reset
file = 'Pairs_Rcollec_Lpump_temp31p45C'
shift=-1.1275 #the value of the zero position obtained from the fit in mathematica
#set terminal postscript color enhanced "Helvetica" 18
#set output file . '_fit2.eps'
set border 3
set xtics 0.5
set ytics 500
set xtics nomirror
set ytics nomirror
set xrange [-2:2]
set yrange [0:500]
set ylabel "Coincidences (/s)"
set xlabel "Position of mirror (mm)"
unset key
set style line 4  ps 0.25 lt 1 lc 1 pt 7 lw 0.7#
set bars 0.25
#plot file.'.up2' u ($1-shift):($2) w l lc 11 lw 3, file.'.down2' u ($1-shift):($2) w l lc 11 lw 3, file u ($1-shift):($3):(sqrt($3)) ls 4 #w yerrorbars 

set terminal svg fname "Arial" fsize 20.8 size 550 450
set output file . '_Pairs.svg'
#becareful of which column is what. if there are only 2 columns then the 3rd is teh pairs else if there are 4 then the 4th is the pairs
plot file u ($1-shift):($3):(sqrt($3)) ls 4 , file.'.up' u ($1-shift):($2) w l lc 5 lw 4, file.'.down' u ($1-shift):($2) w l lc 5 lw 4
#set yrange [3000:4500]
#unset ytics
#set ylabel "Singles (/s)"

#set output file . '_Singles.svg'
#plot file.'.up2' u ($1-shift):($2) w l lc 11 lw 3, file.'.down2' u ($1-shift):($2) w l lc 11 lw 3, file u ($1-shift):($3):(sqrt($3)) ls 4 #w yerrorbars 

set terminal windows
plot file.'.up2' u ($1-shift):($2) w l lc 11 lw 3, file.'.down2' u ($1-shift):($2) w l lc 11 lw 3, file u ($1-shift):($3):(sqrt($3)) ls 4 #w yerrorbars