[AUTO_command_aliases]
ls		=commandLs
cd		=commandCd

shell		=commandShell
cat		=commandCat
wait		=commandWait

copyDemo	=commandCopyDemo
gui		=commandCreateGUI

branchPoint	=commandQueryBranchPoint
eigenvalue	=commandQueryEigenvalue
floquet		=commandQueryFloquet
help		=commandInteractiveHelp
hopf		=commandQueryHopf
iterations	=commandQueryIterations
limitpoint	=commandQueryLimitpoint
note		=commandQueryNote
secondaryPeriod	=commandQuerySecondaryPeriod
stepsize	=commandQueryStepsize
changeConstant	=commandRunnerConfigFort2
printConstant	=commandRunnerPrintFort2
append		=commandAppend
diagramAndSolutionGet	=commandParseDiagramAndSolutionFile
clean		=commandClean
constantsGet	=commandParseConstantsFile	
copy		=commandCopyDataFiles
delete		=commandDeleteDataFiles
deleteFort	=commandDeleteFortFiles
diagramGet	=commandParseDiagramFile
double		=commandDouble
demo		=commandCopyAndLoadDemo
load		=commandRunnerLoadName
move		=commandMoveFiles
plot		=commandPlotter
plot3		=commandPlotter3D
run		=commandRun
save		=commandCopyFortFiles
solutionGet	=commandParseSolutionFile
triple		=commandTriple
userData	=commandUserData

br		=commandQueryBranchPoint
eg		=commandQueryEigenvalue
fl		=commandQueryFloquet
hp		=commandQueryHopf
it		=commandQueryIterations
lm		=commandQueryLimitpoint
nt		=commandQueryNote
sc		=commandQuerySecondaryPeriod
st		=commandQueryStepsize
ch		=commandRunnerConfigFort2
pr		=commandRunnerPrintFort2
ap		=commandAppend
bt		=commandParseDiagramAndSolutionFile
cl		=commandClean
cn		=commandParseConstantsFile
cp		=commandCopyDataFiles
dl		=commandDeleteDataFiles
dg		=commandParseDiagramFile
db		=commandDouble
dm		=commandCopyAndLoadDemo
ld		=commandRunnerLoadName
mv		=commandMoveFiles
pl		=commandPlotter
#FIXME:  This doesn't match the rule we use for all other commands
p3	        =commandPlotter3D
rn		=commandRun
sv		=commandCopyFortFiles
sl		=commandParseSolutionFile
tr		=commandTriple
us		=commandUserData
        
man		=commandInteractiveHelp

bp		=commandQueryBranchPoint
ev		=commandQueryEigenvalue
hb		=commandQueryHopf
lp		=commandQueryHopf
cc		=commandRunnerConfigFort2
pc		=commandRunnerPrintFort2
p2		=commandPlotter
r		=commandRun
sp		=commandQuerySecondaryPeriod
ss		=commandQueryStepsize
df		=commandDeleteFortFiles

[AUTO_plotter]
#bifurcation_symbol     = "square"
#limit_point_symbol     = None
#hopf_symbol            = "fillsquare"
#period_doubling_symbol = "circle"
#torus_symbol           = "fillcircle"
#user_point_symbol      = None
#error_symbol           = "crosssquare"

type = "solution"
solution_x = [0]
solution_y = [1]
solution_column_defaults=[[0,3,6,9],[1,4,7,10],[2,5,8,11],['t','t','t','t']]

[AUTO_plotter3D]

mark_t = 0.0
mark_t_radius = 0.05
auto_scale = 0
solution_x = [0]
solution_y = [1]
solution_z = [2]
solution_color = [3]
bifurcation_x=[0]
bifurcation_y=[2]
bifurcation_z=[3]
type = "bifurcation"
solution_column_defaults=[[0,3,6,9],[1,4,7,10],[2,5,8,11],['t','t','t','t']]




