_6.x86_64 ghc-OpenGLRaw-1.3.0.0-40.el7.x86_64 ghc-GLURaw-devel-1.3.0.0-40.el7.x86_64 ghc-GLURaw-1.3.0.0-40.el7.x86_64 ghc-OpenGL-2.8.0.0-40.el7.x86_64 ghc-OpenGLRaw-devel-1.3.0.0-40.el7.x86_64 ghc-GLUT-devel-2.4.0.0-40.el7.x86_64 mesa-libGLU-devel-9.0.0-4.el7.x86_64 +++++++++++++++++++++++ $ rpm -qa |grep tk gtk-update-icon-cache-3.22.30-3.el7.x86_64 libreport-gtk-2.1.11-42.el7.x86_64 webkitgtk4-2.20.5-1.el7.x86_64 atk-2.28.1-1.el7.x86_64 gtk2-2.24.31-1.el7.x86_64 gtk3-3.22.30-3.el7.x86_64 webkitgtk4-jsc-2.20.5-1.el7.x86_64 tk-8.5.13-6.el7.x86_64 libpeas-gtk-1.22.0-1.el7.x86_64 webkitgtk3-2.4.11-2.el7.x86_64 webkitgtk4-plugin-process-gtk2-2.20.5-1.el7.x86_64 tk-devel-8.5.13-6.el7.x86_64 gtksourceview3-3.24.8-1.el7.x86_64 adwaita-gtk2-theme-3.28-2.el7.x86_64 at-spi2-atk-2.26.2-1.el7.x86_64 tkinter-2.7.5-77.el7_6.x86_64
Amazon Linux 2:
on Amazon Linux 2:
$ chimera --debug initializing general preferences loading Tix initializing graphics create application loading Pmw creating main window creating menus creating toolbar creating viewer initializing OpenGL initializing preferences initializing dialogs initializing COM initializing extensions
$cat /etc/os-release NAME="Amazon Linux" VERSION="2" ID="amzn" ID_LIKE="centos rhel fedora" VERSION_ID="2" PRETTY_NAME="Amazon Linux 2" ANSI_COLOR="0;33" CPE_NAME="cpe:2.3:o:amazon:amazon_linux:2" HOME_URL="https://amazonlinux.com/"
$ uname -a Linux xxxxxxx 4.14.106-97.85.amzn2.x86_64 #1 SMP Fri Mar 15 17:07:54 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux
$ rpm -qa |grep mesa mesa-libEGL-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-libGL-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-private-llvm-3.9.1-3.amzn2.0.2.x86_64 mesa-libglapi-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-dri-drivers-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-libgbm-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-libwayland-egl-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-libGLU-9.0.0-4.amzn2.0.2.x86_64 mesa-filesystem-17.2.3-8.20171019.amzn2.0.4.x86_64 +++++++++++++++++++++++ $ rpm -qa |grep GL mesa-libEGL-17.2.3-8.20171019.amzn2.0.4.x86_64 mesa-libGL-17.2.3-8.20171019.amzn2.0.4.x86_64 libGLEW-1.10.0-5.amzn2.0.2.x86_64 mesa-libGLU-9.0.0-4.amzn2.0.2.x86_64 +++++++++++++++++++++++ $ rpm -qa |grep tk gtk2-2.24.31-1.amzn2.0.2.x86_64 pinentry-gtk-0.8.1-17.amzn2.0.2.x86_64 webkitgtk4-jsc-2.14.7-3.amzn2.0.1.x86_64 ibus-gtk3-1.5.17-2.amzn2.x86_64 libappindicator-gtk3-12.10.0-13.amzn2.0.1.x86_64 xdg-user-dirs-gtk-0.10-4.amzn2.0.1.x86_64 fltk-1.3.4-1.amzn2.0.2.x86_64 gtkspell3-3.0.3-4.amzn2.0.2.x86_64 gtk-murrine-engine-0.98.2-13.amzn2.x86_64 libdbusmenu-gtk2-16.04.0-4.amzn2.0.1.x86_64 gtk3-3.22.26-4.amzn2.x86_64 rtkit-0.11-10.amzn2.0.1.x86_64 gtk-update-icon-cache-3.22.26-4.amzn2.x86_64 libreoffice-gtk3-5.3.6.1-19.amzn2.0.1.x86_64 adwaita-gtk2-theme-3.22.2-2.amzn2.x86_64 tk-8.5.13-6.amzn2.0.2.x86_64 libcanberra-gtk3-0.30-5.amzn2.0.2.x86_64 libdbusmenu-gtk3-16.04.0-4.amzn2.0.1.x86_64 libpeas-gtk-1.20.0-1.amzn2.0.2.x86_64 tk-devel-8.5.13-6.amzn2.0.2.x86_64 gtk2-engines-2.20.2-14.amzn2.x86_64 gtksourceview2-2.11.2-24.amzn2.x86_64 libreoffice-gtk2-5.3.6.1-19.amzn2.0.1.x86_64 gtkspell-2.0.16-8.amzn2.0.2.x86_64 webkitgtk4-plugin-process-gtk2-2.14.7-3.amzn2.0.1.x86_64 ibus-gtk2-1.5.17-2.amzn2.x86_64 pygtk2-2.24.0-9.amzn2.0.2.x86_64 atk-2.22.0-3.amzn2.0.2.x86_64 at-spi2-atk-2.22.0-2.amzn2.0.2.x86_64 gstreamer1-plugins-bad-free-gtk-1.10.4-3.amzn2.x86_64 gtksourceview3-3.22.2-1.amzn2.0.2.x86_64 pygtksourceview-2.10.1-16.amzn2.x86_64 atkmm-2.24.2-1.amzn2.0.2.x86_64 webkitgtk4-2.14.7-3.amzn2.0.1.x86_64 libindicator-gtk3-12.10.1-6.amzn2.0.1.x86_64 gtkmm30-3.22.2-1.amzn2.x86_64
-Darin
"The most exciting phrase to hear in science, the one that heralds new discoveries, is not 'Eureka!' (I found it!) but 'That's funny ...'" -Issac Asimov
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