R Under development (unstable) (2024-11-06 r87293 ucrt) -- "Unsuffered Consequences"
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> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
> 
> library(testthat)
> library(CRMetrics)
> 
> test_check("CRMetrics")

Attaching package: 'magrittr'

The following objects are masked from 'package:testthat':

    equals, is_less_than, not

Adding list of 4 count matrices.
Running preprocessing using pagoda2...
3000 cells, 10000 genes; normalizing ... 
Using plain model 
Winsorizing ... 
log scale ... 
done.

calculating variance fit ...
 using gam 
0 overdispersed genes ... 0
persisting ... 
done.
running PCA using 3000 OD genes .
.
.
.
 done

creating space of type angular done
adding data ... done
building index ... done
querying ... done
3000 cells, 10000 genes; normalizing ... 
Using plain model 
Winsorizing ... 
log scale ... 
done.

calculating variance fit ...
 using gam 
0 overdispersed genes ... 0
persisting ... 
done.
running PCA using 3000 OD genes .
.
.
.
 done

creating space of type angular done
adding data ... done
building index ... done
querying ... done
3000 cells, 10000 genes; normalizing ... 
Using plain model 
Winsorizing ... 
log scale ... 
done.

calculating variance fit ...
 using gam 
0 overdispersed genes ... 0
persisting ... 
done.
running PCA using 3000 OD genes .
.
.
.
 done

creating space of type angular done
adding data ... done
building index ... done
querying ... done
3000 cells, 10000 genes; normalizing ... 
Using plain model 
Winsorizing ... 
log scale ... 
done.

calculating variance fit ...
 using gam 
0 overdispersed genes ... 0
persisting ... 
done.
running PCA using 3000 OD genes .
.
.
.
 done

creating space of type angular done
adding data ... done
building index ... done
querying ... done
Preprocessing done!

Creating Conos object... 
Building graph... 
found 0 out of 6 cached PCA space pairs ... 
running 6 additional PCA space pairs 
...... done
inter-sample links using mNN 
...... done
local pairs 
.
.
.
.
 done

building graph .
.done
Finding communities... 
Creating embedding... 
Estimating embeddings.

0%   10   20   30   40   50   60   70   80   90   100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
> 
> proc.time()
   user  system elapsed 
 104.87    2.84  107.71