Last updated on 2024-03-28 15:49:45 CET.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 0.1.5 | 1.71 | 24.81 | 26.52 | OK | |
r-devel-linux-x86_64-debian-gcc | 0.1.5 | 1.53 | 19.22 | 20.75 | OK | |
r-devel-linux-x86_64-fedora-clang | 0.1.5 | 34.14 | OK | |||
r-devel-linux-x86_64-fedora-gcc | 0.1.5 | 35.06 | OK | |||
r-devel-windows-x86_64 | 0.1.5 | 3.00 | 210.00 | 213.00 | ERROR | |
r-patched-linux-x86_64 | 0.1.5 | 1.88 | 24.13 | 26.01 | OK | |
r-release-linux-x86_64 | 0.1.5 | 1.99 | 23.62 | 25.61 | OK | |
r-release-macos-arm64 | 0.1.5 | 17.00 | OK | |||
r-release-macos-x86_64 | 0.1.5 | 21.00 | OK | |||
r-release-windows-x86_64 | 0.1.5 | 4.00 | 39.00 | 43.00 | OK | |
r-oldrel-macos-arm64 | 0.1.5 | 16.00 | OK | |||
r-oldrel-windows-x86_64 | 0.1.5 | 7.00 | 43.00 | 50.00 | OK |
Version: 0.1.5
Check: tests
Result: ERROR
Running 'readCdfBin.R' [172s]
Running 'readDcp.R' [0s]
Running 'readDcpRectangle.R' [1s]
Running the tests in 'tests/readCdfBin.R' failed.
Complete output:
> library("dChipIO")
dChipIO v0.1.5 (2016-01-12) successfully loaded. See ?dChipIO for help.
>
> path <- system.file("exData", package="dChipIO")
> chipType <- "Test3"
> filename <- sprintf("%s.CDF.bin", chipType)
> pathname <- file.path(path, filename)
>
> hdr <- readCdfBinHeader(pathname)
> print(hdr)
$FileName
[1] "C:\\Documents and Settings\\hb\\braju.com.R\\aroma.affymetrix\\reengineeringdChip\\annotationData\\Test3.CDF.bin"
$Format
[1] 4
$ChipType
[1] "Test3"
$CellDim
[1] 126
$NumUnit
[1] 345
>
> data <- readCdfBin(pathname)
> str(data)
List of 4
$ header :List of 5
..$ FileName: chr "C:\\Documents and Settings\\hb\\braju.com.R\\aroma.affymetrix\\reengineeringdChip\\annotationData\\Test3.CDF.bin"
..$ Format : int 4
..$ ChipType: chr "Test3"
..$ CellDim : int 126
..$ NumUnit : int 345
$ unitNames: chr [1:345] "Pae_16SrRNA_s_at" "Pae_23SrRNA_s_at" "PA1178_oprH_at" "PA1816_dnaQ_at" ...
$ numProbes: int [1:345] 32 32 24 24 24 24 24 32 32 24 ...
$ CellPos : int [1:345] 0 0 0 0 0 0 0 0 0 0 ...
>
> # Read a subset of the units
> units <- c(10:11, 15:20, 150:105, 2,2,2)
> dataT <- readCdfBin(pathname, units=units)
> str(dataT)
List of 4
$ header :List of 5
..$ FileName: chr "C:\\Documents and Settings\\hb\\braju.com.R\\aroma.affymetrix\\reengineeringdChip\\annotationData\\Test3.CDF.bin"
..$ Format : int 4
..$ ChipType: chr "Test3"
..$ CellDim : int 126
..$ NumUnit : int 345
$ unitNames: chr [1:57] "PA1178_oprH_st" "PA1816_dnaQ_st" "AFFX-Athal-Actin_5_r_at" "AFFX-Athal-Actin_M_at" ...
$ numProbes: int [1:57] 24 24 32 32 32 32 32 32 32 32 ...
$ CellPos : int [1:57] 0 0 0 0 0 0 0 0 0 0 ...
>
> # Assert correctness
> for (ff in c("unitNames", "numProbes", "CellPos")) {
+ stopifnot(length(dataT[[ff]]) == length(units))
+ stopifnot(identical(dataT[[ff]], data[[ff]][units]))
+ }
>
> proc.time()
user system elapsed
0.26 0.06 0.31
Flavor: r-devel-windows-x86_64