V_SIM(1)V_SIM(1)NAMEv_sim - a GTK program for 3D visualisation of atomic systems
SYNOPSISv_sim [-e file ] [-r file ] [-h ] [-g <w>x<h> ] [-s file ] [-m id ] [-a
] [-c file ] [-u l:m:n ] [-d id ] [-t x:y:z ] [-x x:y:z ] [-p file ]
[-f file ] [-v v[:v] ] [-i file ] [-b id[:id] ] [--log-scale id ] [-n
val ] [--color-iso-lines [R:G:B] or auto ] [--fit-to-box val ] [--bg-
image file ] [-o id=value ] [-w mode ] [--i-set i ] [--value-file file
] [--map-precision prec ] [--map-clamp min:max or auto ] [--introspect-
dump fileToDump ] [--color-clamp col#min:max or auto ] [--scaling-col‐
umn id ] [ fileToRender ]
This manual page documents briefly the v_sim commands. It is a software
to visualise atomic structures with OpenGl rendering.
OPTIONS
This program follows the usual GNU command line syntax, with long
options starting with two dashes (`-').
A complete list of options is included below.
-e, --export file (from v3.0.0)
make an image from the fileToRender argument. The format is
specified through the extension of the argument or by the -o
fileFormatId=id option (get the id of available file formats
with -o list).
-r, --resources file (from v3.4.0)
load the given resources file on startup instead of looking for
a valid resources file in the standard locations.
-h, --help (from v3.0.0)
show this little help.
-g, --geometry <w>x<h> (from v3.0.0)
specify the size of the rendering window, the size argument must
have the following format: <width>x<height> with positive non
null values. (Default value: 600x600)
-s, --spin-file file (from v3.1.0)
use the given argument as a spin indicator. If this option is
used, V_Sim switches automatically to spin rendering whatever
method is specified in the parameter file.
-m, --hiding-mode id (from v3.2.0)
policy used to show or not null modulus spins possible values
are positives. (Default value: 0)
-a, --spin-and-atomic (from v3.3.0)
always draws atomic rendering on node position in addition to
spin rendering.
-c, --colorize file (from v3.1.0)
the argument fileToRender must be called, then the given file of
the option is used to colorize the elements.
-u, --use-column l:m:n (from v3.1.0)
it specifies the columns to use from the data file for the three
colour channels [l;m;n]. Columns are counted from 1. Use -3, -2,
-1 and 0 to use the special values, constant 1, coord. x, coord.
y, and coord. z, respectively.
-d, --color-preset id (from v3.1.0)
this option can be used with the '--colorize' one or the
'--build-map' one. It chooses a preset color scheme. The id
argument is an integer that corresponds to a defined color shade
(ranging from 0).
-t, --translate x:y:z (from v3.3.0)
a file must be loaded. It applies the given translations to the
loaded file. The units are those of the file. This is available
for periodic file formats only.
-x, --expand x:y:z (from v3.4.0)
a file must be loaded. It applies the given expansion to the
loaded file. The values are given in box coordinates. This is
available for periodic file formats only.
-p, --planes file (from v3.2.0)
the argument fileToRender must be called, then the given file of
the option is parsed as a list of planes and they are rendered.
-f, --scalar-field file (from v3.3.0)
the argument fileToRender must be called, then the given file of
the option is parsed as a scalar field and loaded.
-v, --iso-values v[:v] (from v3.3.0)
must be used with the '--scalar-field' option, then the given
surfaces are built and rendered. If a name is appended to a
value using '#' as a separator, this name is used as the name
for the iso-surface (i.e. 0.25#Blue).
-i, --iso-surfaces file (from v3.2.0)
the argument fileToRender must be given, then the given file of
the option is parsed and surfaces are rendered.
-b, --build-map id[:id] (from v3.4.0)
the argument fileToRender must be given, as the '--planes',
'--color-preset' and '--scalar-field' options used, then the
given plane 'id' is replaced by a coloured map using given
scalar field and shade. 'id' ranges from 0. If several ids are
given, several maps are built.
--log-scale id (from v3.4.0)
select the scaling method to use with gradients (0: linear, 1:
log scaled and 2 is zero-centred log scale), default is linear
scale.
-n, --n-iso-lines val (from v3.4.0)
when positive, val isolines are plotted on the coloured map.
--color-iso-lines [R:G:B] or auto (from v3.5.0)
when given, generated iso-lines are colourised [R:G:B] or auto
with the values. The specific value 'auto' will produced iso-
lines in inversed colours. (Default value: [0:0:0])
--fit-to-box val (from v3.3.0)
if val is not TRUE, the surfaces use their own bounding box.
(Default value: TRUE)
--bg-image file (from v3.4.0)
draw the given image on the background.
-o, --option id=value (from v3.3.0)
this is a generic way to give extended option. to V_Sim. As much
as -o can be used. Each one store a key and its value (boolean,
integer or float).
-w, --window-mode mode (from v3.5.0)
used to choose the windowing mode. By default the command panel
and the rendering window are separated. In the 'oneWindow' mode
they are joined. In the 'renderOnly' mode, the command panel is
not used. (Default value: classic)
--i-set i (from v3.5.0)
this flag is used to choose the id of the loaded file if the
format has support for multiple ids in one file (see XYZ format
or -posi.d3 ones). (Default value: 0)
--value-file file (from v3.5.0)
specify an XML file with some value information for V_Sim, like
a list of planes, highlighted nodes... It replaces and extend
the previous --planes option.
--map-precision prec (from v3.5.0)
Give the precision in percent to render the coloured map.
(Default value: 100)
--map-clamp min:max or auto (from v3.6.0)
Set the minimum and maximum values for the coloured map render‐
ing. (Default value: auto)
--introspect-dump fileToDump (from v3.6.0)
Dump object signals and properties for introspection.
--color-clamp col#min:max or auto (from v3.7.0)
Range to adjust values into for colourisation. col specifiesthe
column to apply the range to. Use -2, -1 and 0 for x, yand z
directions respectively. (Default value: auto)
--scaling-column id (from v3.7.0)
used with a data file (see -c), it specifies the column id to be
used to scale the nodes.
FILES
/usr/share/v_sim/v_sim.res specify all rendering informations from
position of the camera to colour of the elements.
/usr/share/v_sim/v_sim.par specify all interface and non-rendering
options such as the positions of the panels.
~/$XDG_CONFIG_DIR/v_sim a directory where overloading v_sim.res and
v_sim.par can be put.
AUTHOR
V_Sim was written by Luc Billard, Damien Caliste, Olivier D'Astier
Aurélien Lherbier, Jérémy Blanc, Simon Planès, Thomas Jourdan and Yoann
Ratao.
This manual page was written by Damien Caliste <damien.caliste@cea.fr>.
September 17, 2013 V_SIM(1)
