[BioC] Problems about list files on a FTP site

[Martin Morgan]

LiGang <luzifer.li at gmail.com> writes:

> Dear all,
>
> For local machine, "list.files" works well to list all files recursively in
> particular directory. But , is there a function can be used to list all
> files in particular directory on a FTP site?
>
> I use functions of RCurl package to do something like:
>
> ===========================================================
>
> library(RCurl)
>
> getURL("ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS/")->inter
>
> ###inter give some meaningful results

maybe this is better?

> curlOptions(ftplistonly=TRUE) -> opt
> getURL("ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS/", .opts=opt) -> inter
> head(strsplit(inter, "\n")[[1]])
[1] "GDS1.soft.gz"    "GDS10.soft.gz"   "GDS100.soft.gz"  "GDS1001.soft.gz"
[5] "GDS1002.soft.gz" "GDS1003.soft.gz"

> getURL("ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples")->inter2
>
> ###above command did not work

this seems to work

> getURL("ftp://ftp.ncbi.nih.gov/pub/geo/DATA/supplementary/samples",
+ .opts=opt)->inter2

> head(strsplit(inter2, "\n")[[1]])
[1] "platforms"      "samples"        "series"         "PLATFORMS.txt" 
[5] "README.CHANGES" "SERIES.txt"    

See ?listCurlOptions and the (linux) man page for curl_easy_setopt for
ways to set user name and password, and other options.

> Error in curlPerform(curl = curl, .opts = opts, .encoding = .encoding) :
>
> RETR response: 550
>
>
> ===========================================================
>
>
>
> Any suggestions? Many thanks!
>
>
>
> ---
>
> Ligang
>
> 	[[alternative HTML version deleted]]
>
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-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
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