Re: [Rd] That 'make check-all' problem with the survival package

2015-05-16 Thread Dirk Eddelbuettel
On 16 May 2015 at 12:11, Hin-Tak Leung wrote: | The quickest fix is to add cmprsk to the recommended list , and that's is an R-devel issue. Given that the set of recommended packages seems to change about once a decade (give or take a few years as measurement error on my side) I am not sure I

Re: [Rd] Installation using iconv from glibc

2015-05-16 Thread Smith, Virgil
Is glibc is actually compatible (and/or is gnu libiconv essentially the only path)? R is built daily on Fedora 21 Linux which uses glibc 2.20 and has been for at least a decade with that and earlier versions of glibc. No problems with installing using glibc have been reported in all

Re: [Rd] Why is the diag function so slow (for extraction)?

2015-05-16 Thread luke-tierney
Changing from c(x)[...] to x[...] without a pre-test does not seem to cause any issues on CRAN or BIOC so that is done now in R-devel and R-patched. Best, luke On Wed, 13 May 2015, Henrik Bengtsson wrote: As kindly pointed out to me (oh my decaying gray matter), is.object() is better suited

Re: [Rd] Alternative for wildcard gnu extension in Makevars

2015-05-16 Thread Henrik Bengtsson
On Fri, May 15, 2015 at 8:01 AM, Simon Urbanek simon.urba...@r-project.org wrote: On May 13, 2015, at 2:28 PM, Henrik Bengtsson henrik.bengts...@ucsf.edu wrote: While at it: 'Makevars' is an R invention (i.e. documentation of it is only available through the R docs), correct? /Henrik

Re: [Rd] That 'make check-all' problem with the survival package

2015-05-16 Thread Marc Schwartz
On May 16, 2015, at 6:11 AM, Hin-Tak Leung ht...@users.sourceforge.net wrote: -- On Sat, May 16, 2015 8:04 AM BST Uwe Ligges wrote: Not sure why this goes to R-devel. You just could have asked the maintainer. Terry Therneau is aware of it and promised

Re: [Rd] That 'make check-all' problem with the survival package

2015-05-16 Thread Hin-Tak Leung
-- On Sat, May 16, 2015 8:04 AM BST Uwe Ligges wrote: Not sure why this goes to R-devel. You just could have asked the maintainer. Terry Therneau is aware of it and promised he will fix it. The quickest fix is to add cmprsk to the recommended list , and that's is

Re: [Rd] Creating a vignette which depends on a non-distributable file

2015-05-16 Thread January Weiner
Dear Martin, thank you for the food for thought. My package does not depend on MSigDB (it implements something better than MSigDB), but being able to work with MSigDB (for comparative purposes) is important. Also, Bioconductor makes sense only if you really want to take advantage of the

Re: [Rd] That 'make check-all' problem with the survival package

2015-05-16 Thread Uwe Ligges
Not sure why this goes to R-devel. You just could have asked the maintainer. Terry Therneau is aware of it and promised he will fix it. Best, Uwe Ligges On 16.05.2015 07:22, Hin-Tak Leung wrote: 'make check-all' for current R has been showing this error in the middle for a few months now -