makecdfenv error
2
0
Entering edit mode
@ambika-sundaresan-1196
Last seen 9.5 years ago
Hi all: I'm new to R and Bioconductor. I'm trying to use makecdfenv package to create an environment for tiling arrays on Windows. This is the error I get: > make.cdf.package("arabidopsis_tlgF") Error in isCDFXDA(file.path(path.expand(cdf.path), filename)) : Unable to open the file D:/R/rw2001/arabidopsis_tlgF I previously downloaded Active Perl and MingGW into the above rw2001 directory. What's going on? I'll much appreciate some help. Ambika Sundaresan. [[alternative HTML version deleted]]
cdf makecdfenv cdf makecdfenv • 970 views
ADD COMMENT
0
Entering edit mode
Seth Falcon ★ 7.4k
@seth-falcon-992
Last seen 9.5 years ago
Hi Ambika, "Ambika Sundaresan" <sundaresan@salk.edu> writes: > I'm new to R and Bioconductor. I'm trying to use makecdfenv package to > create an environment for tiling arrays on Windows. > > This is the error I get: > > > >> make.cdf.package("arabidopsis_tlgF") Is there a file in your current working directory with this name? You can determine your current working directory with getwd() and you can set it with setwd(). > Error in isCDFXDA(file.path(path.expand(cdf.path), filename)) : > > Unable to open the file D:/R/rw2001/arabidopsis_tlgF This looks like your working directory is the R install dir. Did you put data files there? Probably it is a better idea to place them elsewhere and change your working directory. There is a menu option for it in the Windows R GUI, but you can also use setwd(). > > I previously downloaded Active Perl and MingGW into the above rw2001 > directory. What's going on? I'll much appreciate some help. Putting those packages into the R directory seems strange. You'll need to give us more details in order to help. But the first thing is to get your file paths sorted. Best, + seth
ADD COMMENT
0
Entering edit mode
@james-w-macdonald-5106
Last seen 8 hours ago
United States
Ambika Sundaresan wrote: > Hi all: > > > > I'm new to R and Bioconductor. I'm trying to use makecdfenv package to > create an environment for tiling arrays on Windows. > > > > This is the error I get: > > > > >>make.cdf.package("arabidopsis_tlgF") make.cdf.package() expects a .cdf file, and in your call to make.cdf.package() you should quote the entire filename including the extension. make.cdf.package("arabidopsis_tglF.CDF") Should work, provided this is a CDF file. Jim -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623
ADD COMMENT

Login before adding your answer.

Traffic: 616 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6