Hi all, An update on the release process... Code Freeze ----------- Today is the start of the code freeze for the Bioc 1.8 release. * No API changes or feature additions. * It is OK to fix bugs, improve vignettes, and add/edit documentation. R is beta testing ----------------- If you are updating your R sources from svn, you need to switch to the 2.3 release branch. Given a checkout of the svn trunk, you can do the following: cd ~/src/R-2.3 svn switch https://svn.r-project.org/R/branches/R-2-3-patches NEW Deadline for passing R CMD check without errors --------------------------------------------------- The check results are here: http://www.bioconductor.org/checkResults/1.8/html/report.html A number of packages are failing to build or to pass check. If you see red for one of your packages, please take some time to try to address the issue. We would like to give package developers a few more days to fix up their packages so that we can put them in the release. The new deadline is 17 April. Packages with errors on the 17th will be dropped from the release. The 17th is still the deadline for removing warnings. Notes on common errors and warnings ----------------------------------- Errors ~~~~~~ Biobase has new validation code for exprSets that ensures that the column names of the expression matrix align with the row names of the phenoData data frame. Many errors I see in the check results are related to this. The solution is to update your example data and make sure it is a valid exprSet. Warnings ~~~~~~~~ Most of the warnings are documentation related. These are _easy_ to fix, but we need your help. Please take a few minutes to review the warnings for your package and update the documentation. Finally, if you have questions or need help figuring out what is wrong, please post to bioc-devel and we will do our best to respond in a timely fashion. Best Wishes, + seth
[Bioc-devel] Bioc 1.8 release status: code freeze
1 message · Seth Falcon