[BioC] Using the untar() with getGEOSuppFiles()

[Ovokeraye Achinike-Oduaran]

Hi all,

I'm having a difficult time using the untar() after I retrieve the
supp files using getGEOSuppFiles(). I tried it with gse15653 and
gse12643. Both times different errors and I'm not quite sure what else
to do. My goal is to retrieve the associated .cel files. Please help.

Thanks.

-Avoks

> untar("GSE12643/GSE12643_RAW.tar", files = NULL, list = FALSE, exdir = ".",
+       compressed = gzip, extras = NULL, verbose = FALSE,
+       tar = Sys.getenv("TAR"))
Error in rawToChar(block[seq_len(ns)]) :
  embedded nul in string:
'\023Ö\030ÛT×\002@Êe4-\024üWÙ&Ù?i0Ú‡"XRâæCGw÷\001\024uA<°§Êœºb•ýó•6…XR\004Q\036¤\v­4@ÔYÏ=m\020BéÙ9Ô¸Ÿ²“áŠL€O¹ô”Ð\0>í}]Dw¨®D\036‘'
>
> untar("GSE15653/GSE15653_RAW.tar", files = NULL, list = FALSE, exdir = ".",
+       compressed = gzip, extras = NULL, verbose = FALSE,
+       tar = Sys.getenv("TAR")
+ )
Error in getOct(block, 100, 8) : invalid octal digit

> sessionInfo()
R version 2.14.1 (2011-12-22)
Platform: i386-pc-mingw32/i386 (32-bit)

locale:
[1] LC_COLLATE=English_xxx.1252  LC_CTYPE=English_xxx.1252
[3] LC_MONETARY=English_xxx.1252 LC_NUMERIC=C
[5] LC_TIME=English_xxx.1252

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

other attached packages:
[1] affy_1.32.1     GEOquery_2.20.8 Biobase_2.14.0