Last updated on 2019-12-21 10:47:53 CET.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 1.0-2 | 13.37 | 153.49 | 166.86 | ERROR | |
r-devel-linux-x86_64-debian-gcc | 1.0-2 | 12.41 | 117.64 | 130.05 | ERROR | |
r-devel-linux-x86_64-fedora-clang | 1.0-2 | 219.10 | OK | |||
r-devel-linux-x86_64-fedora-gcc | 1.0-2 | 210.28 | OK | |||
r-devel-windows-ix86+x86_64 | 1.0-2 | 45.00 | 262.00 | 307.00 | OK | |
r-devel-windows-ix86+x86_64-gcc8 | 1.0-2 | 51.00 | 252.00 | 303.00 | OK | |
r-patched-linux-x86_64 | 1.0-2 | OK | ||||
r-patched-solaris-x86 | 1.0-2 | 256.70 | OK | |||
r-release-linux-x86_64 | 1.0-2 | 12.80 | 140.74 | 153.54 | OK | |
r-release-windows-ix86+x86_64 | 1.0-2 | 30.00 | 222.00 | 252.00 | OK | |
r-release-osx-x86_64 | 1.0-2 | WARN | ||||
r-oldrel-windows-ix86+x86_64 | 1.0-2 | 16.00 | 159.00 | 175.00 | OK | |
r-oldrel-osx-x86_64 | 1.0-2 | WARN |
Version: 1.0-2
Check: examples
Result: ERROR
Running examples in 'PCRedux-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: encu
> ### Title: A function to calculate numerous features from amplification
> ### curve data from a quantitative PCR experiment.
> ### Aliases: encu
> ### Keywords: intercept normalization preprocessing slope
>
> ### ** Examples
>
>
> # Calculate curve features of an amplification curve data. Note that not all
> # available CPU cores are used. If need set "all" to use all available cores.
> # In this example the testdat data set from the qpcR package is used.
> # The samples F1.1 and F1.2 are positive amplification curves. The samples
> # F1.3 and F1.4 are negative.
>
> library(qpcR)
Loading required package: MASS
Loading required package: minpack.lm
Loading required package: rgl
Loading required package: robustbase
Loading required package: Matrix
> res_encu <- encu(testdat[, 1:3])
Loading required package: bcp
Loading required package: grid
Error in cor.test.default(cycle_RFU[!is.na(cycle_RFU_n)], cycle_RFU_n[!is.na(cycle_RFU_n)], :
not enough finite observations
Calls: encu ... pcrfit_single -> <Anonymous> -> <Anonymous> -> cor.test.default
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0-2
Check: tests
Result: ERROR
Running 'spelling.R' [0s/1s]
Running 'testthat.R' [8s/11s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(PCRedux)
>
> test_check("PCRedux")
-- 1. Error: encu is a function to calculate numerous features from amplificatio
not enough finite observations
Backtrace:
1. PCRedux::encu(testdat[, 1:2])
3. pbapply::pblapply(...)
4. base::lapply(X, FUN, ...)
5. PCRedux:::FUN(X[[i]], ...)
6. PCRedux::pcrfit_single(data_RFU[, ith_run])
7. PCRedux::autocorrelation_test(y = dat_smoothed)
9. stats:::cor.test.default(...)
-- 2. Error: pcrfit_single gives the correct dimensions and properties (@test_pc
not enough finite observations
Backtrace:
1. PCRedux::pcrfit_single(RAS002[, 2])
2. PCRedux::autocorrelation_test(y = dat_smoothed)
4. stats:::cor.test.default(...)
== testthat results ===========================================================
[ OK: 46 | SKIPPED: 0 | WARNINGS: 4 | FAILED: 2 ]
1. Error: encu is a function to calculate numerous features from amplification curve data from a quantitative PCR experiment (@test_encu.R#7)
2. Error: pcrfit_single gives the correct dimensions and properties (@test_pcrfit_single.R#6)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0-2
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/1s]
Running ‘testthat.R’ [6s/9s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(PCRedux)
>
> test_check("PCRedux")
── 1. Error: encu is a function to calculate numerous features from amplificatio
not enough finite observations
Backtrace:
1. PCRedux::encu(testdat[, 1:2])
3. pbapply::pblapply(...)
4. base::lapply(X, FUN, ...)
5. PCRedux:::FUN(X[[i]], ...)
6. PCRedux::pcrfit_single(data_RFU[, ith_run])
7. PCRedux::autocorrelation_test(y = dat_smoothed)
9. stats:::cor.test.default(...)
── 2. Error: pcrfit_single gives the correct dimensions and properties (@test_pc
not enough finite observations
Backtrace:
1. PCRedux::pcrfit_single(RAS002[, 2])
2. PCRedux::autocorrelation_test(y = dat_smoothed)
4. stats:::cor.test.default(...)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 46 | SKIPPED: 0 | WARNINGS: 4 | FAILED: 2 ]
1. Error: encu is a function to calculate numerous features from amplification curve data from a quantitative PCR experiment (@test_encu.R#7)
2. Error: pcrfit_single gives the correct dimensions and properties (@test_pcrfit_single.R#6)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0-2
Check: whether package can be installed
Result: WARN
Found the following significant warnings:
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: dependencies in R code
Result: NOTE
No protocol specified
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: S3 generic/method consistency
Result: WARN
No protocol specified
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: replacement functions
Result: WARN
No protocol specified
The argument of a replacement function which corresponds to the right
hand side must be named ‘value’.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: foreign function calls
Result: NOTE
No protocol specified
See chapter ‘System and foreign language interfaces’ in the ‘Writing R
Extensions’ manual.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: R code for possible problems
Result: NOTE
No protocol specified
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: for missing documentation entries
Result: WARN
No protocol specified
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: for code/documentation mismatches
Result: WARN
No protocol specified
No protocol specified
No protocol specified
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 1.0-2
Check: Rd \usage sections
Result: NOTE
No protocol specified
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavors: r-release-osx-x86_64, r-oldrel-osx-x86_64