NEURO
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NEURO
Section: User Commands (1)
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NAME
neuro - data capture and analysis for neurosciences
SYNOPSIS
neuro
[X-options]
DESCRIPTION
Neuro
provides a front-end menu to the Spinal Cord Research Centre's
data capture and analysis software for neurosciences.
Before beginning, it will check to see if the
NEURODIR
environment variable has been set.
If not, it will run all the commands in the environment variable
setup file,
/usr/neuro/lib/setup.sh,
so that all variables are set as required for proper operation
of this software package.
You can start up any of the major applications in this package
by pressing the key corresponding to it.
On an X terminal,
you can also select an application by using the pointing device to
move the cursor to the menu entry you want, then press button
A
or
B
to select it.
Below is a description of all of these menu entries,
and the keys used to select them.
D Directory
This selection allows you to select the
directory in which applications will be started.
When prompted, type in the name of the directory you want, and
neuro
will position itself there, provided it is a valid directory to
which you have access.
This directory name will be remembered from one invocation of
neuro
to the next, as it will be stored in the file
.neuro.ini
in your home directory when you quit.
S Set Calibration
This selection invokes the
calibrate(1)
application, so you can set up the calibration information prior
to capturing data.
C Capture
This selection invokes the
cap(1)
application, to capture raw data for analysis.
B Capture & Average
This selection invokes the
cavg(1)
application, to capture data and average it on the fly.
F Frame Selection
This selection invokes the
frmsel(1)
application, to select frames for analysis.
By default, it begins with the most recently modified run in the
directory, but you can easily pick another run using its
File
selection.
V View List of Runs
This selection invokes
lsrun(1),
to list run files available for analysis in the current
directory.
A Analysis
This selection invokes the
analysis(1)
application, to analyse run files in the current directory.
By default, it begins with the most recently modified run in the
directory, but you can easily pick another run using its
Load
operation.
M Quick Measure
This selection invokes the
qm(1)
application, to obtain cursor measurements from
run files in the current directory.
By default, it begins with the most recently modified run in the
directory, but you can easily pick another run using its
Set/File,
Set/Next-File
or
Set/Prev-File
operation.
E Exponential Peeling
This selection invokes the
peel(1)
application, to perform and exponential peel analysis on a trace
from a run file in the current directory.
By default, it begins with the most recently modified run in the
directory, but you can easily pick another run using its
File-select
operation.
R Raster Graphs
This selection invokes the
raster(1)
application, to produce a pseudo-3D raster graph, or waterfall
plot, of traces from a run file in the current directory.
By default, it begins with the most recently modified run in the
directory, but you can easily pick another run using its
File
selection.
W Weighted Sums
This selection invokes the
wtsum(1)
application, to produce weighted sums
of traces from a run file in the current directory, or a number
of run files.
By default, it begins with the most recently modified run in the
directory, but you can easily pick other runs, in this or other
directories, using its
File-select
operation.
L Layout
This selection invokes the
layout(1)
application, to prepare final graphs from your HPGL plot files.
You can select an existing layout file using its
Layout
selection, or you can begin a new layout from scratch.
T List of Files
This selection invokes the
ls(1)
program, to list all files in the current directory.
The options given to
ls
are specified via the
O
selection described below.
O Options for List
This selection allows you to specify which options will be used by
ls(1)
when you select the
T
operation above.
When prompted, type in any valid option arguments you want,
complete with the leading hyphen
(-).
These options will be remembered from one invocation of
neuro
to the next, as they will be stored in the file
.neuro.ini
in your home directory when you quit.
U Unix Shell
This selection invokes the Unix shell, to allow you to type in
Unix commands, or run any of the utility programs that come with
this package but aren't in the menu.
Normally, it will run the same shell as you have set for your
login shell, which is typically
sh(1)
or
csh(1).
When running on an X Window terminal, this selection invokes
xterm(1)
instead, which in turn starts up your shell.
