Is it possible to return the older "lattice" style graphics under the recent releases of FlowCore? After installing R 3.0.2 and what I could of the FlowCore packages on a new computer, I see that the default graphic output resembles something from ggplot2. (I know lattice well and ggplot not at all.) Frustratingly, this undermines much of the code I had developed to extract and further process images from various workflows. I'm afraid I am at loss of what to do short of rolling back to an earlier versions. Many thanks! -- output of sessionInfo(): Broken session (new format): > sessionInfo() R version 3.0.2 (2013-09-25) Platform: x86_64-w64-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] flowViz_1.26.15 lattice_0.20-24 flowCore_1.28.20 [4] MASS_7.3-29 BiocInstaller_1.12.0 loaded via a namespace (and not attached): [1] Biobase_2.22.0 BiocGenerics_0.8.0 corpcor_1.6.6 [4] feature_1.2.10 graph_1.40.1 grid_3.0.2 [7] hexbin_1.26.3 IDPmisc_1.1.17 KernSmooth_2.23-10 [10] ks_1.8.13 latticeExtra_0.6-26 mvtnorm_0.9-9997 [13] parallel_3.0.2 pcaPP_1.9-49 RColorBrewer_1.0-5 [16] robustbase_0.9-10 rrcov_1.3-4 stats4_3.0.2 [19] tools_3.0.2 Good session (old format): R version 2.14.2 (2012-02-29) Platform: x86_64-pc-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] splines stats graphics grDevices utils datasets methods [8] base other attached packages: [1] flowViz_1.18.0 lattice_0.20-0 flowStats_1.12.0 [4] cluster_1.14.2 mvoutlier_1.9.4 robCompositions_1.5.0 [7] car_2.0-12 nnet_7.3-1 compositions_1.10-2 [10] energy_1.4-0 boot_1.3-4 tensorA_0.36 [13] rgl_0.92.798 fda_2.2.7 zoo_1.7-7 [16] flowCore_1.20.0 rrcov_1.3-01 pcaPP_1.9-45 [19] mvtnorm_0.9-9992 robustbase_0.8-1-1 Biobase_2.14.0 [22] MASS_7.3-17 loaded via a namespace (and not attached): [1] feature_1.2.8 graph_1.32.0 grid_2.14.2 [4] KernSmooth_2.23-7 ks_1.8.6 latticeExtra_0.6-19 [7] RColorBrewer_1.0-5 stats4_2.14.2 tools_2.14.2 -- Sent via the guest posting facility at bioconductor.org.

David, Here is how you can restore the default lattice theme: Firstly, pull the latest version of flowViz (1.26.16), then, change the flowViz graphical setting by 'flowViz.par.set(theme = trellis.par.get(), reset = TRUE)'. To remove 'grid lines`, pass 'axis = axis.default' to 'xyplot' or 'densityplot'. See the reproducible example from https://github.com/RGLab/flowViz/issues/23. Thanks, Mike Jiang On 01/24/2014 03:00 AM, bioconductor-request at r-project.org wrote: > Is it possible to return the older "lattice" style graphics under the recent releases of FlowCore? After installing R 3.0.2 and what I could of the FlowCore packages on a new computer, I see that the default graphic output resembles something from ggplot2. (I know lattice well and ggplot not at all.) Frustratingly, this undermines much of the code I had developed to extract and further process images from various workflows. I'm afraid I am at loss of what to do short of rolling back to an earlier versions. Many thanks!