[R-sig-Geo] Import .gz-File

[Roger Bivand]

On Mon, 14 Jun 2010, Kenneth Takagi wrote:

> Rosi,
> I forgot to add that you need to install package "GEOquery" first to access 
> gunzip function.

And a little but important detail - this is not a CRAN package but a 
BioConductor one:

http://bioconductor.org/packages/2.6/bioc/html/GEOquery.html

so will further require Biobase and RCurl. The GEO here means "Gene 
Expression Omnibus", rather than what one might expect.

Depending on your platform, you may also be able to use system() to call a 
freestanding archive program of your choice to decompress the *.gz file. 
This may be as easy as installing BioConductor packages, if you haven't 
done that before.

Roger

>
> -Ken
>
> On 6/14/2010 12:30 PM, Kenneth Takagi wrote:
>> Rosi,
>> 
>> Try this:
>> #unzip "temp.gz" files and save file as "temp.txt":
>> gunzip(filename = "temp.gz", remove = T, overwrite = T, destname =
>> "temp.txt")
>> #now read in "temp.txt" as SpatialGridDataFrame
>> SGDF = read.asciigrid("temp1.txt", proj4string = CRS("+init=epsg:4322"))
>> 
>> This assumes that "temp.txt" is a ascii grid file.
>> HTH,
>> Ken
>> On 6/14/2010 11:27 AM, Roger Bivand wrote:
>>> On Mon, 14 Jun 2010, Siber Rosi wrote:
>>> 
>>>> Dear all, Is it possible to import Esri ascii files which are
>>>> compressed in a .gz file direct to R? My example : 111212.asc in an
>>>> .gz File I thought there might be a similar command as the
>>>> "zip.file.extract"- command. I tried the "gzfile" command, but it did
>>>> not work. Do you have any suggestions?
>>> 
>>> The readGDAL command in rgdal needs a file, I believe, as also does
>>> readAsciiGrid() in maptools. The header is part of the same file, so it
>>> needs to be read in different ways, first to get the metadata, then to
>>> read the data.
>>> 
>>> Roger
>>> 
>>>> Thank you very much in advance.
>>>> Best wishes, Rosi
>>>> 
>>>> 
>>>> ???
>>>> Rosi Siber
>>>> Swiss Federal Institute of Aquatic Science and Technology (Eawag)
>>>> Siam
>>>> Ueberlandstrasse 133
>>>> 8600 Duebendorf
>>>> Switzerland
>>>> Phone: +41 (0)44 823 5566
>>>> Fax: +41 (0)44 823 5375
>>>> rosi.siber at eawag.ch
>>>> http://www.eawag.ch/~siberros
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> 
>>>> [[alternative HTML version deleted]]
>>>> 
>>>> 
>>> 
>> 
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>
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-- 
Roger Bivand
Economic Geography Section, Department of Economics, Norwegian School of
Economics and Business Administration, Helleveien 30, N-5045 Bergen,
Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43
e-mail: Roger.Bivand at nhh.no