Many options are passed on to
xterm,
but additional or overriding options can be specified via the
X
selection described below.
P Print Window Dump
This selection,
available only when running on an X Window terminal,
allows you to print out an image of any window currently
displayed on your X terminal.
It does this by invoking
sdump(1),
with no window ID specified in the
WINDOWID
environment variable.
The target window is selected by clicking the mouse in the
desired window, when the cursor changes to a crosshair.
There is a pause of about 2 seconds before this happens, to give
you time to bring the window you want up to the front, so it is
not partly obscured.
X Options for Xterm
This selection,
available only when running on an X Window terminal,
allows you to specify which options will be used by
xterm(1)
when you select the
U
operation above.
When prompted, type in any valid option arguments you want,
complete with the leading hyphen
(-)
if needed.
These options will be remembered from one invocation of
neuro
to the next, as they will be stored in the file
.neuro.ini
in your home directory when you quit.
The options "-132 -cu -rw -sb -sl 480 -ls"
are always passed on to
xterm,
but the options you specify are given after these, so you can
override any you wish to.
The
-n
and
-title
options are also passed on to
xterm,
but these are given after any you specify here.
! Shell Escape
This selection allows you to run a single Unix shell command.
After it runs, you are returned to the menu.
This is of use primarily on non-X terminals.
On an X terminal, you are better off running commands from an
xterm
window, so the standard input, output and error streams
are dealt with properly.
Q Quit
This selection allows you to quit the
neuro
program.
You are prompted for confirmation before it actually quits.
Press
Y
to quit, or
N
to resume.
X WINDOW SUPPORT
When
neuro
is run from an
xterm
(or
kterm)
window on an X Window terminal,
a new window will be shown for the menu.
Like the other X Window programs in this package,
neuro
will recognise the usual X command line options,
such as
-display,
-geometry,
-font,
etc.
The environment variables for setting these options will also work.
(This is provided that the
DISPLAY
environment variable is set, and
TERM
is set to xterm or kterm,
or that the
-display
option is used.)
See
analysis(1)
for details on X options and environment variables.
When running this way on an X terminal,
neuro
will start applications in the background, so that you can return
to the menu at any time to start up another application.
Applications that must be run from an
xterm
window, such as
calibrate,
cap,
lsrun,
ls
and the Unix Shell, will each have their own
xterm
application started up in the background.
Error messages from the standard error output of any of these
applications will be sent to the file
.neuro.err
in your home directory.
FILES
$HOME/.neuro.ini user's initialisation file
$HOME/.neuro.err user's error log file for X
/usr/neuro/lib/setup.sh environment setup file
/usr/neuro/lib/parmgrps/neuromnu.ini configuration file (non-X)
/usr/neuro/lib/parmgrps/xneurmnu.ini configuration file for X
SEE ALSO
calibrate(1), cap(1), cavg(1), frmsel(1), lsrun(1),
analysis(1), qm(1), peel(1), raster(1), wtsum(1),
layout(1),
ls(1), sh(1), csh(1)
Index
- NAME
-
- SYNOPSIS
-
- DESCRIPTION
-
- D Directory
-
- S Set Calibration
-
- C Capture
-
- B Capture & Average
-
- F Frame Selection
-
- V View List of Runs
-
- A Analysis
-
- M Quick Measure
-
- E Exponential Peeling
-
- R Raster Graphs
-
- W Weighted Sums
-
- L Layout
-
- T List of Files
-
- O Options for List
-
- U Unix Shell
-
- P Print Window Dump
-
- X Options for Xterm
-
- ! Shell Escape
-
- Q Quit
-
- X WINDOW SUPPORT
-
- FILES
-
- SEE ALSO
-
This document was created by
man2html,
using the manual pages.
Time: 17:58:05 GMT, February 20, 2019
Copyright © G. R. Detillieux,
Spinal Cord Research Centre,
The University of Manitoba.