Question: UPC method giving error for Microarray dataset
0
gravatar for Vani
3.8 years ago by
Vani20
United States
Vani20 wrote:

Hello,

I am trying to normalize a dataset from the Geo site using the SCAN.UPC's UPC method, but it is giving me an error.

Here is my code:

eset <- UPC("GSE57338")

Here is the error:

Warning messages:

1: In download.file(file.path(url, i), destfile = file.path(storedir,  :

  downloaded length 4243712 != reported length 1421281280

2: In untar(tarFilePath, exdir = downloadDir) :

  ‘/usr/bin/tar -xf '/var/folders/k2/qp4ym_z11zv4wtk9yypxfxtr0000gn/T//RtmpMyCgHP/GSE57338_RAW.tar' -C '/var/folders/k2/qp4ym_z11zv4wtk9yypxfxtr0000gn/T//RtmpMyCgHP/GSE57338'’ returned error code 1

3: executing %dopar% sequentially: no parallel backend registered

Please advise on how I should fix this.

Thanks.

scan.upc upc • 716 views
ADD COMMENTlink modified 3.8 years ago by Stephen Piccolo560 • written 3.8 years ago by Vani20

Thanks for letting me know about this. I'll look into it and get back to you.

ADD REPLYlink written 3.8 years ago by Stephen Piccolo560
Answer: UPC method giving error for Microarray dataset
0
gravatar for Stephen Piccolo
3.8 years ago by
United States
Stephen Piccolo560 wrote:

Hi Vani,

I just tried it on my server, and it worked fine. I got no errors. I was using the latest version (3.2.3) of R and SCAN.UPC (2.12.1). Can you please make sure you are on the latest versions and try it again? If you get another error, please send the full output as well as output from sessionInfo().

Thanks,

-Steve

ADD COMMENTlink written 3.8 years ago by Stephen Piccolo560
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 208 users visited in the last hour