[BioC] problem using affxparser on MacOSX
fabrice.berger at gmail.com
Thu Nov 17 13:48:52 CET 2011
Dear BioC users,
I could solve the problem.
If some of you have the same troubles, I solved it by re-installing
affxparser from the sources instead of using the binary package
installed by default.
On 17/11/11 12:26, Fabrice Berger wrote:
> Dear BioC users,
> I encounter some troubles using affxparser, that causes R segfault. I
> was originally using affyILM, which makes use of affxparser function
> to read cel files. As I got errors relating to affxparser, I then
> tested affxparser with the following commands :
> and get the following error :
> *** caught segfault ***
> address 0xfffffffc, cause 'memory not mapped'
> 1: .Call("R_affx_get_cel_file_header", filename, PACKAGE = "affxparser")
> 2: readCelHeader(cel)
> Possible actions:
> 1: abort (with core dump, if enabled)
> 2: normal R exit
> 3: exit R without saving workspace
> 4: exit R saving workspace
> Can you point me to some possible explanations for this R crash or
> give me instructions to solve the problem? I'm using the last release
> of R and BioC on MacOSX. Never had troubles with previous releases.
> Fabrice Berger
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