[Rd] Compression of largish expression array files in the DAAGbio/inst/doc directory?
john.maindonald at anu.edu.au
Sat Apr 9 10:17:21 CEST 2011
Thanks. That seems to work.
John Maindonald email: john.maindonald at anu.edu.au
phone : +61 2 (6125)3473 fax : +61 2(6125)5549
Centre for Mathematics & Its Applications, Room 1194,
John Dedman Mathematical Sciences Building (Building 27)
Australian National University, Canberra ACT 0200.
On 09/04/2011, at 4:58 PM, Prof Brian Ripley wrote:
> As far as I can see read.maimages is built on top of R's own file-reading facilties, and they all read compressed (but not zipped) files as from R 2.10.0.
> So simply use
> gzip -9 coral55?.spot
> and rename the files back to *.spot.
> If you need more compression, use xz -9e. (You can also do this in R: readLines() on the file, writeLines() using gzfile or xzfile.)
> You will need to make the package 'Depends: R (>= 2.10)'.
> On Sat, 9 Apr 2011, John Maindonald wrote:
>> The inst/doc directory of the DAAG package has 6 files coral551.spot, ... that
>> are around 0.85 MB each. It would be useful to be able to zip then, but that
>> as matters stand interferes with the use of the Sweave file that uses them to
>> demonstrate input of expression array data that is in the "spot" format. They
>> do not automatically get unzipped when required. I have checked that
>> read.maimages (in limma) does not, unless I have missed something, have
>> an option for reading zipped files. Is there any way to get around this without
>> substantially complicating the exposition in marray-notes.pdf (also in the
>> inst/doc subdirectory)?
>> John Maindonald email: john.maindonald at anu.edu.au
>> phone : +61 2 (6125)3473 fax : +61 2(6125)5549
>> Centre for Mathematics & Its Applications, Room 1194,
>> John Dedman Mathematical Sciences Building (Building 27)
>> Australian National University, Canberra ACT 0200.
>> R-devel at r-project.org mailing list
> Brian D. Ripley, ripley at stats.ox.ac.uk
> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel: +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UK Fax: +44 1865 272595
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