Re: [Rd] A good way to debug a c++ library embedded to R code

2015-02-02 Thread Charles Novaes de Santana
Thank you, Dan! The video helps a lot indeed!! Best, Charles On Mon, Feb 2, 2015 at 9:14 PM, Dan Tenenbaum wrote: > > > - Original Message - > > From: "Gabriel Becker" > > To: "Charles Novaes de Santana" > > Cc: "r-devel" > > Sent: Monday, February 2, 2015 12:02:27 PM > > Subject: R

Re: [Rd] A good way to debug a c++ library embedded to R code

2015-02-02 Thread Dan Tenenbaum
- Original Message - > From: "Gabriel Becker" > To: "Charles Novaes de Santana" > Cc: "r-devel" > Sent: Monday, February 2, 2015 12:02:27 PM > Subject: Re: [Rd] A good way to debug a c++ library embedded to R code > > Charles, > > Run R under gdb > > R -d gdb > > You can then set b

Re: [Rd] A good way to debug a c++ library embedded to R code

2015-02-02 Thread Charles Novaes de Santana
Thank you, Gabriel! I didn't know I could do it! I will try it! Best, Charles On Mon, Feb 2, 2015 at 9:02 PM, Gabriel Becker wrote: > Charles, > > Run R under gdb > > R -d gdb > > You can then set breakpoints and catch problems in C(++) code run under R. > > ~G > > On Mon, Feb 2, 2015 at 10:59

Re: [Rd] A good way to debug a c++ library embedded to R code

2015-02-02 Thread Gabriel Becker
Charles, Run R under gdb R -d gdb You can then set breakpoints and catch problems in C(++) code run under R. ~G On Mon, Feb 2, 2015 at 10:59 AM, Charles Novaes de Santana < charles.sant...@gmail.com> wrote: > Dear all, > > I am using R CMD SHLIB to compile a c++ code into a library (.so) and

[Rd] A good way to debug a c++ library embedded to R code

2015-02-02 Thread Charles Novaes de Santana
Dear all, I am using R CMD SHLIB to compile a c++ code into a library (.so) and dyn.load to load this library into a R code. I am facing some problems in the c++ code that I can not figure out how to solve. Do you recomend any good way to debug this R + C++ program? If I was programming only in C+

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread Gavin Simpson
On 2 February 2015 at 10:07, William Dunlap wrote: > > If all goes well then >eigen(lastEigenX) > will cause the same error and you or someone on this list can see what > is odd about that matrix (e.g., by looking at its singular values). Preferably *not* this list as this doesn't really se

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread William Dunlap
You can start diagnosing the problem by capturing the matrix that caused eigen() to stop. You can do this in a variety of ways; here is one trace(eigen, quote(lastEigenX <<- x)) After setting the trace, make your offending function call and after the error the global variable 'lastEigenX' wil

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread eigen
Sorry for being unclear. I am using R x64 3.1.2 for simulation. Basically I got a matrix of genetic data and calculated the kernel matrix. Now I have trouble applying eigen function on the kernel matrix for a few simulations but not most of them. I tried other methods but none of them worked. I gue

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread Kasper Daniel Hansen
fortune candidate On Mon, Feb 2, 2015 at 8:54 AM, peter dalgaard wrote: > > On 02 Feb 2015, at 04:08 , eigen wrote: > > > Thank you for your reply. Do you have any idea of how to get rid of the > > errors? I tried Null function to calculate eigenvectors and nearPD to get > > approximate positiv

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread peter dalgaard
On 02 Feb 2015, at 04:08 , eigen wrote: > Thank you for your reply. Do you have any idea of how to get rid of the > errors? I tried Null function to calculate eigenvectors and nearPD to get > approximate positive definite matrix first but they also had errors. > How could we? All we know is t

Re: [Rd] error code 1 from Lapack routine 'dsyevr'

2015-02-02 Thread eigen
Thank you for your reply. Do you have any idea of how to get rid of the errors? I tried Null function to calculate eigenvectors and nearPD to get approximate positive definite matrix first but they also had errors. -- View this message in context: http://r.789695.n4.nabble.com/error-code-1-from

Re: [Rd] BinaryFiles format

2015-02-02 Thread Prof Brian Ripley
On 02/02/2015 11:40, Teodor Krastev wrote: Hello, after many failed attempts to correctly write BinaryFiles file "R CMD check will warn about them unless they are listed (one filepath per line) in a file BinaryFiles at the top level of the package." - CRAN docs Not 'CRAN docs': CRAN does not a

[Rd] BinaryFiles format

2015-02-02 Thread Teodor Krastev
Hello, after many failed attempts to correctly write BinaryFiles file "R CMD check will warn about them unless they are listed (one filepath per line) in a file BinaryFiles at the top level of the package." - CRAN docs would somebody kindly provide an example of BinaryFiles file? thank you Theo

Re: [Rd] Proper way to define cbind, rbind for s4 classes in package

2015-02-02 Thread Martin Maechler
> Michael Lawrence > on Sun, 1 Feb 2015 19:23:06 -0800 writes: > I've implemented the proposed changes in > R-devel. Minimally tested, so please try it. It should > delegate to r/cbind2 when there is at least one S4 > argument and S3 dispatch fails (so you'll probably