I am trying to generate titles automatically in Gnuplot. I have an array (titleprefix) and another set of variables (a1,a2,a3...), and the title is the prefix followed by the slope (the a's). I tried this:
title(n) = sprintf("word(titleprefix,n).sprintf(\" Slope = %.3f\",%f)",a."n"+0)
Of course that did not work. Error is:
Non-numeric string found where a numeric expression was expected.
Any idea how I solve this?
Eventually, I would like to plot several curves like this:
plot f1 w l t title(1), \
f2 w l t title(2), \
f3 w l t title(3)
One option to do such things is to build the complete set title command inside such a function and then eval that.
In your case it requires a bit of brain twisting to get the quotes correct, so that the variable names are correct:
titleprefix="first second third"
a1 = 1.111
a2 = 2.222
a3 = 3.333
title(n) = 'set title "'.word(titleprefix, n).': ".sprintf("Slope = %.3f", a'.n.')'
set multiplot layout 1,3
eval(title(1))
plot x
eval(title(2))
plot 2*x
eval(title(3))
plot 3*x
unset multiplot
Alternatively, you can construct a word list of the formatted variable values when you define or calculate the variables.
a1 = 1.111111
a2 = 2.222222
a3 = 3.333333
tmp = 'a = ""'
do for [i=1:3] { tmp = tmp.".sprintf('%.3f ', a".i.")" }
eval(tmp)
plot for [i=1:3] i*x title word(a, i)
Related
Is there any way to split a number into its integer and decimal parts?
I've tried the int() "function":
int(5.5) = 5.
But I've got no idea how do I get the decimal?
Example:
(I have)
a = 12.34
(I want)
b = 12
c = 34
a = 12.34
b = int(a)
c = ????
Thanks!!!!
(Update)
My specific problem, here we have (thanks again for the support)
I have a set of data, with different blocks. For each block, I want to make the same plot.
The title of the plot and the name of the output png depends on the block.
With this goal in mind I've created a loop
do for [j=0:int(A_blocks-2)]{
i=0 + 0.4*j
set output 'Mz_NMcs5000_Hext'.i.'_JC1_JSn05_JIntn05_R11_tSh2.png'
set title "H = '.i.' J_C = 1 J_S = J_{Int} = - 0.5"
plot filename index j using 1:5 w lp pt 5 lt rgb "black" title "Mag_T", "" index j u 1:20 w lp pt 9 lt rgb "red" title "Mag_{Int-S}"
}
The problem I have is that I only can concatenate using the dot if the value is an integer. I get this error:
internal error : STRING operator applied to undefined or non-STRING variable
If you want to include a float number into a title or a file name use the string formatting via sprintf(), check help sprintf and help format specifiers.
a = 1.234
myFile = sprintf("MyFileName_%g_MoreParameters.png",a)
print myFile
Result:
MyFileName_1.234_MoreParameters.png
Your question seems to have shifted, but the answer to the original question as asked is
gnuplot> a = 5.5555555555555
gnuplot> b = a - floor(a)
gnuplot> print b
0.5555555555555
I have a text file with 3 columns defining 3D points.
I want to paint every point in 3D and an ellipsoid centered in every point. I discard using the
set parametric
way because I need to iterate my text file.
So i think in doing something like this:
gnuplot
reset
set xrange [-5:5]
set yrange [-5:5]
set zrange [-5:5]
Rx = 1
Ry = 1
Rz = 1
fx(u,v) = column(2) + Rx*cos(u)*cos(v)
fy(u,v) = column(1) + Ry*sin(u)*cos(v)
fz(u,v) = column(3) + Rz*sin(v)
iMax = 200
splot "file.txt" using ($2):($1):($3) title "Input " with points ps 2 pt 7,\
for [i=0:iMax] "file.txt" u (fx(2*pi*i/iMax, pi*i/iMax)):(fy(2*pi*i/iMax, pi*i/iMax)):(fz(2*pi*i/iMax, pi*i/iMax)) notitle with points ps 2 pt 7
But the only think I can get is this strange and heavy (I know that they are a lot of iterations per row, but maybe there is another approach) pattern
Any help? Thank you.
