On Mon, Oct 10, 2011 at 2:58 AM, Tsjerk Wassenaar <tsje...@gmail.com> wrote:
> Hey Lina,
>
> It most likely is a consequence of the update. But the error comes
> from the settings code, so I assumed that you set some settings at
> startup, which brings a .pymolrc in mind. Not loading that file would
>
Right now I just simply removed the .pymolrc
Problem is still the same with
Detected OpenGL version 2.0 or greater. Shaders available.
PyMOLShader_NewFromFile-Error: Unable to open file
'/usr/share/pymol/data/shaders/default.vs' PYMOL_PATH='/usr/share/pymol'
PyMOLShader_NewFromFile-Warning: default shader files not found, loading
from memory.
PyMOLShader_NewFromFile-Error: Unable to open file
'/usr/share/pymol/data/shaders/volume.vs' PYMOL_PATH='/usr/share/pymol'
PyMOLShader_NewFromFile-Warning: volume shader files not found, loading
from memory.
Detected GLSL version 4.10.
Detected 8 CPU cores. Enabled multithreaded rendering.
Setting-Error: type read mismatch (float) -1
Recently I guess I updated lots of package, the detailed updated package in
the recent four days includes:
Start-Date: 2011-10-07 21:05:49
Install: libnl3:amd64 (3.0-2, automatic)
Upgrade: libreoffice-style-galaxy:amd64 (3.4.3-1, 3.4.3-3), libplist1:amd64
(1.6
-2, 1.6-2+b1), libreoffice-draw:amd64 (3.4.3-1, 3.4.3-3), liblcms1:amd64
(1.19.d
fsg-1, 1.19.dfsg-1+b1), gnome-session-bin:amd64 (2.30.2-3+sid1,
2.30.2-3+sid2),
python-minimal:amd64 (2.6.7-3, 2.7.2-7), libreoffice-impress:amd64 (3.4.3-1,
3.4
.3-3), libimobiledevice2:amd64 (1.1.1-2, 1.1.1-2+b1),
apache2-mpm-worker:amd64 (
2.2.20-1, 2.2.21-1), pymol:amd64 (1.4.1-1, 1.4.1-1+b1), gnome-session:amd64
(2.3
0.2-3+sid1, 2.30.2-3+sid2), libpolkit-gtk-1-0:amd64 (0.102-1, 0.102-2),
gnome-se
ssion-common:amd64 (2.30.2-3+sid1, 2.30.2-3+sid2), libavogadro1:amd64
(1.0.3-1+b
1, 1.0.3-1+b2), python-all:amd64 (2.6.7-3, 2.7.2-7), ttf-opensymbol:amd64
(2.4.3
+LibO3.4.3-1, 2.4.3+LibO3.4.3-3), python-dev:amd64 (2.6.7-3, 2.7.2-7),
libreoffi
ce-report-builder-bin:amd64 (3.4.3-1, 3.4.3-3), liblcms1-dev:amd64
(1.19.dfsg-1,
1.19.dfsg-1+b1), libfcgi-perl:amd64 (0.73-2, 0.74-1), apache2-utils:amd64
(2.2.
20-1, 2.2.21-1), libreoffice-math:amd64 (3.4.3-1, 3.4.3-3), apache2:amd64
(2.2.2
0-1, 2.2.21-1), libreoffice-common:amd64 (3.4.3-1, 3.4.3-3),
python-avogadro:amd
64 (1.0.3-1+b1, 1.0.3-1+b2), apache2.2-common:amd64 (2.2.20-1, 2.2.21-1),
uno-li
bs3:amd64 (3.4.3-1, 3.4.3-3), deskbar-applet:amd64 (2.32.0-1+b2,
2.32.0-1+b3), p
ython-uno:amd64 (3.4.3-1, 3.4.3-3), python:amd64 (2.6.7-3, 2.7.2-7),
sudo:amd64
(1.8.2-1, 1.8.2-2), libwpd-0.9-9:amd64 (0.9.3-1, 0.9.3-2),
apache2.2-bin:amd64 (
2.2.20-1, 2.2.21-1), policykit-1-gnome:amd64 (0.102-1, 0.102-2),
avogadro:amd64
(1.0.3-1+b1, 1.0.3-1+b2), openoffice.org:amd64 (3.4.0~ooo340m1-3,
3.4.0~ooo340m1
-5), wpasupplicant:amd64 (0.7.3-3, 0.7.3-4), libtotem-plparser17:amd64
(2.32.5-2
, 2.32.6-1), ure:amd64 (3.4.3-1, 3.4.3-3), libreoffice-base-core:amd64
(3.4.3-1,
3.4.3-3), libreoffice-base:amd64 (3.4.3-1, 3.4.3-3), libreoffice:amd64
(3.4.3-1
, 3.4.3-3), libreoffice-calc:amd64 (3.4.3-1, 3.4.3-3), libpq5:amd64
(9.1.0-1, 9.
1.1-1), libreoffice-officebean:amd64 (3.4.3-1, 3.4.3-3),
libreoffice-emailmerge:
amd64 (3.4.3-1, 3.4.3-3), python-all-dev:amd64 (2.6.7-3, 2.7.2-7),
libreoffice-j
ava-common:amd64 (3.4.3-1, 3.4.3-3), libreoffice-filter-mobiledev:amd64
(3.4.3-1
, 3.4.3-3), pdb2pqr:amd64 (1.7-2, 1.7-2+b1),
libreoffice-filter-binfilter:amd64
(3.4.3-1, 3.4.3-3), libjs-jquery:amd64 (1.6.2-1, 1.6.4-1),
libreoffice-core:amd6
4 (3.4.3-1, 3.4.3-3), libreoffice-writer:amd64 (3.4.3-1, 3.4.3-3)
End-Date: 2011-10-07 21:15:12
Start-Date: 2011-10-07 23:59:10
Upgrade: python3-minimal:amd64 (3.2-3, 3.2.2~rc1-2), python3-dev:amd64
(3.2-3, 3
.2.2~rc1-2), python3-doc:amd64 (3.2-3, 3.2.2~rc1-2), python3.2-minimal:amd64
(3.
