Last updated on 2025-09-02 09:50:33 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-fedora-clang | 0.1.1 | 139.34 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.1 | 148.25 | ERROR | |||
| r-release-macos-x86_64 | 0.1.1 | 196.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 0.1.1 | 206.00 | ERROR |
Version: 0.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [46s/47s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # 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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(metamorphr)
>
> test_check("metamorphr")
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Cluster size 2308 broken into 1406 902
Done cluster 1406
Done cluster 902
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Finished iteration 2.
Finished iteration 3.
Successfully ran 3 iterations.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
Finished iteration 4.
Finished iteration 5.
Finished iteration 6.
Finished iteration 1.
nipals calculated PCA
Importance of component(s):
PC1 PC2
R2 0.4315 0.2422
Cumulative R2 0.4315 0.6736
10 Variables
11 Samples
33 NAs ( 30 %)
2 Calculated component(s)
Data was mean centered before running PCA
Data was NOT scaled before running PCA
Scores structure:
[1] 11 2
Loadings structure:
[1] 10 2
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
Replicates detected: 1...3
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
Replicates detected: 1...3
30 % missing values (NA): 33 out of 110.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 363 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-normalize_quantile_smooth.R:91:3'): normalize_quantile_smooth returns the same values as qsmooth::qsmooth() ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'qsmooth'
Backtrace:
▆
1. └─base::loadNamespace(x) at test-normalize_quantile_smooth.R:91:3
2. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
3. └─base (local) withOneRestart(expr, restarts[[1L]])
4. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 363 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [48s/48s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # 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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(metamorphr)
>
> test_check("metamorphr")
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Cluster size 2308 broken into 1406 902
Done cluster 1406
Done cluster 902
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Finished iteration 2.
Finished iteration 3.
Successfully ran 3 iterations.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
Finished iteration 4.
Finished iteration 5.
Finished iteration 6.
Finished iteration 1.
nipals calculated PCA
Importance of component(s):
PC1 PC2
R2 0.4315 0.2422
Cumulative R2 0.4315 0.6736
10 Variables
11 Samples
33 NAs ( 30 %)
2 Calculated component(s)
Data was mean centered before running PCA
Data was NOT scaled before running PCA
Scores structure:
[1] 11 2
Loadings structure:
[1] 10 2
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
Replicates detected: 1...3
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
Replicates detected: 1...3
30 % missing values (NA): 33 out of 110.
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-impute_knn.R:206:3'): test check_installed_wrapper function ──
`check_installed_wrapper("abc")` did not throw the expected error.
── Error ('test-normalize_quantile_smooth.R:91:3'): normalize_quantile_smooth returns the same values as qsmooth::qsmooth() ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'qsmooth'
Backtrace:
▆
1. └─base::loadNamespace(x) at test-normalize_quantile_smooth.R:91:3
2. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
3. └─base (local) withOneRestart(expr, restarts[[1L]])
4. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [38s/72s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # 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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(metamorphr)
>
> test_check("metamorphr")
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Cluster size 2308 broken into 1406 902
Done cluster 1406
Done cluster 902
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Finished iteration 2.
Finished iteration 3.
Successfully ran 3 iterations.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
Finished iteration 4.
Finished iteration 5.
Finished iteration 6.
Finished iteration 1.
nipals calculated PCA
Importance of component(s):
PC1 PC2
R2 0.4315 0.2422
Cumulative R2 0.4315 0.6736
10 Variables
11 Samples
33 NAs ( 30 %)
2 Calculated component(s)
Data was mean centered before running PCA
Data was NOT scaled before running PCA
Scores structure:
[1] 11 2
Loadings structure:
[1] 10 2
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
Replicates detected: 1...3
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
Replicates detected: 1...3
30 % missing values (NA): 33 out of 110.
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-impute_knn.R:206:3'): test check_installed_wrapper function ──
`check_installed_wrapper("abc")` did not throw the expected error.
── Error ('test-normalize_quantile_smooth.R:91:3'): normalize_quantile_smooth returns the same values as qsmooth::qsmooth() ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'qsmooth'
Backtrace:
▆
1. └─base::loadNamespace(x) at test-normalize_quantile_smooth.R:91:3
2. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
3. └─base (local) withOneRestart(expr, restarts[[1L]])
4. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
Error: Test failures
Execution halted
Flavor: r-release-macos-x86_64
Version: 0.1.1
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘qsmooth’
Flavor: r-oldrel-macos-x86_64
Version: 0.1.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [43s/81s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # 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/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(metamorphr)
>
> test_check("metamorphr")
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
`impute_bpca` output:
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Cluster size 2308 broken into 1406 902
Done cluster 1406
Done cluster 902
Cluster size 2308 broken into 1247 1061
Done cluster 1247
Done cluster 1061
Finished iteration 2.
Finished iteration 3.
Successfully ran 3 iterations.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
0 % missing values (NA): 0 out of 110.
Finished iteration 1.
Finished iteration 2.
Finished iteration 3.
Finished iteration 4.
Finished iteration 5.
Finished iteration 6.
Finished iteration 1.
nipals calculated PCA
Importance of component(s):
PC1 PC2
R2 0.4315 0.2422
Cumulative R2 0.4315 0.6736
10 Variables
11 Samples
33 NAs ( 30 %)
2 Calculated component(s)
Data was mean centered before running PCA
Data was NOT scaled before running PCA
Scores structure:
[1] 11 2
Loadings structure:
[1] 10 2
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
Replicates detected: 1...3
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
1 Batches: 1
30 % missing values (NA): 33 out of 110.
11 Samples: Sample1, Sample2, Sample3, Sample4, Sample5
# 6 more samples
# Use the n_samples_max argument to see more
10 Features: 161.10519 Da 26.98 s, 276.13647 Da 27.28 s, 304.24023 Da 32.86 s, 417.23236 Da 60.08 s, 104.10753 Da 170.31 s
# 5 more features
# Use the n_features_max argument to see more
4 Groups: control, treatment, QC, blank
Replicates detected: 1...3
30 % missing values (NA): 33 out of 110.
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-impute_knn.R:206:3'): test check_installed_wrapper function ──
`check_installed_wrapper("abc")` did not throw the expected error.
── Error ('test-normalize_quantile_smooth.R:91:3'): normalize_quantile_smooth returns the same values as qsmooth::qsmooth() ──
<packageNotFoundError/error/condition>
Error in `loadNamespace(x)`: there is no package called 'qsmooth'
Backtrace:
▆
1. └─base::loadNamespace(x) at test-normalize_quantile_smooth.R:91:3
2. └─base::withRestarts(stop(cond), retry_loadNamespace = function() NULL)
3. └─base (local) withOneRestart(expr, restarts[[1L]])
4. └─base (local) doWithOneRestart(return(expr), restart)
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 362 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-macos-x86_64
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