There is something wrong for the mathematic point of view? Using something like this Im perfectly able to plot spheres, but without parsing data:
set parametric
R = 1
set urange [-pi/2:pi/2]
set vrange [0:2*pi]
splot R*cos(u)*cos(v),R*cos(u)*sin(v),R*sin(u) w l lc rgb "yellow"
I assume you want to plot the 2D surfaces of 3D ellipsoids. But the plot command has only a loop over i which is only 1D. This can not give a 2D surface. It might be possible to nest another 1D loop to get this approach to work.
I would suggest something else. Before plotting, you can store the center coordinates into a gnuplot array. Then you loop over this array and plot a sphere/ellipsoid using parametric mode.
This might be a starting point:
# This is the file with the center coordinates.
datafile = "ellipses.dat"
# The "stats" command stores the number of rows in the STATS_records variable.
stats datafile nooutput
num_rows = STATS_records
# Generate arrays which will contain the center coordinates of the ellipsoids.
array centers_x[num_rows]
array centers_y[num_rows]
array centers_z[num_rows]
# Read the center coordinates into the prepared arrays.
# I "misuse" the stats command. The "using" expression in parenthesis executes
# the respective commands and returns the value after the last comma: row + 1.
# This return value is not needed anywhere.
row = 1
stats datafile using (centers_x[row]=$1, \
centers_y[row]=$2, \
centers_z[row]=$3, \
row = row + 1) nooutput
# Output into an image file.
set terminal pngcairo
set output "ellipsoids.png"
# Set parameters for ellipsoids.
Rx = 0.1
Ry = 0.1
Rz = 0.7
# Use parametric mode for plotting.
set parametric
set urange [-pi/2:pi/2]
set vrange [0:2*pi]
# Finally plot:
splot datafile using 1:2:3 title "Input " with points ps 2 pt 7, \
for [i=1:num_rows] centers_x[i] + Rx*cos(u)*cos(v), \
centers_y[i] + Ry*cos(u)*sin(v), \
centers_z[i] + Rz*sin(u) notitle
Please doublecheck x, y, and z: I was not that careful. This is the result:
I have used this example data:
1 2 3
2 2 4
2 3 4
3 3 3
3 4 5
Arrays are available starting with gnuplot 5.2. For older versions, please search the internet for workarounds.
I calculated the eigenvalues of the Hamiltonian for the 1D-hydrogen atom in atomic units with the Fourier-Grid-Hamiltonian method in a nice little Fortran program.
All the eigenvalues found between -1 and 0 (the bound states) are saved into a file line by line like this:
-0.50016671392950229
-0.18026105614262633
-0.11485673263086937
-4.7309305955423042E-002
-4.7077108902158216E-002
As the number of found eigenvalues differs depends on the stepsize my program uses, the number of entries in the file can vary (in theory, there are infinite ones).
I now want to plot the values from the file as a line parallel to the x-axis with the offset given by the values read from file.
I also want to be able to plot the data only up to a certain line number, as the values get really close to each other the further you come to zero and they cannot be distinguished by eye anymore.
(Here e.g. it would make sence to plot the first four entries, the fifth is already too close to the previous one)
I know that one can plot lines parallel to the x axis with the command plot *offset* but I don't know how to tell gnuplot to use the data from the file. So far I had to manually plot the values.
As a second step I would like to plot the data only in a certain x range, more concrete between the points of intersection with the harmonic potential used for the numeric solution V(x) = -1/(1+abs(x))
The result should look like this:
scheme of the desired plot (lookalike)
The closest I got to, was with
plot -1/(1+abs(x)),-0.5 title 'E0',-0.18 title 'E1', -0.11 title 'E2'
which got me the following result:
my plot
Hope you guys can help me, and I'm really curios whether gnuplot actually can do the second step I described!
As for the first part of your question, you can for example use the xerrorbars plotting style as:
set terminal pngcairo
set output 'fig.png'
unset key
set xr [-1:1]
set yr [-1:0]
unset bars
plot '-' u (0):($1<-0.1?$1:1/0):(1) w xerrorbars pt 0 lc rgb 'red'
-0.50016671392950229
-0.18026105614262633
-0.11485673263086937
-4.7309305955423042E-002
-4.7077108902158216E-002
e
The idea here is to:
interpret the energies E as points with coordinates (0,E) and assign to each of them an x-errorbar of width 1 (via the third part of the specification (0):($1<-0.1?$1:1/0):(1))
"simulate" the horizontal lines with x-errorbars. To this end, unset bars and pt 0 ensure that Gnuplot displays just plain lines.
