Last updated on 2025-01-27 03:49:25 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.3.2 | 15.93 | 302.78 | 318.71 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.3.2 | 10.44 | 233.42 | 243.86 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 0.3.2 | 233.40 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.3.2 | 213.05 | NOTE | |||
| r-devel-windows-x86_64 | 0.3.2 | 17.00 | 323.00 | 340.00 | NOTE | |
| r-patched-linux-x86_64 | 0.3.2 | 16.61 | 306.20 | 322.81 | OK | |
| r-release-linux-x86_64 | 0.3.2 | 12.82 | 303.51 | 316.33 | OK | |
| r-release-macos-arm64 | 0.3.2 | 118.00 | OK | |||
| r-release-macos-x86_64 | 0.3.2 | 194.00 | OK | |||
| r-release-windows-x86_64 | 0.3.2 | 16.00 | 319.00 | 335.00 | OK | |
| r-oldrel-macos-arm64 | 0.3.2 | 71.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 0.3.2 | 213.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.3.2 | 22.00 | 388.00 | 410.00 | OK |
Version: 0.3.2
Check: DESCRIPTION meta-information
Result: NOTE
Missing dependency on R >= 4.1.0 because package code uses the pipe
|> or function shorthand \(...) syntax added in R 4.1.0.
File(s) using such syntax:
‘CRMetrics.R’ ‘inner_functions.R’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64
Version: 0.3.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [9s/10s]
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(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 .
.
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 3 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('tests.R:34:3'): Check preprocessing ─────────────────────────────────
Error in `irlba(x, nv = nPcs, nu = 0, center = cm, right_only = FALSE,
fastpath = fastpath, maxit = maxit, reorth = TRUE, ...)`: function 'as_cholmod_sparse' not provided by package 'Matrix'
Backtrace:
▆
1. └─crm$doPreprocessing(min.transcripts.per.cell = 0, min.cells.per.gene = 0) at tests.R:34:3
2. └─base::lapply(...)
3. └─pagoda2 (local) FUN(X[[i]], ...)
4. └─p2$calculatePcaReduction(...)
5. └─irlba::irlba(...)
── Error ('tests.R:41:3'): Check embedding object ──────────────────────────────
Error in `crm$createEmbedding(arg.embedGraph = list(method = "largeVis"))`: No preprocessed count matrices found, please run doPreprocessing.
Backtrace:
▆
1. └─crm$createEmbedding(arg.embedGraph = list(method = "largeVis")) at tests.R:41:3
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 3 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-macos-arm64