Last updated on 2024-12-23 12:49:44 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| CorMID | 13 | ||
| CorrectOverloadedPeaks | 2 | 11 | |
| eCerto | 13 | ||
| HiResTEC | 13 | ||
| InterpretMSSpectrum | 13 | ||
| IsoCor | 13 | ||
| MetabolomicsBasics | 1 | 2 | 10 |
Current CRAN status: OK: 13
Current CRAN status: NOTE: 2, OK: 11
Version: 1.3.3
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘xcms’
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: OK: 13
Current CRAN status: ERROR: 1, NOTE: 2, OK: 10
Version: 1.4.5
Check: examples
Result: ERROR
Running examples in ‘MetabolomicsBasics-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ReplaceMissingValues
> ### Title: ReplaceMissingValues.
> ### Aliases: ReplaceMissingValues
>
> ### ** Examples
>
> # load raw data and sample description
> raw <- MetabolomicsBasics::raw
> sam <- MetabolomicsBasics::sam
>
> idx <- apply(raw, 2, CheckForOutliers, group = sam$GT, n_sd = 5, method = "logical")
> sum(idx) # 215 values would be classified as outlier using a five-sigma band
[1] 215
> old_vals <- raw[idx] # keep outlier values for comparison
> raw_filt <- raw
> raw_filt[idx] <- NA
> raw_means <- apply(raw, 2, function(x) {
+ sapply(split(x, sam$GT), mean, na.rm = TRUE)[as.numeric(sam$GT)]
+ })[idx]
> raw_repl <- ReplaceMissingValues(x = raw_filt)
Error in verify_suggested("mixOmics") :
The use of this function requires packagemixOmics. Please install.
Calls: ReplaceMissingValues -> verify_suggested
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
CheckForOutliers 3.846 0.048 5.572
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.4.5
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking: 'ropls', 'xcms'
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64