Last updated on 2024-12-22 10:50:25 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| aPEAR | 1 | 3 | 9 |
Current CRAN status: ERROR: 1, NOTE: 3, OK: 9
Version: 1.0.0
Check: re-building of vignette outputs
Result: NOTE
Note: skipping ‘aPEAR-vignette.Rmd’ due to unavailable dependencies:
'clusterProfiler'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [10s/12s]
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/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(aPEAR)
>
> test_check("aPEAR")
Attaching package: 'dplyr'
The following object is masked from 'package:testthat':
matches
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
[ FAIL 3 | WARN 4 | SKIP 1 | PASS 101 ]
══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1): 'test-prepareEnrichment.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-cluster.R:5:3'): spectral clustering returns correct data format ──
Error in `spectral(sim, verbose = FALSE)`: Package Spectrum is required to use "spectral" clustering method.
Backtrace:
▆
1. └─aPEAR:::spectral(sim, verbose = FALSE) at test-cluster.R:5:3
── Error ('test-cluster.R:55:3'): pathwayClusters returns something for all implemented methods ──
Error in `spectral(sim, verbose)`: Package Spectrum is required to use "spectral" clustering method.
Backtrace:
▆
1. └─aPEAR:::pathwayClusters(sim, method = "s") at test-cluster.R:55:3
2. └─aPEAR:::spectral(sim, verbose)
── Error ('test-cluster.R:63:3'): pathwayClusters filters out by cluster size ──
Error in `spectral(sim, verbose)`: Package Spectrum is required to use "spectral" clustering method.
Backtrace:
▆
1. └─aPEAR:::pathwayClusters(sim, method = "s", minClusterSize = 13) at test-cluster.R:63:3
2. └─aPEAR:::spectral(sim, verbose)
[ FAIL 3 | WARN 4 | SKIP 1 | PASS 101 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'clusterProfiler', 'DOSE'
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64