AnnotationHub problem
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Jianxuan • 0
@9da62f44
Last seen 8 days ago
United Kingdom

Hi,

I got an amateur problem with AnnotationHub. Have installed the package (Annotation version 3.2.0, R version 3.14) and loading the library successfully. And I get the error below when trying to exexute AnnotationHub()

> hub <- AnnotationHub()
Error in dbQuoteIdentifier(con, x) : 
  lazy-load database '/home/jianxuan/R/x86_64-pc-linux-gnu-library/4.1/DBI/R/DBI.rdb' is corrupt
In addition: Warning messages:
1: In dbQuoteIdentifier(con, x) :
  restarting interrupted promise evaluation
2: In dbQuoteIdentifier(con, x) : internal error -3 in R_decompress1
sessionInfo( )

Many thanks!

Jianxuan

AnnotationHub • 71 views
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shepherl 2.9k
@lshep
Last seen 1 hour ago
United States

I would try reinstalling the DBI package. BiocManager::install('DBI', force=TRUE) . Also see if all packages are up-to-date by running BiocManager::valid() and/or BiocManager::install() and update any necessary.

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Thanks for your advice Shepher. It works, many thanks!

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