consider only energies E<-0.1, the expressions $1<-0.1?$1:1/0 evaluates otherwise to an undefined value 1/0 which has the consequence that nothing is plotted for such E.
plot '-' with explicit values can be of course replaced with, e.g., plot 'your_file.dat'
This produces:
For the second part, it mostly depends how complicated is your function V(x). In the particular case of V(x)=-1/(1+|x|), one could infer directly that it's symmetric around x=0 and calculate the turning points explicitly, e.g.,
set terminal pngcairo
set output 'fig.png'
fName = 'test.dat'
unset key
set xr [-10:10]
set yr [-1:0]
unset bars
f(x) = -1 / (1+abs(x))
g(y) = (-1/y - 1)
plot \
f(x) w l lc rgb 'black', \
fName u (0):($1<-0.1?$1:1/0):(g($1)) w xerrorbars pt 0 lc rgb 'red', \
fName u (0):($1<-0.1?$1:1/0):(sprintf("E%d", $0)) w labels offset 0, char 0.75
which yields
The idea is basically the same as before, just the width of the errorbar now depends on the y-coordinate (the energy). Also, the labels style is used in order to produce explicit labels.
Another approach may be to get data from "energy.dat" (as given in the question) with system and cat commands (so assuming a Un*x-like system...) and select V(x) and E at each x via max:
set key bottom right
set yr [-1:0.2]
set samples 1000
Edat = system( "cat energy.dat" )
max(a,b) = ( a > b ) ? a : b
V(x) = -1/(1+abs(x))
plot for [ E in Edat ] \
max(V(x),real(E)) title sprintf("E = %8.6f", real(E)) lw 2, \
V(x) title "V(x) = -1/(1+|x|)" lc rgb "red" lw 2
If we change the potential to V(x) = -abs(cos(x)), the plot looks pretty funny (and the energy levels are of course not correct!)
More details about the script:
max is not a built-in function in Gnuplot, but a user-defined function having two formal arguments. So for example, we may define it as
mymax( p, q ) = ( p > q ) ? p : q
with any other names (and use mymax in the plot command). Next, the ? symbol is a ternary operator that gives a short-hand notation for an if...else construct. In a pseudo-code, it works as
function max( a, b ) {
if ( a > b ) then
return a
else
return b
end
}
This way, max(V(x),real(E)) selects the greater value between V(x) and real(E) for any given x and E.
Next, Edat = system( "cat energy.dat" ) tells Gnuplot to run the shell command "cat energy.dat" and assign the output to a new variable Edat. In the above case, Edat becomes a string that contains a sequence of energy values read in from "energy.dat". You can check the contents of Edat by print( Edat ). For example, it may be something like
Edat = "-0.11 -0.22 ... -0.5002"
plot for [ E in Edat ] ... loops over words contained in a string Edat. In the above case, E takes a string "-0.11", "-0.22", ..., "-0.5002" one-by-one. real(E) converts this string to a floating-point value. It is used to pass E (a character string) to any mathematical function.
The basic idea is to draw a truncated potential above E, max(V(x),E), for each value of E. (You can check the shape of such potential by plot max(V(x),-0.5), for example). After plotting such curves, we redraw the potential V(x) to make it appear as a single potential curve with a different color.
set samples 1000 increases the resolution of the plot with 1000 points per curve. 1000 is arbitrary, but this seems to be sufficient to make the figure pretty smooth.
[Current]
I am importing a text file in which the first column has simulation time (0~150) the second column has the delay (0.01~0.02).
1.000000 0.010007
1.000000 0.010010
2.000000 0.010013
2.000000 0.010016
.
.
.
149.000000 0.010045
149.000000 0.010048
150.000000 0.010052
150.000000 0.010055
which gives me the plot:
[Desired]
I need to plot an average line on it like shown in the following image with red line:
Here is a gnuplot only solution with sample data:
set table "test.data"
set samples 1000
plot rand(0)+sin(x)
unset table
You should check the gnuplot demo page for a running average. I'm going to generalize this demo in terms of dynamically building the functions. This makes it much easier to change the number of points include in the average.
This is the script:
# number of points in moving average
n = 50
# initialize the variables
do for [i=1:n] {
eval(sprintf("back%d=0", i))
}
# build shift function (back_n = back_n-1, ..., back1=x)
shift = "("
do for [i=n:2:-1] {
shift = sprintf("%sback%d = back%d, ", shift, i, i-1)
}
shift = shift."back1 = x)"
# uncomment the next line for a check
# print shift
# build sum function (back1 + ... + backn)
sum = "(back1"
do for [i=2:n] {
sum = sprintf("%s+back%d", sum, i)
}
sum = sum.")"
