Running spade 1.10 produces outputs that contain a folder of CSV tables, whereas 1.8 produced a folder of pdf files. The latter works with Cytoscape 2.8.x and the prior produces empty boxes. I prefer sticking with Cytoscape 2.8 as opposed to moving up to 3.x as the documentation seems much better so far, so is there a place where spade 1.8 is still available for download? -- output of sessionInfo(): R version 3.0.1 (2013-05-16) Platform: x86_64-apple-darwin10.8.0 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base -- Sent via the guest posting facility at bioconductor.org.

I don't know if the response will find its way back to you... but I filed an issue on your behalf at github. https://github.com/nolanlab/spade/issues/91 On Mar 19, 2014, at 5:38 PM, John Quinn [guest] wrote: > > Running spade 1.10 produces outputs that contain a folder of CSV tables, whereas 1.8 produced a folder of pdf files. The latter works with Cytoscape 2.8.x and the prior produces empty boxes. > > I prefer sticking with Cytoscape 2.8 as opposed to moving up to 3.x as the documentation seems much better so far, so is there a place where spade 1.8 is still available for download? > > -- output of sessionInfo(): > > R version 3.0.1 (2013-05-16) > Platform: x86_64-apple-darwin10.8.0 (64-bit) > > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > -- > Sent via the guest posting facility at bioconductor.org.