[Bioc-devel] ShortRead error

[Droit Arnaud]

Hi,
We find the problems.
I just add
#include <errno.h> in read_maq_map.cc  and readBfaToc.cc

Thanks

Arnaud.


On 10-04-28 11:39 AM, "Droit Arnaud" <Arnaud.Droit at ircm.qc.ca> wrote:

Hi,

I installed the last R beta  version 2.12.
When, I try to install the ShortRead package (1.7.0).
I have the following error message :

g++ -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include  -I/usr/local/include -I"/Library/Frameworks/R.framework/Resources/library/IRanges/include" -I"/Library/Frameworks/R.framework/Resources/library/Biostrings/include"  -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DSIZEOF_UNSIGNED_LONG=8 -DHAVE_LIBZ=1 -fPIC  -g -O2 -c readBfaToc.cc -o readBfaToc.o
readBfaToc.cc: In function 'SEXPREC* readBfaToc(SEXPREC*)':
readBfaToc.cc:28: error: 'errno' was not declared in this scope
make: *** [readBfaToc.o] Error 1
ERROR: compilation failed for package 'ShortRead'
* removing '/Library/Frameworks/R.framework/Resources/library/ShortRead'

Anyone have any idea about the problems ?

Thanks

Arnaud.


> sessionInfo()
R version 2.12.0 Under development (unstable) (2010-04-28 r51857)
x86_64-apple-darwin10.2.0

locale:
[1] C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

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