[Rsiena-help] R: [rsiena-help][5510] useCluster Option stopped working

[Ruth Ripley]

Dear Miguel,

I do not know what the problem is, but I would suggest trying to run 
RSiena without any other packages and in a clean workspace i.e. start R 
in a directory with no stored .RData, load only RSiena and run the 
script example.

If the problem only happens with sub processes, is it possible that the 
subprocesses are using a different version of R or RSiena? Or getting a 
different workspace initially? Will all these packages be loaded in each 
sub process?

There has been a major change in the parallel processing in RSiena in R 
2.14.0, although the code is designed to still run under R-2.13.n. The 
new version should be more efficient on Linux than the old one. Thus it 
might be a good idea to upgrade the R if you can.

Regards,

Ruth

On 14/02/2012 18:47, Miguel Godinho de Matos wrote:
> Thank you for the fast reply. Here it goes:
>
>
> R version 2.13.0 (2011-04-13)
> Platform: x86_64-redhat-linux-gnu (64-bit)
>
> locale:
>
> LC_CTYPE=en_US.UTF-8
> LC_NUMERIC=C
> LC_TIME=en_US.UTF-8
> LC_COLLATE=en_US.UTF-8
> LC_MONETARY=C
> LC_MESSAGES=en_US.UTF-8
> LC_PAPER=en_US.UTF-8
> LC_NAME=C
> LC_ADDRESS=C
> LC_TELEPHONE=C
> LC_MEASUREMENT=en_US.UTF-8
> LC_IDENTIFICATION=C
>
> attached base packages:
> [1] grid      splines   stats     graphics  grDevices utils
> datasets  methods   base
>
> other attached packages:
> apsrtable_0.8-6
> rlecuyer_0.3-3
> RSiena_1.0.12.201
> xtable_1.7-0
> pglm_0.1-0
> statmod_1.4.14
> maxLik_1.1-0
> miscTools_0.6-12
> plm_1.2-8
> [nlme_3.1-103
> bdsmatrix_1.3
> Zelig_3.5.3
> erer_1.0
> ggplot2_0.8.9
> proto_0.3-9.2
> reshape_0.8.4
> plyr_1.7.1
> tseries_0.10-27
> quadprog_1.5-4
> systemfit_1.1-10
> multicore_0.1-7
> boot_1.3-2
> AER_1.1-9
> strucchange_1.4-6
> sandwich_2.2-9
> lmtest_0.9-29
> zoo_1.7-7
> Formula_1.1-0
> car_2.0-11
> nnet_7.3-1
> abind_1.4-0
> doBy_4.5.1
> MASS_7.3-14
> snow_0.3-8
> lme4_0.999375-42
> Matrix_1.0-3
> lattice_0.19-33
> multcomp_1.2-9
> mvtnorm_0.9-9992
> R2HTML_2.2
> survival_2.36-12
> RODBC_1.3-4
> igraph_0.5.5-4
> mallinfo_0.1-0
>
> loaded via a namespace (and not attached):
> stats4_2.13.0 tools_2.13.0
>
> Thank you once again,
> Miguel
>
>> Dear Miguel,
>>
>> Please can you do the R command sessionInfo() and send us the result.
>>
>> Regards,
>>
>> Ruth
>
> On 14/02/2012 16:44, Forum wrote:
>>
>> Read and respond to this message at:
>> https://r-forge.r-project.org/forum/message.php?msg_id=5510
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>>
>> By: Miguel Godinho de Matos
>>
>> Dear sirs, after the latest upgrade, the useCluster option of siena07 method
>> stopped working. Now every time I try to use multi processors i get the following
>> error:
>>
>>
>> ans<- siena07( myCoEvModel, data = myCoEvolutionData, effects = myCoEvolutionEff,
>> batch=T, verbose=T, nbrNodes=8, useCluster=T)
>>
>>
>> Error in checkForRemoteErrors(lapply(cl, recvResult)) :
>>
>>     8 nodes produced errors; first error: VECTOR_ELT() can only be applied to
>> a 'list', not a 'externalptr'
>>
>>
>> This example was using the Rscript: RscriptSienaBehaviour.R provided on siena
>> website wihtout any change other than the call to siena07.
>>
>>
>> I am using R 2.13
>>
>>
>>
>> Thanks,
>>
>> Miguel
>>
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