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seandavi / GEOquery

The bridge between the NCBI Gene Expression Omnibus and Bioconductor
http://seandavi.github.io/GEOquery/
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getGEO: Error in open.connection(x, "rb") : HTTP error 403. #149

Closed VasLem closed 7 months ago

VasLem commented 7 months ago

Describe the bug I am aware that such an issue has already been reported, tagged as an NCBI issue, however I cannot reproduce this outside of GEOquery package.

For example, I am trying to get GSE111942 series.

The https works fine: https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE111942&format=file The ftp also works ok: https://ftp.ncbi.nlm.nih.gov/geo/series/GSE111nnn/GSE111942/suppl/GSE111942_RAW.tar

Have they changed something in their API perhaps?

To Reproduce

library(GEOquery)
getGeo('GSE111942')
VasLem commented 7 months ago

Hmmm, invalid call, indeed I could download the file after writing this issue...