Comments (3)
This appears to be an issue whereby URLs like:
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL90&form=text&view=full
return empty data tables. I have an email in to the NCBI GEO folks to see what is up.
from geoquery.
From the GEO folks:
------ MESSAGE BODY. YOU MAY CHANGE IT OR ADD COMMENTS ABOVE ------
Dear Sean,
Thanks for the report.
NCBI servers were impacted by the storm last night, and our systems are not
yet back to normal. I've forwarded your email to our developers in case the
problem you noted is unrelated. I'll let you know when I hear back from them.
Kind regards,
Patti
Patti Sherman, PhD
GEO Curator
[email protected]
---- END OF MESSAGE BODY. PLEASE DO NOT CHANGE THE DATA BELOW ----
SK#:20:244:0:223:4095287
Please leave the subject line unchanged, and do not change the message
at end from the line with "END OF MESSAGE BODY" to the end.
NOTE: the geo email is often abused (spoofed) by spammers. We never send
encrypted messages or attachments unless agreed. We always sign emails by
name.
The following summarizes the status of your request:
Current status of the ticket #17027070 is:
Queue: geo
Area:
Subject: Truncated GPLs via web API?
Owner:
Requestors: [email protected]
Status: open
Transaction: Mail sent by 'sherman' (19818310)
------- END OF TRNSACTION DATA. YOU MAY ADD COMMENTS BELOW -------
from geoquery.
Looks like this was an NCBI issue. Things are working now.
gpl = getGEO("GPL90")
File stored at:
/var/folders/21/8t47kwys6vqb8606kdfn71780000gn/T//Rtmp9UGGe1/GPL90.soft
gpl = getGEO("GPL96")
File stored at:
/var/folders/21/8t47kwys6vqb8606kdfn71780000gn/T//Rtmp9UGGe1/GPL96.soft
sessionInfo()
R version 3.0.2 Patched (2014-01-22 r64855)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] GEOquery_2.28.0 Biobase_2.21.7 BiocGenerics_0.7.5
[4] BiocInstaller_1.12.0
loaded via a namespace (and not attached):
[1] RCurl_1.95-4.1 XML_3.95-0.2
date()
[1] "Fri May 2 12:14:43 2014"
from geoquery.
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from geoquery.