[R-sig-ME] Problems-running-glmmadmb

[C. AMAL D. GLELE]

Hi, dear all.
when running the model
"mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,family="nbinom",data=mydata)"
I'm getting the successives following error messages:
step1:
error message: cannot change the working directory
then, I've set save.dir to "tmp
step2:
I run again mymodel with the argument save.dir set to "tmp", I get the
error message
"Couldn't find STD file
...... maxfn 500 maxph 5 noinit had statut1
then, I navigate to admbControl page and rewrite mymodel as
mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,family="nbinom",data=mydata,
admb.opts=admbControl(impSamp=0,maxfn=500,imaxfn=500,maxph=500,noinit=FALSE,shess=FALSE),data=transmpics_ext,save.dir="tmp")
after this, I still getting STD file not found message error like
"
Error in glmmadmb(response~var1+var2+var3,random=~1| :
The function maximizer failed (couldn't find STD file) Troubleshooting
steps include (1) run with 'save.dir' set and inspect output files; (2)
change run parameters:

see '?admbControl'
In addition: Warning message:
running command 'C:\Windows\system32\cmd.exe /c
"C:/Users/Coliasso/Documents/R/win-library/3.4/glmmADMB/bin/windows64/glmmadmb.exe"
-maxfn 500 -maxph 500' had status 1
"
Additional informations
1) I'm using R version 3.4.3
2) I've installed glmmADMB package from a Package archive File on PC
In advance, many thanks for your helps.
Kind regards,

[[alternative HTML version deleted]]

[Ben Bolker]

It's hard to know without a reproducible example: the most likely
situation is that your data are a little more complex than your model
can handle, and that the optimizer is failing (or, more mildly, it's
finding a solution but the variance-covariance matrix is not positive
definite, meaning it can't reliably compute standard errors for the
parameters). Your two choices:

(1) provide a lot more detail about your problem and see if you can
find someone with the time and energy to reproduce the problem and see
what's going wrong
(2) try using the glmmTMB package instead; it's faster, more stable,
and more or less does all the things that glmmADMB does. For the model
you have written above, glmer.nb from the lme4 package should also
work ...

Post by C. AMAL D. GLELE
Hi, dear all.
when running the model
"mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,family="nbinom",data=mydata)"
error message: cannot change the working directory
then, I've set save.dir to "tmp
I run again mymodel with the argument save.dir set to "tmp", I get the
error message
"Couldn't find STD file
...... maxfn 500 maxph 5 noinit had statut1
then, I navigate to admbControl page and rewrite mymodel as
mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,family="nbinom",data=mydata,
admb.opts=admbControl(impSamp=0,maxfn=500,imaxfn=500,maxph=500,noinit=FALSE,shess=FALSE),data=transmpics_ext,save.dir="tmp")
after this, I still getting STD file not found message error like
"
The function maximizer failed (couldn't find STD file) Troubleshooting
steps include (1) run with 'save.dir' set and inspect output files; (2)
see '?admbControl'
running command 'C:\Windows\system32\cmd.exe /c
"C:/Users/Coliasso/Documents/R/win-library/3.4/glmmADMB/bin/windows64/glmmadmb.exe"
-maxfn 500 -maxph 500' had status 1
"
Additional informations
1) I'm using R version 3.4.3
2) I've installed glmmADMB package from a Package archive File on PC
In advance, many thanks for your helps.
Kind regards,
[[alternative HTML version deleted]]
_______________________________________________
https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models

[Amal Dahounto]

Dear Ben,
many thanks for your reply.
Kind regards,

Post by Ben Bolker
It's hard to know without a reproducible example: the most likely
situation is that your data are a little more complex than your model
can handle, and that the optimizer is failing (or, more mildly, it's
finding a solution but the variance-covariance matrix is not positive
definite, meaning it can't reliably compute standard errors for the
(1) provide a lot more detail about your problem and see if you can
find someone with the time and energy to reproduce the problem and see
what's going wrong
(2) try using the glmmTMB package instead; it's faster, more stable,
and more or less does all the things that glmmADMB does. For the model
you have written above, glmer.nb from the lme4 package should also
work ...

Post by C. AMAL D. GLELE
Hi, dear all.
when running the model
"mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,

family="nbinom",data=mydata)"

Post by C. AMAL D. GLELE
error message: cannot change the working directory
then, I've set save.dir to "tmp
I run again mymodel with the argument save.dir set to "tmp", I get the
error message
"Couldn't find STD file
...... maxfn 500 maxph 5 noinit had statut1
then, I navigate to admbControl page and rewrite mymodel as
mymodel<-glmmadmb(response~var1+var2+var3,random=~1|var3,

family="nbinom",data=mydata,

Post by C. AMAL D. GLELE
admb.opts=admbControl(impSamp=0,maxfn=500,imaxfn=500,maxph=

500,noinit=FALSE,shess=FALSE),data=transmpics_ext,save.dir="tmp")

Post by C. AMAL D. GLELE
after this, I still getting STD file not found message error like
"
The function maximizer failed (couldn't find STD file) Troubleshooting
steps include (1) run with 'save.dir' set and inspect output files; (2)
see '?admbControl'
running command 'C:\Windows\system32\cmd.exe /c
"C:/Users/Coliasso/Documents/R/win-library/3.4/glmmADMB/

bin/windows64/glmmadmb.exe"

Post by C. AMAL D. GLELE
-maxfn 500 -maxph 500' had status 1
"
Additional informations
1) I'm using R version 3.4.3
2) I've installed glmmADMB package from a Package archive File on PC
In advance, many thanks for your helps.
Kind regards,
[[alternative HTML version deleted]]
_______________________________________________
https://stat.ethz.ch/mailman/listinfo/r-sig-mixed-models

--
Amal DAHOUNTO GLELE C.


*Statistician, Data ManagerElectronicDataCapture(EDC) Systems Manager*Institut
de Recherche pour le Développement (IRD)
MIVEGEC (UMR IRD 224 - CNRS 5290)
IRD-CREC (Cotonou, BENIN)
IRD-IRSS (Bobo, BURKINA FASO)

*Tél:[phone]*

*Skype: coliasso*

[[alternative HTML version deleted]]