Re: [aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-27 Thread Andrew
thanks Henrik. The output is: [1] GenomeWideSNP_6,Full.cdf [2] GenomeWideSNP_6,HB20080710.acs [3] GenomeWideSNP_6,na31,hg19,HB20110328.ufl [4] GenomeWideSNP_6,na31,hg19,HB20110328.ugp On Tuesday, June 26, 2012 11:51:49 PM UTC-4, Henrik Bengtsson wrote: Following the

Re: [aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-27 Thread Henrik Bengtsson
On Wed, Jun 27, 2012 at 9:09 AM, Andrew andysure...@gmail.com wrote: thanks Henrik. The output is: [1] GenomeWideSNP_6,Full.cdf [2] GenomeWideSNP_6,HB20080710.acs [3] GenomeWideSNP_6,na31,hg19,HB20110328.ufl [4] GenomeWideSNP_6,na31,hg19,HB20110328.ugp For GenomeWideSNP_6,Full.cdf, you

[aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-27 Thread Andrew
Henrik, thanks again. It's working now. On Monday, June 18, 2012 4:58:19 PM UTC-4, NT_CMU wrote: Hi I'm trying to run the command doCRMAv2, and i get these errors. Let me know what the problem is, if any of you have encountered this before. I thought i did not have some library installed

[aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-26 Thread Andrew
I feel it might be better to post my question in this thread, as I have encountered the same error. I've downloaded ufl, ugp, and acs files from AROMA SNP6 webpage, and the Full cdf file from Affymetrix. And I still got the same kind error NT_CMU got for getGenomeInformation. Could you

[aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-19 Thread NT_CMU
Thank you Henrik and Pierre. I am able to run it successfully now. It gives me a few warnings at the end. warnings() Warning messages: 1: In log2(y) : NaNs produced 2: In log2(y) : NaNs produced 3: In log2(y) : NaNs produced 4: In log2(y) : NaNs produced 5: In log2(y) : NaNs produced 6: In

Re: [aroma.affymetrix] Re: Error in getGenomeInformation

2012-06-19 Thread Henrik Bengtsson
You can ignore them. Warnings are almost always alright - errors are not. /Henrik On Tue, Jun 19, 2012 at 6:40 AM, NT_CMU nitesh.tur...@gmail.com wrote: Thank you Henrik and Pierre. I am able to run it successfully now. It gives me a few warnings at the end. warnings() Warning messages:

[aroma.affymetrix] Re: Error in getGenomeInformation

2008-10-31 Thread Henrik Bengtsson
Hi Mark, On Fri, Oct 31, 2008 at 10:05 AM, Mark Dunning [EMAIL PROTECTED] wrote: Hello all, Just started using aroma, and I'm afraid I'm not getting very far :( I think I've got a handle on how the directory structure works and can read in some information from the cdf file correctly, but

[aroma.affymetrix] Re: Error in getGenomeInformation

2008-10-31 Thread Mark Dunning
Hi Henrik, Thanks for your quick reply. Here are the files in the directory GenomeWideSNP_6.chrXprobes GenomeWideSNP_6.chrYprobes GenomeWideSNP_6,Full.cdf GenomeWideSNP_6,Full,monocell.CDF GenomeWideSNP_6,Full,na24,HB20080214.ufl GenomeWideSNP_6,Full,na24,HB20080214.ugp