Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-16 Thread Duncan Murdoch
On 11-06-14 7:21 PM, Kornelius Rohmeyer wrote: 2011/6/11 Duncan Murdoch: [...] I don't understand. It sounds as though you're saying these two contradictory things: - your package works with any version of graph - CRAN builds a version of graph that is incompatible with your package. No,

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-15 Thread Kornelius Rohmeyer
Am 15. Juni 2011 09:19 schrieb Uwe Ligges : > > > On 15.06.2011 01:21, Kornelius Rohmeyer wrote: >> >> 2011/6/11 Duncan Murdoch: >> [...] >>> >>> I don't understand.  It sounds as though you're saying these two >>> contradictory things: >>> >>>  - your package works with any version of graph >>>  -

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-15 Thread Uwe Ligges
On 15.06.2011 01:21, Kornelius Rohmeyer wrote: 2011/6/11 Duncan Murdoch: [...] I don't understand. It sounds as though you're saying these two contradictory things: - your package works with any version of graph - CRAN builds a version of graph that is incompatible with your package. N

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-14 Thread Kornelius Rohmeyer
2011/6/11 Duncan Murdoch : [...] > I don't understand. It sounds as though you're saying these two > contradictory things: > > - your package works with any version of graph > - CRAN builds a version of graph that is incompatible with your package. No, the first statement is correct but not the

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-11 Thread Duncan Murdoch
On 11-06-11 1:09 AM, Kornelius Rohmeyer wrote: 2011/6/11 Duncan Murdoch: On 11-06-10 7:04 PM, Kornelius Rohmeyer wrote: Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) Is there s

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-11 Thread Uwe Ligges
Actually I do not understand what is so hard to understand with CRAN policy. This is: Any source package on CRAN is build in binary form with R-release/patched and R-oldrelease. This does not happen if you tell your package it requires a particular R version - such as the declaration R (>= 2.1

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-11 Thread Kornelius Rohmeyer
2011/6/11 Prof Brian Ripley : > On Sat, 11 Jun 2011, Kornelius Rohmeyer wrote: >> 2011/6/11 Prof Brian Ripley : >>> Note that until May 8 graph was a CRAN packge and the current version was >>> 1.30.0. So of course CRAN binary packages built between April 26 and May >>> 8 >>> were built against th

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-11 Thread Prof Brian Ripley
On Sat, 11 Jun 2011, Kornelius Rohmeyer wrote: 2011/6/11 Prof Brian Ripley : Note that until May 8 graph was a CRAN packge and the current version was 1.30.0.  So of course CRAN binary packages built between April 26 and May 8 were built against the current CRAN version of graph, for any versio

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-11 Thread Kornelius Rohmeyer
2011/6/11 Prof Brian Ripley : > Note that until May 8 graph was a CRAN packge and the current version was > 1.30.0.  So of course CRAN binary packages built between April 26 and May 8 > were built against the current CRAN version of graph, for any version of R. Thanks for the notice! But if I am n

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Prof Brian Ripley
Note that until May 8 graph was a CRAN packge and the current version was 1.30.0. So of course CRAN binary packages built between April 26 and May 8 were built against the current CRAN version of graph, for any version of R. On Fri, 10 Jun 2011, Martin Morgan wrote: On 06/10/2011 05:46 PM,

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Kornelius Rohmeyer
2011/6/11 Duncan Murdoch : > On 11-06-10 7:04 PM, Kornelius Rohmeyer wrote: >> Dear all, >> >> for a CRAN-package that depends on another Bioconductor-package I find >> two things annoying and would like to know whether there are some >> workarounds: >> >> 1) Is there some inevitable problem that i

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Kornelius Rohmeyer
2011/6/11 Martin Morgan : > On 06/10/2011 05:46 PM, Kornelius Rohmeyer wrote: >> >> Dear Martin, >> >> thanks for your response. >> The superclass graphBase is introduced in graph 1.30. In my understanding the problem is that our package gMCP is build on CRAN for R 2.12 with the pack

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Martin Morgan
On 06/10/2011 05:46 PM, Kornelius Rohmeyer wrote: Dear Martin, thanks for your response. The superclass graphBase is introduced in graph 1.30. In my understanding the problem is that our package gMCP is build on CRAN for R 2.12 with the package graph in version 1.30. Unfortunately biocLite ins

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Kornelius Rohmeyer
Dear Martin, thanks for your response. >> The superclass graphBase is introduced in graph 1.30. In my >> understanding the problem is that our package gMCP is build on CRAN >> for R 2.12 with the package graph in version 1.30. Unfortunately >> biocLite installs graph_1.28.0.zip for R 2.12. > > bi

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Duncan Murdoch
On 11-06-10 7:04 PM, Kornelius Rohmeyer wrote: I'm sorry for sending a wrongly formated mail before. This is the missing text: Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) Is t

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Martin Morgan
On 06/10/2011 04:04 PM, Kornelius Rohmeyer wrote: I'm sorry for sending a wrongly formated mail before. This is the missing text: Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) I

Re: [Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Kornelius Rohmeyer
I'm sorry for sending a wrongly formated mail before. This is the missing text: Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) Is there some inevitable problem that install.package

[Rd] CRAN package with dependencies on Bioconductor

2011-06-10 Thread Kornelius Rohmeyer
Dear all, for a CRAN-package that depends on another Bioconductor-package I find two things annoying and would like to know whether there are some workarounds: 1) Is there some inevitable problem that install.packages does not install uninstalled packages (on which the specified package depends)