My package, categoryCompare, is failing in Bioc devel. The reason appears to be exports in previous versions of RCy3 no longer being exported, namely the "CytoscapeWindowClass".
I had some methods where behavior was defined based on being passed an object of "CytoscapeWindowClass" (see https://github.com/rmflight/categoryCompare/blob/7305185a65f80b108d50971b350c165a4e0cbe47/R/outCytoscape.r#L37 for an example). It appears this class no longer exists in the devel version of RCy3, and what is noted as a replacement for the deprecated function that created it (example being createNetworkFromGraph), has no specific class outside of returning a "function". I could use some advice on how I should modify my method signature to handle this for the next version of RCy3, or if the object returned will indeed have a "class" attached to them that can be checked via method signatures. Thanks, -Robert Robert M Flight, PhD Bioinformatics Research Associate Puller of Rabbits from Hats Research Parasite Resource Center for Stable Isotope Resolved Metabolomics Manager, Systems Biology and Omics Integration Journal Club Markey Cancer Center CC434 Roach Building University of Kentucky Lexington, KY Twitter: @rmflight Web: rmflight.github.io ORCID: http://orcid.org/0000-0001-8141-7788 EM rfligh...@gmail.com PH 502-509-1827 <(502)%20509-1827> To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. - Ronald Fisher [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel