[BioC] problems getting new intact networks from ppiData

[Sara JC Gosline]

Please ignore this email, this issue was already resolved.

sorry,
sara
Sara JC Gosline wrote:
> Hello,
>
> I'm trying to use the ppiData package and am having trouble getting 
> newer datasets from intact. 
>
>  >library(ppiData)
>  >collectIntactPPIData("EBI-2007879")
> Error in b2pList[[i]][[j]] : subscript out of bounds
>
> My sessionInfo() is at the end of this email.
>
> It appears that this later dataset is not in the downloaded repository. 
> The man pages refer to this tableList.rda which is generated by 
> parseIntAct.R.  I found parsingIntAct.R but the output doesn't appear to 
> match tableList.rda. 
>
> Is there a simple way to use this package to access datasets that are 
> not in tableList.rda?
>
> thanks,
> sara
>
>
>  > sessionInfo()
> R version 2.7.0 (2008-04-22)
> x86_64-unknown-linux-gnu
>
> 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      stats     graphics  grDevices utils     datasets  methods
> [8] base
>
> other attached packages:
> [1] ppiData_0.1.13   Rgraphviz_1.18.0 graph_1.18.1
>
> loaded via a namespace (and not attached):
> [1] cluster_1.11.10 tools_2.7.0
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>