inst/unitTests/test_geneCentricDbs.R | 14 0 14 - 0 !
inst/unitTests/test_select.R | 75 0 75 - 0 !
inst/unitTests/test_select_reactome.R | 127 0 127 - 0 !
3 files changed, 216 deletions(-)

 one of the needed databases is just packaged
 so try at least testing this one while excluding all other
 databases.

inst/unitTests/test_select.R | 110 1 109 - 0 !
1 file changed, 1 insertion( ), 109 deletions(-)

 despite the fact that r-bioc-org.hs.eg.db is explicitly in
 Test-Depends the test suite fails with:

> AnnotationDbi:::.test()
Loading required package: RSQLite
Loading required package: GO.db
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'dbconn': object 'org.Hs.eg.db' not found
'select()' returned many:many mapping between keys and columns
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'x' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'org.Hs.eg.db' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': unable to find an inherited method for function keys for signature "standardGeneric"
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 's' not found
Timing stopped at: 0 0 0
Error in quiet(select(x, keys, cols, keytype = "ENTREZID")) : 
  could not find function "quiet"
Timing stopped at: 0 0 0
Error in quiet(select(x, sym, "PFAM", keytype = "ALIAS")) : 
  could not find function "quiet"
Timing stopped at: 0.001 0 0.001
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'hgu95av2.db' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'x' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'hgu95av2.db' not found
'select()' returned 1:1 mapping between keys and columns
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found
Timing stopped at: 0 0 0
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found
RUNIT TEST PROTOCOL -- Thu Sep 16 12:14:58 2021 
*********************************************** 
Number of test functions: 16 
Number of errors: 13 
Number of failures: 0 
 
1 Test Suite : 
AnnotationDbi RUnit Tests - 16 test functions, 13 errors, 0 failures
ERROR in test_dbconn_and_dbfile: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'dbconn': object 'org.Hs.eg.db' not found
ERROR in test_select_NAsInNAsOut: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'x' not found
ERROR in test_select_XtoX: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'org.Hs.eg.db' not found
ERROR in test_select10: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': unable to find an inherited method for function keys for signature "standardGeneric"
ERROR in test_select11: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 's' not found
ERROR in test_select12: Error in quiet(select(x, keys, cols, keytype = "ENTREZID")) : 
  could not find function "quiet"
ERROR in test_select13: Error in quiet(select(x, sym, "PFAM", keytype = "ALIAS")) : 
  could not find function "quiet"
ERROR in test_select14: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'hgu95av2.db' not found
ERROR in test_select15: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'x' not found
ERROR in test_select16: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'select': object 'hgu95av2.db' not found
ERROR in test_select7: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found
ERROR in test_select8: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found
ERROR in test_select9: Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'keys': object 'org.Hs.eg.db' not found


see:

https://salsa.debian.org/r-pkg-team/r-bioc-annotationdbi/-/jobs/1952020#L1174