Re: [Bioc-devel] A question about version number

Yes in your devel branch please use 99 as the y value (of version number pkg_x.y.z) for an automatic x bump on the next release. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 _

Re: [Bioc-devel] BioC packages NuPoP and nuCpos

We do not manually replace Bioconductor packages for maintainers. Bioconductor packages are maintained in git and you will have to push up the changes. Please see the following documentation: http://bioconductor.org/developers/how-to/git/ Feel free to comment back here with any further quest

[Bioc-devel] use -Wa, -mbig-obj -O3 when building package under Windows

Dear All, For a package we develop, OncoSimulR (https://bioconductor.org/packages/release/bioc/html/OncoSimulR.html), we have added new functionality (https://github.com/rdiaz02/OncoSimul/tree/freq-dep-fitness) that uses the ExprTk library[1] for parsing and evaluation of mathematical expression

Re: [Bioc-devel] use -Wa, -mbig-obj -O3 when building package under Windows

[ This is a crazy bug where you have to increase optimization. ] I some to add here. I am involved in at least two packages which requires overriding the optimization switch to downgrade optimization. You have an additional problem where you need to add additional flags. The solution in affxparse

Re: [Bioc-devel] loading database package changes random number

Hi Steffi, This solution looks fine to me. One thing the man page for my_func should make really clear is that calling my_func(..., seed=123) is not necessarily equivalent to doing set.seed(123) my_func(...) but only the former is guaranteed to be deterministic no matter what. I

Re: [Bioc-devel] use -Wa, -mbig-obj -O3 when building package under Windows

Dear Kasper, Thank you very much. Using what you do in affxparser I can have the -O settings at will. (It turns out that did not solve the "too many sections" problem though, as now the linker never exists; but that is a different story ---I am currently trying to see if I can get it to work with

[Bioc-devel] Updating email for BiocCredentials

Hi, I’m attempting to activate my account to gain access to the git repo in order to update my package (see forwarded message). However, I believe the email associated with the package was my old address when I was a graduate student (juju...@cs.ubc.ca), which I’ve lo