# uncomment the next line for a check
# print sum
# define the functions like in the gnuplot demo
# use macro expansion for turning the strings into real functions
samples(x) = $0 > (n-1) ? n : ($0+1)
avg_n(x) = (shift_n(x), #sum/samples($0))
shift_n(x) = #shift
# the final plot command looks quite simple
set terminal pngcairo
set output "moving_average.png"
plot "test.data" using 1:2 w l notitle, \
"test.data" using 1:(avg_n($2)) w l lc rgb "red" lw 3 title "avg\\_".n
This is the result:
The average lags quite a bit behind the datapoints as expected from the algorithm. Maybe 50 points are too many. Alternatively, one could think about implementing a centered moving average, but this is beyond the scope of this question.
And, I also think that you are more flexible with an external program :)
Here's some replacement code for the top answer, which makes this also work for 1000+ points and much much faster. Only works in gnuplot 5.2 and later I guess
# number of points in moving average
n = 5000
array A[n]
samples(x) = $0 > (n-1) ? n : int($0+1)
mod(x) = int(x) % n
avg_n(x) = (A[mod($0)+1]=x, (sum [i=1:samples($0)] A[i]) / samples($0))
Edit
The updated question is about a moving average.
You can do this in a limited way with gnuplot alone, according to this demo.
But in my opinion, it would be more flexible to pre-process your data using a programming language like python or ruby and add an extra column for whatever kind of moving average you require.
The original answer is preserved below:
You can use fit. It seems you want to fit to a constant function. Like this:
f(x) = c
fit f(x) 'S1_delay_120_LT100_LU15_MU5.txt' using 1:2 every 5 via c
Then you can plot them both.
plot 'S1_delay_120_LT100_LU15_MU5.txt' using 1:2 every 5, \
f(x) with lines
Note that this is technique can be used with arbitrary functions, not just constant or lineair functions.
I wanted to comment on Franky_GT, but somehow stackoverflow didn't let me.
However, Franky_GT, your answer works great!
A note for people plotting .xvg files (e.g. after doing analysis of MD simulations), if you don't add the following line:
set datafile commentschars "##&"
Franky_GT's moving average code will result in this error:
unknown type in imag()
I hope this is of use to anyone.
For gnuplot >=5.2, probably the most efficient solution is using an array like #Franky_GT's solution.
However, it uses the pseudocolumn 0 (see help pseudocolumns). In case you have some empty lines in your data $0 will be reset to 0 which eventually might mess up your average.
This solution uses an index t to count up the datalines and a second array X[] in case a centered moving average is desired. Datapoints don't have to be equidistant in x.
At the beginning there will not be enough datapoints for a centered average of N points so for the x-value it will use every second point and the other will be NaN, that's why set datafile missing NaN is necessary to plot a connected line at the beginning.
Code:
### moving average over N points
reset session
# create some test data
set print $Data
y = 0
do for [i=1:5000] {
print sprintf("%g %g", i, y=y+rand(0)*2-1)
}
set print
# average over N values
N = 250
array Avg[N]
array X[N]
MovAvg(col) = (Avg[(t-1)%N+1]=column(col), n = t<N ? t : N, t=t+1, (sum [i=1:n] Avg[i])/n)
MovAvgCenterX(col) = (X[(t-1)%N+1]=column(col), n = t<N ? t%2 ? NaN : (t+1)/2 : ((t+1)-N/2)%N+1, n==n ? X[n] : NaN) # be aware: gnuplot does integer division here
set datafile missing NaN
plot $Data u 1:2 w l ti "Data", \
t=1 '' u 1:(MovAvg(2)) w l lc rgb "red" ti sprintf("Moving average over %d",N), \
t=1 '' u (MovAvgCenterX(1)):(MovAvg(2)) w l lw 2 lc rgb "green" ti sprintf("Moving average centered over %d",N)
### end of code
Result:
i'm having some problems with gnuplot
I have to draw a cdf function and i'm interested in the values of variable x when F(x) is equal to 0.1 and 0.9
How can I tell Gnuplot to show me on the x axis the value corresponding to a given value on the y value (in my example those values are 0.1 and 0.9)
thanks
You're basically asking gnuplot to solve an equation. In your particular case, actually two equations: F(x)=0.1 and F(x)=0.9. As far as I know this cannot be done, but I might be wrong. What you can do if you simply want a graphical solution, is make a conditional plot, and ask that when F(x) is very close to 0.1 0.9, gnuplot plots something other than the function.
