[Bioc-devel] HAVE_ZLIB in affyio (breaking matchprobes)
huber at ebi.ac.uk
Wed Apr 5 19:17:42 CEST 2006
Hi Ben, Herve,
can affyio be fixed such that the code that is conditionally compiled
with #if defined(HAVE_ZLIB) preprocessor commands is indeed used if the
machine does have zlib (which I think is standard on most modern systems).
Currently, this is breaking the build of matchprobes on the machines in
since the example CEL files that the vignettes uses are gzipped, and
affy::read.affybatch (via affyio/src/read_abatch.c) refuses to read it
because it was apparently compiled without HAVE_ZLIB defined.
When I manually define HAVE_ZLIB in affyio/src/read_abatch.c, the
matchprobes package passes R CMD check.
1. Can somebody (Ben?) add a configure.ac (or whatever helps) to affyio
so that HAVE_ZLIB is defined?
2. Herve, can you make sure the build machines do install a version of
affyio that supports compressed files?
Beyond fixing matchprobes, I think being able to read compressed CEL
files is a good thing for everybody. Or am I missing sth?
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