Error in makeOrgPackageFromNCBI for S. pombe!
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Entering edit mode
Parham • 0
@parham-6910
Last seen 9.4 years ago
Sweden

Hi,

I receive an error in the code below when I want to create package from NCBI. I was recommended to post it here in another thread I have on seqanswers.com. 

> makeOrgPackageFromNCBI(version = "0.1", author = "Some One <so@someplace.org>", 
+                        maintainer = "Some One <so@someplace.org>", outputDir = ".", 
+                        tax_id = "4896", genus = "Schizosaccharomyces", species = "pombe")
Loading required package: GO.db

Getting data for gene2pubmed.gz
discarding data from other organisms
Populating gene2pubmed table:
table gene2pubmed filled
Getting data for gene2accession.gz
discarding data from other organisms
Populating gene2accession table:
table gene2accession filled
Getting data for gene2refseq.gz
discarding data from other organisms
Populating gene2refseq table:
table gene2refseq filled
Getting data for gene2unigene
discarding data from other organisms
Populating gene2unigene table:
table gene2unigene filled
Getting data for gene_info.gz
discarding data from other organisms
Populating gene_info table:
table gene_info filled
Getting data for gene2go.gz
discarding data from other organisms
Populating gene2go table:
Getting blast2GO data as a substitute for gene2go
Error in sqliteExecStatement(con, statement, bind.data) : 
  RS-DBI driver: (RS_SQLite_exec: could not execute: column name is not unique)
In addition: Warning message:
In file.remove(dbFileName) :
  cannot remove file 'org.Spombe.eg.sqlite', reason 'Permission denied'

Thanks in advance!

makeorgpackagefromNCBI s.pombe sqliteExecStatement • 1.2k views
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