Hi, Here is the package. (https://tracker.bioconductor.org/issue1204 or https://github.com/zhilongjia/cogena; ). When I biocCheck it, there is a note.
Note: the specification for S3 class “dist” in package ‘cogena’ seems equivalent to one from package ‘graph’: not turning on duplicate class definitions for this class. In the source code, there are two R files are related with this issue, cogena_class.R and <https://github.com/zhilongjia/cogena/blob/master/R/cogena_class.R> dist_class.R <https://github.com/zhilongjia/cogena/blob/master/R/dist_class.R> in the R dir. Here there is a dist slot in cogena class. In the dist_class.R <https://github.com/zhilongjia/cogena/blob/master/R/dist_class.R>, I use setOldClass, but it seems it is not recommended by Bioconductor. How to repair this issue? Thank you. Regards, Zhilong <https://github.com/zhilongjia/cogena/blob/master/R/cogena_class.R> [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel