Last updated on 2025-12-21 11:50:41 CET.
| Package | ERROR | OK |
|---|---|---|
| strvalidator | 4 | 9 |
Current CRAN status: ERROR: 4, OK: 9
Version: 2.4.2
Check: examples
Result: ERROR
Running examples in ‘strvalidator-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: calculateHb
> ### Title: Calculate Heterozygote Balance
> ### Aliases: calculateHb
>
> ### ** Examples
>
> data(ref2)
> data(set2)
> # Calculate average balances.
> calculateHb(data = set2, ref = ref2)
'kit' not provided. Attempting auto detection.
Detected kit(s): SGMPlus
Extracting known alleles from dataset...
Using 'fast' allele filtering method.
This method discards NA alleles/loci/samples.
1 "NA" in 'Allele' converted to NA
Removed 1 rows where Allele=<NA>
Estimating size of alleles...
Error in `[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, :
attempt access index 6/6 in VECTOR_ELT
Calls: calculateHb -> [ -> [.data.table
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 2.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [57s/73s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ################################################################################
> # TODO LIST
> # TODO: Add test for calculateResultType and other functions.
>
> ################################################################################
> # CHANGE LOG
> # 24.12.2014: Second try, update to thestthat 0.8.1
> # 05.12.2013: Updated to thestthat 0.8
>
>
> # Load testthat package.
> library(testthat)
>
> # Run all tests.
> test_check(package = "strvalidator")
Loading required package: strvalidator
STR-validator 2.4.2 loaded!
Saving _problems/test-calculateAllT-51.R
Saving _problems/test-calculateHb-53.R
Saving _problems/test-calculateHeight-214.R
Saving _problems/test-calculateLb-38.R
Saving _problems/test-calculateStatistics-38.R
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-calculateAllT.r:46:3'): calculateAllT ──────────────────────────
Error in ``[.data.table`(DT, , `:=`(Observed, length(unique(Allele))), by = list(Sample.Name, Marker))`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-calculateAllT.r:46:3
2. │ └─base::withCallingHandlers(...)
3. └─strvalidator::calculateHeight(...)
4. └─strvalidator::calculateCopies(data = ref)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHb.r:53:3'): calculateHb ──────────────────────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateHb.r:53:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHeight.r:214:3'): calculateHeight ─────────────────────
Error in ``[.data.table`(DT, , `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name))`: attempt access index 4/4 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHeight(...) at test-calculateHeight.r:214:3
2. ├─DT[, `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateLb.r:34:3'): calculateLb ──────────────────────────────
Error in ``[.data.table`(res, , `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateLb(...) at test-calculateLb.r:34:3
2. ├─res[, `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateStatistics.r:38:3'): calculateStatistics ──────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateStatistics.r:38:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [36s/47s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ################################################################################
> # TODO LIST
> # TODO: Add test for calculateResultType and other functions.
>
> ################################################################################
> # CHANGE LOG
> # 24.12.2014: Second try, update to thestthat 0.8.1
> # 05.12.2013: Updated to thestthat 0.8
>
>
> # Load testthat package.
> library(testthat)
>
> # Run all tests.
> test_check(package = "strvalidator")
Loading required package: strvalidator
STR-validator 2.4.2 loaded!
Saving _problems/test-calculateAllT-51.R
Saving _problems/test-calculateHb-53.R
Saving _problems/test-calculateHeight-214.R
Saving _problems/test-calculateLb-38.R
Saving _problems/test-calculateStatistics-38.R
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-calculateAllT.r:46:3'): calculateAllT ──────────────────────────
Error in ``[.data.table`(DT, , `:=`(Observed, length(unique(Allele))), by = list(Sample.Name, Marker))`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-calculateAllT.r:46:3
2. │ └─base::withCallingHandlers(...)
3. └─strvalidator::calculateHeight(...)
4. └─strvalidator::calculateCopies(data = ref)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHb.r:53:3'): calculateHb ──────────────────────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateHb.r:53:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHeight.r:214:3'): calculateHeight ─────────────────────
Error in ``[.data.table`(DT, , `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name))`: attempt access index 4/4 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHeight(...) at test-calculateHeight.r:214:3
2. ├─DT[, `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateLb.r:34:3'): calculateLb ──────────────────────────────
Error in ``[.data.table`(res, , `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateLb(...) at test-calculateLb.r:34:3
2. ├─res[, `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateStatistics.r:38:3'): calculateStatistics ──────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateStatistics.r:38:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.4.2
Check: examples
Result: ERROR
Running examples in ‘strvalidator-Ex.R’ failed
The error most likely occurred in:
> ### Name: calculateHb
> ### Title: Calculate Heterozygote Balance
> ### Aliases: calculateHb
>
> ### ** Examples
>
> data(ref2)
> data(set2)
> # Calculate average balances.
> calculateHb(data = set2, ref = ref2)
'kit' not provided. Attempting auto detection.
Detected kit(s): SGMPlus
Extracting known alleles from dataset...
Using 'fast' allele filtering method.
This method discards NA alleles/loci/samples.
1 "NA" in 'Allele' converted to NA
Removed 1 rows where Allele=<NA>
Estimating size of alleles...
Error in `[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, :
attempt access index 6/6 in VECTOR_ELT
Calls: calculateHb -> [ -> [.data.table
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 2.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [88s/165s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ################################################################################
> # TODO LIST
> # TODO: Add test for calculateResultType and other functions.
>
> ################################################################################
> # CHANGE LOG
> # 24.12.2014: Second try, update to thestthat 0.8.1
> # 05.12.2013: Updated to thestthat 0.8
>
>
> # Load testthat package.
> library(testthat)
>
> # Run all tests.
> test_check(package = "strvalidator")
Loading required package: strvalidator
STR-validator 2.4.2 loaded!
Saving _problems/test-calculateAllT-51.R
Saving _problems/test-calculateHb-53.R
Saving _problems/test-calculateHeight-214.R
Saving _problems/test-calculateLb-38.R
Saving _problems/test-calculateStatistics-38.R
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-calculateAllT.r:46:3'): calculateAllT ──────────────────────────
Error in ``[.data.table`(DT, , `:=`(Observed, length(unique(Allele))), by = list(Sample.Name, Marker))`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-calculateAllT.r:46:3
2. │ └─base::withCallingHandlers(...)
3. └─strvalidator::calculateHeight(...)
4. └─strvalidator::calculateCopies(data = ref)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHb.r:53:3'): calculateHb ──────────────────────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateHb.r:53:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHeight.r:214:3'): calculateHeight ─────────────────────
Error in ``[.data.table`(DT, , `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name))`: attempt access index 4/4 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHeight(...) at test-calculateHeight.r:214:3
2. ├─DT[, `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateLb.r:34:3'): calculateLb ──────────────────────────────
Error in ``[.data.table`(res, , `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateLb(...) at test-calculateLb.r:34:3
2. ├─res[, `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateStatistics.r:38:3'): calculateStatistics ──────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateStatistics.r:38:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [87s/191s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ################################################################################
> # TODO LIST
> # TODO: Add test for calculateResultType and other functions.
>
> ################################################################################
> # CHANGE LOG
> # 24.12.2014: Second try, update to thestthat 0.8.1
> # 05.12.2013: Updated to thestthat 0.8
>
>
> # Load testthat package.
> library(testthat)
>
> # Run all tests.
> test_check(package = "strvalidator")
Loading required package: strvalidator
STR-validator 2.4.2 loaded!
Saving _problems/test-calculateAllT-51.R
Saving _problems/test-calculateHb-53.R
Saving _problems/test-calculateHeight-214.R
Saving _problems/test-calculateLb-38.R
Saving _problems/test-calculateStatistics-38.R
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-calculateAllT.r:46:3'): calculateAllT ──────────────────────────
Error in ``[.data.table`(DT, , `:=`(Observed, length(unique(Allele))), by = list(Sample.Name, Marker))`: attempt access index 3/3 in VECTOR_ELT
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-calculateAllT.r:46:3
2. │ └─base::withCallingHandlers(...)
3. └─strvalidator::calculateHeight(...)
4. └─strvalidator::calculateCopies(data = ref)
5. ├─...[]
6. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHb.r:53:3'): calculateHb ──────────────────────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateHb.r:53:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateHeight.r:214:3'): calculateHeight ─────────────────────
Error in ``[.data.table`(DT, , `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name))`: attempt access index 4/4 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHeight(...) at test-calculateHeight.r:214:3
2. ├─DT[, `:=`(Peaks, sum(!is.na(Height))), by = list(Sample.Name)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateLb.r:34:3'): calculateLb ──────────────────────────────
Error in ``[.data.table`(res, , `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateLb(...) at test-calculateLb.r:34:3
2. ├─res[, `:=`(Lb, TPH/TPPH), by = list(Sample.Name, Dye, Marker)]
3. └─data.table:::`[.data.table`(...)
── Error ('test-calculateStatistics.r:38:3'): calculateStatistics ──────────────
Error in ``[.data.table`(DT, !is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker))`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. └─strvalidator::calculateHb(...) at test-calculateStatistics.r:38:3
2. ├─DT[!is.na(Height), `:=`(Peaks, .N), list(Sample.Name, Marker)]
3. └─data.table:::`[.data.table`(...)
[ FAIL 5 | WARN 1 | SKIP 0 | PASS 3576 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc