Since I can't access
http://www.ysbl.york.ac.uk/~emsley/software/binaries/nightlies/pre-release/
I installed coot by installing ccp4.
However, I can't launch coot in my terminal (I logged in with ssh -X) with a below message.
Since it mentions something about Gtk, I tried to install gtk3, but
http://www.ysbl.york.ac.uk/~emsley/build-logs/build-it-gtk2-simple
is not accessible (https://strucbio.biologie.uni-konstanz.de/ccp4wiki/index.php/Coot#Installation_from_a_distributed_binary_tarball_package).
Additionally, direct installation of gtk3 seems not trivial with many dependencies that need sudo right.
Is there anyone contact info of emsley?
Thank you
(base) [kimd999@kriosgpu bin]$ ./coot
(coot-bin:79769): GLib-GObject-WARNING **: g_object_set_valist: object class 'GtkSettings' has no property named 'gtk-application-prefer-dark-theme'
INFO:: Using Standard CCP4 Refmac dictionary from CLIBD_MON: /opt/apps/ccp4-7.1/lib/data/monomers/
There are 166 data in /opt/apps/ccp4-7.1/lib/data/monomers/list/mon_lib_list.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/a/ALA.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/a/ASP.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/a/ASN.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/c/CYS.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/g/GLN.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/g/GLY.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/g/GLU.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/p/PHE.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/h/HIS.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/i/ILE.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/l/LYS.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/l/LEU.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/m/MET.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/m/MSE.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/p/PRO.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/a/ARG.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/s/SER.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/t/THR.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/v/VAL.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/t/TRP.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/t/TYR.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/p/PO4.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/s/SO4.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/g/GOL.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/c/CIT.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/e/EDO.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/a/A.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/c/C.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/g/G.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/u/U.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/d/DA.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/d/DC.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/d/DG.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/d/DT.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/h/HOH.cif
There are 2 data in /opt/apps/ccp4-7.1/lib/data/monomers/n/NA.cif
INFO:: Reading coordinate file: /opt/apps/ccp4-7.1/share/coot/standard-residues.pdb
INFO:: file /opt/apps/ccp4-7.1/share/coot/standard-residues.pdb has been read.
Spacegroup: P 1
The program 'coot-bin' received an X Window System error.
This probably reflects a bug in the program.
The error was 'BadValue (integer parameter out of range for operation)'.
(Details: serial 311 error_code 2 request_code 149 minor_code 3)
(Note to programmers: normally, X errors are reported asynchronously;
that is, you will receive the error a while after causing it.
To debug your program, run it with the --sync command line
option to change this behavior. You can then get a meaningful
backtrace from your debugger if you break on the gdk_x_error() function.)
Guile 1.8.8
Copyright (c) 1995, 1996, 1997, 2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008 Free Software Foundation
Guile may be distributed under the terms of the GNU General Public Licence;
certain other uses are permitted as well. For details, see the file
`COPYING', which is included in the Guile distribution.
There is no warranty, to the extent permitted by law.
catching the crash log:
coot-exe: "/opt/apps/ccp4-7.1/libexec/coot-bin"
/usr/bin/ls
coot-version:
/opt/apps/ccp4-7.1/libexec/coot-bin
platform:
/usr/bin/uname
core: #f
No core file found. No debugging
To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1
