R Under development (unstable) (2023-07-16 r84696 ucrt) -- "Unsuffered Consequences"
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Platform: x86_64-w64-mingw32/x64

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> library(testthat)
> library(promor)
The legacy packages maptools, rgdal, and rgeos, underpinning the sp package,
which was just loaded, will retire in October 2023.
Please refer to R-spatial evolution reports for details, especially
https://r-spatial.org/r/2023/05/15/evolution4.html.
It may be desirable to make the sf package available;
package maintainers should consider adding sf to Suggests:.
The sp package is now running under evolution status 2
     (status 2 uses the sf package in place of rgdal)
> 
> test_check("promor")
0 empty row(s) removed.
2 empty column(s) removed.
1 protein(s) (rows) only identified by site removed.
4 protein(s) identified by 2 or fewer unique peptides removed.
Zeros have been replaced with NAs.
Data have been log-transformed.
4 proteins with higher than 33% NAs in at least one group removed.
0 empty row(s) removed.
4 empty column(s) removed.
10 protein contaminant(s) (rows) removed.
0 protein(s) identified by 2 or fewer unique peptides removed.
Zeros have been replaced with NAs.
Data have been log-transformed.
  missForest iteration 1 in progress...done!
    estimated error(s): 1.238942 
    difference(s): 0.01291771 
    time: 0.01 seconds

  missForest iteration 2 in progress...done!
    estimated error(s): 1.308915 
    difference(s): 0.002628932 
    time: 0 seconds

  missForest iteration 3 in progress...done!
    estimated error(s): 1.089121 
    difference(s): 0.006704341 
    time: 0 seconds

change in estimate:  0.02415548 
change in estimate:  0.02101209 
change in estimate:  0.01821531 
change in estimate:  0.0157772 
change in estimate:  0.01367284 
change in estimate:  0.01186459 
change in estimate:  0.01031291 
change in estimate:  0.008980791 
1 siginificantly differentially expressed proteins found.

Testing glm...


Testing rf...


Testing svmRadial...


Done!
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
> 
> proc.time()
   user  system elapsed 
   7.42    0.51    7.92