2.1~rc1-1, 3.2.2~rc1-1), libpython3.2:amd64 (3.2.1~rc1-1, 3.2.2~rc1-1),
python3.
2:amd64 (3.2.1~rc1-1, 3.2.2~rc1-1), python3.2-examples:amd64 (3.2.1~rc1-1,
3.2.2
~rc1-1), python3:amd64 (3.2-3, 3.2.2~rc1-2), idle3:amd64 (3.2-3,
3.2.2~rc1-2), p
ython3.2-dev:amd64 (3.2.1~rc1-1, 3.2.2~rc1-1), python3.2-doc:amd64
(3.2.1~rc1-1,
3.2.2~rc1-1), python3-examples:amd64 (3.2-3, 3.2.2~rc1-2)
End-Date: 2011-10-08 00:00:57
Start-Date: 2011-10-08 16:17:23
Upgrade: libatk1.0-0:amd64 (2.0.1-2, 2.2.0-1), mgltools-pybabel:amd64
(1.5.6~rc1
+cvs.20110617-1, 1.5.6~rc2+cvs.20110926-1), mgltools-webservices:amd64
(1.5.6~rc
1+cvs.20110703-1, 1.5.6~rc2+cvs.20110926-1), libatk1.0-data:amd64 (2.0.1-2,
2.2.
0-1), mgltools-volume:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc2+cvs.20110926-1)
, mgltools-mglutil:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc2+cvs.20110926-1), l
ibtdb1:amd64 (1.2.9-3, 1.2.9-4+b1), mgltools-scenario2:amd64
(1.5.6~rc1+cvs.2011
0617-1, 1.5.6~rc2+cvs.20110926-1), infernal:amd64 (1.0.2-1, 1.0.2-2),
libfuse2:a
md64 (2.8.5-5, 2.8.6-1), autodocktools:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc
2+cvs.20110926-1), mgltools-viewerframework:amd64 (1.5.6~rc1+cvs.20110617-2,
1.5
.6~rc2+cvs.20110926-1), mgltools-pyglf:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc
2+cvs.20110926-1), mgltools-opengltk:amd64 (1.5.6~rc1+cvs.20110625-1,
1.5.6~rc2+
cvs.20110926-1), mgltools-geomutils:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc2+c
vs.20110926-1), gir1.2-atk-1.0:amd64 (2.0.1-2, 2.2.0-1), mgltools-gle:amd64
(1.5
.6~rc1+cvs.20110617-1, 1.5.6~rc2+cvs.20110926-1), liborc-0.4-0:amd64
(0.4.14-1,
0.4.15-2), mgltools-support:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc2+cvs.20110
926-1), mgltools-bhtree:amd64 (1.5.6~rc1+cvs.20110617-1,
1.5.6~rc2+cvs.20110926-
1)
End-Date: 2011-10-08 16:19:54
Start-Date: 2011-10-08 22:02:42
Upgrade: ia32-libs:amd64 (20110609, 20111001), ia32-libs-gtk:amd64
(20110310, 20
111001)
End-Date: 2011-10-08 22:03:21
Start-Date: 2011-10-09 22:09:51
Upgrade: libtalloc2:amd64 (2.0.7-1, 2.0.7-3), gcalctool:amd64 (6.0.2-1,
6.2.0-1)
, python-minimal:amd64 (2.7.2-7, 2.7.2-8), zenity:amd64 (3.0.0-2, 3.2.0-1),
libp
angomm-1.4-1:amd64 (2.28.2-1, 2.28.3-1), python-all:amd64 (2.7.2-7,
2.7.2-8), li
bgweather-3-0:amd64 (3.0.2-1, 3.2.0-1), libwps-0.2-2:amd64 (0.2.2-1,
0.2.3-1), p
ython-dev:amd64 (2.7.2-7, 2.7.2-8), libgweather-common:amd64 (3.0.2-1,
3.2.0-1),
libp11-kit0:amd64 (0.6-1, 0.7-2), python:amd64 (2.7.2-7, 2.7.2-8),
libdjvulibre
21:amd64 (3.5.24-8+b1, 3.5.24-9), libunique-3.0-0:amd64 (3.0.0-1, 3.0.2-1),
libd
vdread4:amd64 (4.1.4-1219-2, 4.1.4-1219-4), gimp:amd64 (2.6.11-4, 2.6.11-5),
lib
gimp2.0:amd64 (2.6.11-4, 2.6.11-5), zenity-common:amd64 (3.0.0-2, 3.2.0-1),
pyth
on-all-dev:amd64 (2.7.2-7, 2.7.2-8), libdjvulibre-text:amd64 (3.5.24-8+b1,
3.5.2
4-9), libgssglue1:amd64 (0.3-3, 0.3-3.1), gimp-data:amd64 (2.6.11-4,
2.6.11-5),
dmidecode:amd64 (2.9-1.2, 2.11-3)
End-Date: 2011-10-09 22:14:12
then solve it, although the problem is probably more fundamental, and
> I would suspect you'd get an error like that when just setting some
> setting in Pymol. If you can give more information regarding the
> modules that were updated, it would be very helpful. Otherwise, I'm
>
Yesterday I re-installed the pymol, everything kept it as original, did not
install some plugins and others.
> rather clueless...
> Cheers,
>
> Thanks again,
> Tsjerk
>
>
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