Version 0.9.8 ------------- Continuing a focus on stability and compatibility with other software: * Support for reading CRAM files with an optional user-provided local FASTA file for the reference genome sequence. (#555; thanks @johnegarza) * Call Rscript subprocess with safer flags for the R environment. Previously, `--vanilla` ignored R environments with the library path in a non-default location specified in the user's .Rprofile. Now, `--no-restore` and `--no-environ` ensure a clean environment but still respect the user's .Rprofile settings beyond that. (#491; thanks @pablo-gar) * Compatibility with the latest release of pandas. (#502, #523) This release also fixes some regressions reported since the release of CNVkit 0.9.7 (which introduced a number of new performance optimizations). * `scatter`: A bug when plotting a region of a chromosome. (#536, #457; thanks tskir) * `scatter`: An IndexError when plotting entire chromosomes, e.g. chr7. (#541, #461, #535; thanks @tskir) * `fix`: A bug that occurred after automatic bias corrections, introducing NaN-valued rows in placed of rejected bins, leading to a downstream crash in CBS segmentation. (#551, #436, #547; thanks @johnegarza)