Max Manfrin
2007-Mar-27 16:40 UTC
[R] Error when calling residual.plots() on an ANOVA object
Dear *,
I have to perform an ANOVA analysis to study the effects on the
performance of some algorithmic components in the design of my
algorithm.
I have done a full factorial design for the following 5 factors (my
response variable is "best"):
$ model :'data.frame': 3360 obs. of 6 variables:
..$ best : num [1:3360] 0.108 0.573 0.625 1.057 0.451 ...
..$ comm.strat: Factor w/ 4 levels
"FC","HC","R",..: 1 1 1 1 1 1 1
1 1 1 ...
..$ migr.freq : Factor w/ 2 levels "d","s": 1 1 1 1 1 1 1
1 1 1 ...
..$ max.cpu : Ord.factor w/ 2 levels "4"<"8": 1 1 1
1 1 1 1 1 1
1 ...
..$ instance : Factor w/ 7 levels "kroA100","eil101",..:
1 1 1 1
1 1 1 1 1 1 ...
..$ max.iter : Ord.factor w/ 3 levels
"1000"<"3162"<..: 1 1 1 1 1
1 1 1 1 1 ...
I would like to plot the residuals for my 5 factors, but when I call
the function residual.plots(), only the first 3 plots (comm.strat,
migr.freq, max.cpu) are done and then I obtain an error:
> anova.ax3<-aov(best~(comm.strat+migr.freq+max.cpu+instance
+max.iter)^2,data=BestDF)
> summary(anova.ax3)
Df Sum Sq Mean Sq F value Pr(>F)
comm.strat 3 5.3 1.8 2.5530 0.0538 .
migr.freq 1 246.9 246.9 358.8027 < 2.2e-16 ***
max.cpu 1 201.6 201.6 292.8771 < 2.2e-16 ***
instance 6 15140.0 2523.3 3666.4180 < 2.2e-16 ***
max.iter 2 3872.2 1936.1 2813.1683 < 2.2e-16 ***
comm.strat:migr.freq 3 3.7 1.2 1.7763 0.1495
comm.strat:max.cpu 3 1.3 0.4 0.6175 0.6036
comm.strat:instance 18 48.8 2.7 3.9369 4.050e-08 ***
comm.strat:max.iter 6 2.7 0.5 0.6568 0.6847
migr.freq:max.cpu 1 2.1 2.1 3.0109 0.0828 .
migr.freq:instance 6 379.5 63.2 91.9026 < 2.2e-16 ***
migr.freq:max.iter 2 324.4 162.2 235.7037 < 2.2e-16 ***
max.cpu:instance 6 27.2 4.5 6.5894 6.182e-07 ***
max.cpu:max.iter 2 15.6 7.8 11.3535 1.220e-05 ***
instance:max.iter 12 2105.8 175.5 254.9806 < 2.2e-16 ***
Residuals 3287 2262.2 0.7
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05
'.' 0.1 ' ' 1
>
> residual.plots(anova.ax3,ask=FALSE)
Error in Summary.factor(..., na.rm = na.rm) :
min not meaningful for factors
In addition: Warning message:
the condition has length > 1 and only the first element will be used
in: if (class(horiz) != "factor") {
>
I think that there is some issues when processing the "instance"
factor (the levels are names of instances).
Could somebody give me a hand to understand what is going on?
This is the script I use to make the analysis:
-----= BEGIN R SCRIPT =-----
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_4CPU_1000.best"
instance1_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_8CPU_1000.best"
instance1_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_4CPU_1000.best"
instance2_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_8CPU_1000.best"
instance2_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_4CPU_1000.best"
instance3_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_8CPU_1000.best"
instance3_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_4CPU_1000.best"
instance4_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_8CPU_1000.best"
instance4_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_4CPU_1000.best"
instance5_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_8CPU_1000.best"
instance5_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_4CPU_1000.best"
instance6_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_8CPU_1000.best"
instance6_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_4CPU_1000.best"
instance7_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_8CPU_1000.best"
instance7_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_4CPU_3162.best"
instance8_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_8CPU_3162.best"
instance8_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_4CPU_3162.best"
instance9_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_8CPU_3162.best"
instance9_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_4CPU_3162.best"
instance10_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_8CPU_3162.best"
instance10_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_4CPU_3162.best"
instance11_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_8CPU_3162.best"
instance11_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_4CPU_3162.best"
instance12_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_8CPU_3162.best"
instance12_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_4CPU_3162.best"
instance13_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_8CPU_3162.best"
instance13_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_4CPU_3162.best"
instance14_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_8CPU_3162.best"
instance14_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_4CPU_10000.best"
instance15_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA100_8CPU_10000.best"
instance15_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_4CPU_10000.best"
instance16_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
eil101_8CPU_10000.best"
instance16_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_4CPU_10000.best"
instance17_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
kroA200_8CPU_10000.best"
instance17_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_4CPU_10000.best"
instance18_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
lin318_8CPU_10000.best"
instance18_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_4CPU_10000.best"
instance19_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
pcb442_8CPU_10000.best"
instance19_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_4CPU_10000.best"
instance20_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
att532_8CPU_10000.best"
instance20_8<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_4CPU_10000.best"
instance21_4<-read.table(datafilename,header=TRUE)
datafilename="http://landau.ulb.ac.be/~mmanfrin/ANOVA/noLS/
rat783_8CPU_10000.best"
instance21_8<-read.table(datafilename,header=TRUE)
bestalgo<-rbind
(instance1_4,instance1_8,instance2_4,instance2_8,instance3_4,instance3_8
,instance4_4,instance4_8,instance5_4,instance5_8,instance6_4,instance6_8
,instance7_4,instance7_8,instance8_4,instance8_8,instance9_4,instance9_8
,instance10_4,instance10_8,instance11_4,instance11_8,instance12_4,instan
ce12_8,instance13_4,instance13_8,instance14_4,instance14_8,instance15_4,
instance15_8,instance16_4,instance16_8,instance17_4,instance17_8,instanc
e18_4,instance18_8,instance19_4,instance19_8,instance20_4,instance20_8,i
nstance21_4,instance21_8)
BestDF<-bestalgo[bestalgo$algo.id!="SEQ0" &
bestalgo$algo.id!="PIR0",]
BestDF$comm.strat<-factor(BestDF$comm.strat,ordered=FALSE)
BestDF$cpu.id<-factor(BestDF$cpu.id,ordered=FALSE)
BestDF$try<-factor(BestDF$try,ordered=FALSE)
BestDF$max.cpu<-factor(BestDF$max.cpu,ordered=TRUE)
BestDF$max.iter<-factor(BestDF$max.iter,ordered=TRUE)
BestDF$instance<-factor(BestDF$instance,ordered=FALSE)
BestDF$migr.freq<-factor(BestDF$migr.freq,ordered=FALSE)
anova.ax3<-aov(best~(comm.strat+migr.freq+max.cpu+instance+max.iter)
^2,data=BestDF)
summary(anova.ax3)
library(alr3)
residual.plots(anova.ax3,ask=FALSE)
-----= END R SCRIPT =-----
Thanks in advance for any help you could provide.
--------------------------------------------------------------------
Max MANFRIN Tel.: +32 (0)2 650 3168
IRIDIA - CoDE, CP 194/6 Fax.: +32 (0)2 650 2715
Universit? Libre de Bruxelles
Av. F. D. Roosevelt, 50
1050 Brussels Email: mmanfrin at ulb.ac.be
BELGIUM WWW: http://iridia.ulb.ac.be/~mmanfrin
gpg DSA: 0x7E67B4C4
gpg fingerprint: C2E9 1689 CADD 7CAE 2FAB A355 8FD9 9DD1 7E67 B4C4
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