For example, assume f(x)=x^2 and you want to know "graphically" for which x f(x)=0.1. Then you can request the value abs(f(x) - 0.1) be small, for example < 0.01. Then tell gnuplot to go to zero (just an example!) if this is the case, otherwise plot f(x)=x^2:
f(x)=x**2
set xrange [-2:2]
set samples 1000
plot abs(f(x)-1) < 0.01 ? 0 : f(x)
Which yields:
The two peaks that go to zero mark graphically on the x axis the solution to the equation f(x)=0.1. Of course, you need gnuplot to sample this point in order to see a peak. Thus you need to play with set samples and set xrange.
From your question it is not clear whether you have a function F(x) as expression or just a x,y-data file. I assume that your function is monotonic increasing in x and y.
Two solutions come to my mind:
via simple linear interpolation
via curve fitting
Let's create some test data. For this, let's assume your function is known (as expression) and something like this (check help norm): F(x) = a*norm(b*x + c)
Let's take a = 1; b = 0.8; c = -4. In the example below, sampling will be only 8, just for illustration purpose.
You can easily set samples 200 and you will get the same results as for the curve fitting method below. From gnuplot 5.0 on, you could write the data into a datablock instead of a file on disk.
Data: SO22276755.dat
0 3.16712e-05
1.42857 0.002137
2.85714 0.043238
4.28571 0.283855
5.71429 0.716145
7.14286 0.956762
8.57143 0.997863
10 0.999968
Script 1: (basically works for gnuplot 4.6.0, March 2012)
### interpolate x-values
reset
FILE = "SO22276755.dat"
yis = '0.10 0.90'
yi(n) = real(word(yis,n))
xis = ''
xi(n) = real(word(xis,n))
Interpolate(yi) = (x1-x0)/(y1-y0)*(yi-y0) + x0
getXis(xis) = xis.(n=words(xis), n<words(yis) ? yi=real(word(yis,n+1)) : 0, \
y0<=yi && y1>=yi ? sprintf(" %g",Interpolate(yi)) : '')
set key left top noautotitle
set grid x,y
plot x1=y1=NaN FILE u (x0=x1,x1=$1):(y0=y1,y1=$2,xis=getXis(xis),y1) \
w l lc rgb "blue" ti "data", \
'+' u (xi=xi(int($0+1))):(yi=yi(int($0+1))):\
(sprintf("(%.4g|%.4g)",xi,yi)) every ::0::1 \
w labels point pt 7 lc rgb "red" right offset -1,0 ti "interpolated"
### end of script
Result:
Script 2: (basically works for gnuplot>=4.6.0, March 2012)
With this approach you are fitting your known function F(x) to constant lines, i.e. your desired values 0.1 and 0.9. For this, a file will be created (could be a datablock for gnuplot>=5.0) and it will basically look like this SO22276755.fit:
0 0.1
1 0.1
0 0.9
1 0.9
### interpolate x-values
reset
F(x) = a*norm(b*x+c) # function
a = 1
b = 0.8
c = -4
yis = '0.10 0.90'
yi(n) = real(word(yis,n))
xis = ''
xi(n) = real(word(xis,n))
set key left top noautotitle
set grid x,y
# create fit levels file
LEVELS = "SO22276755.fit"
set table LEVELS
set samples 2
plot for [i=1:words(yis)] '+' u (yi(i))
unset table
xmin = 0
xmax = 10
set xrange[xmin:xmax]
set samples 100
xis = ''
do for [i=1:words(yis)] {
xi = (xmin+xmax)*0.5 # set start value
fit F(xi) LEVELS u 1:2 index i-1 via xi
xis = xis.sprintf(" %g",xi)
}
plot F(x) w l lc rgb "web-green" ti "F(x)", \
'+' u (xi=xi(int($0+1))):(yi=yi(int($0+1))):(sprintf("(%.4g|%.4g)",xi,yi)) \
every ::0::1 w labels point pt 7 lc rgb "red" righ offset -1,0 ti "fitted"
### end of script
Result: