Hello all -- I have successfully used the VennDiagram Package several times to make quite attractive (at least in my opinion) VennDiagrams. Now, I am trying to make new VennDiagrams with new data (on an updated version of R) and am having an issue. I can't find the output file (i.e., the "VennDiagram"). In the past, the file has been written to the working directory, but they are not there. I have searched everywhere I can think to look (home directory, the entire computer) and no luck. I have attached the code from the example from the paper, as this code also produces no find-able file. Has anyone been able to successfully produce VennDiagrams (that they can find) using VennDiagram in R 2.15.2? Also, I am implementing this in RStudio, but have also had the same problem from the old R console. Any advice? Thanks, Findley Finseth PhD Candidate Cornell University > setwd("~/") > library(VennDiagram); Loading required package: grid > > # Figure 1A > venn.diagram( + x = list( + Label = 1:100 + ), + filename = "1A-single_Venn.tiff", + col = "black", + lwd = 9, + fontface = "bold", + fill = "grey", + alpha = 0.75, + cex = 4, + cat.cex = 3, + cat.fontface = "bold", + ); [1] 1 > > sessionInfo() R version 2.15.2 (2012-10-26) Platform: x86_64-apple-darwin9.8.0/x86_64 (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] grid stats graphics grDevices utils datasets methods base other attached packages: [1] VennDiagram_1.5.1 loaded via a namespace (and not attached): [1] colorspace_1.2-1 dichromat_2.0-0 digest_0.6.3 ggplot2_0.9.3.1 [5] gtable_0.1.2 labeling_0.1 MASS_7.3-23 munsell_0.4 [9] plyr_1.8 proto_0.3-10 RColorBrewer_1.0-5 reshape2_1.2.2 [13] scales_0.2.3 stringr_0.6.2 tools_2.15.2

On Tue, Mar 26, 2013 at 1:46 PM, Findley Finseth <findleyransler at="" gmail.com=""> wrote: > Hello all -- > > I have successfully used the VennDiagram Package several times to make quite attractive (at least in my opinion) VennDiagrams. Now, I am trying to make new VennDiagrams with new data (on an updated version of R) and am having an issue. I can't find the output file (i.e., the "VennDiagram"). In the past, the file has been written to the working directory, but they are not there. I have searched everywhere I can think to look (home directory, the entire computer) and no luck. > > I have attached the code from the example from the paper, as this code also produces no find-able file. Has anyone been able to successfully produce VennDiagrams (that they can find) using VennDiagram in R 2.15.2? Also, I am implementing this in RStudio, but have also had the same problem from the old R console. Any advice? > VennDiagram is not a Bioconductor package, so maybe ask the maintainer, or email the R-help mailing list. Dan > Thanks, > > Findley Finseth > > PhD Candidate > Cornell University > > > > >> setwd("~/") >> library(VennDiagram); > Loading required package: grid >> >> # Figure 1A >> venn.diagram( > + x = list( > + Label = 1:100 > + ), > + filename = "1A-single_Venn.tiff", > + col = "black", > + lwd = 9, > + fontface = "bold", > + fill = "grey", > + alpha = 0.75, > + cex = 4, > + cat.cex = 3, > + cat.fontface = "bold", > + ); > [1] 1 >> >> sessionInfo() > R version 2.15.2 (2012-10-26) > Platform: x86_64-apple-darwin9.8.0/x86_64 (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] grid stats graphics grDevices utils datasets methods base > > other attached packages: > [1] VennDiagram_1.5.1 > > loaded via a namespace (and not attached): > [1] colorspace_1.2-1 dichromat_2.0-0 digest_0.6.3 ggplot2_0.9.3.1 > [5] gtable_0.1.2 labeling_0.1 MASS_7.3-23 munsell_0.4 > [9] plyr_1.8 proto_0.3-10 RColorBrewer_1.0-5 reshape2_1.2.2 > [13] scales_0.2.3 stringr_0.6.2 tools_2.15.2 > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor

Hi, Perhaps using absolute path for the `filename` argument (eg. `/Users/YOU/Desktop/single_Venn.tiff`) instead of relying on a `setwd()` call ("maybe the tilde-expansion thing isn't working in your script?). Anyway, using an absolute path for the file will avoid you having to guess where to look -- it'll either be where you (unambiguously) told it to be, or it won't. -steve On Tue, Mar 26, 2013 at 4:46 PM, Findley Finseth <findleyransler at="" gmail.com=""> wrote: > Hello all -- > > I have successfully used the VennDiagram Package several times to make quite attractive (at least in my opinion) VennDiagrams. Now, I am trying to make new VennDiagrams with new data (on an updated version of R) and am having an issue. I can't find the output file (i.e., the "VennDiagram"). In the past, the file has been written to the working directory, but they are not there. I have searched everywhere I can think to look (home directory, the entire computer) and no luck. > > I have attached the code from the example from the paper, as this code also produces no find-able file. Has anyone been able to successfully produce VennDiagrams (that they can find) using VennDiagram in R 2.15.2? Also, I am implementing this in RStudio, but have also had the same problem from the old R console. Any advice? > > Thanks, > > Findley Finseth > > PhD Candidate > Cornell University > > > > >> setwd("~/") >> library(VennDiagram); > Loading required package: grid >> >> # Figure 1A >> venn.diagram( > + x = list( > + Label = 1:100 > + ), > + filename = "1A-single_Venn.tiff", > + col = "black", > + lwd = 9, > + fontface = "bold", > + fill = "grey", > + alpha = 0.75, > + cex = 4, > + cat.cex = 3, > + cat.fontface = "bold", > + ); > [1] 1 >> >> sessionInfo() > R version 2.15.2 (2012-10-26) > Platform: x86_64-apple-darwin9.8.0/x86_64 (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] grid stats graphics grDevices utils datasets methods base > > other attached packages: > [1] VennDiagram_1.5.1 > > loaded via a namespace (and not attached): > [1] colorspace_1.2-1 dichromat_2.0-0 digest_0.6.3 ggplot2_0.9.3.1 > [5] gtable_0.1.2 labeling_0.1 MASS_7.3-23 munsell_0.4 > [9] plyr_1.8 proto_0.3-10 RColorBrewer_1.0-5 reshape2_1.2.2 > [13] scales_0.2.3 stringr_0.6.2 tools_2.15.2 > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Steve Lianoglou Defender of The Thesis | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact