Last updated on 2024-11-09 02:48:54 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.0 | 18.10 | 252.92 | 271.02 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.0 | 14.97 | 176.41 | 191.38 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1.0 | 458.58 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.0 | 457.51 | OK | |||
| r-devel-windows-x86_64 | 1.1.0 | 24.00 | 409.00 | 433.00 | OK | |
| r-patched-linux-x86_64 | 1.1.0 | 22.34 | 240.05 | 262.39 | NOTE | |
| r-release-linux-x86_64 | 1.1.0 | 19.55 | 237.41 | 256.96 | NOTE | |
| r-release-macos-arm64 | 1.1.0 | 130.00 | ERROR | |||
| r-release-macos-x86_64 | 1.1.0 | 186.00 | ERROR | |||
| r-release-windows-x86_64 | 1.1.0 | 23.00 | 413.00 | 436.00 | NOTE | |
| r-oldrel-macos-arm64 | 1.1.0 | 132.00 | ERROR | |||
| r-oldrel-macos-x86_64 | 1.1.0 | 177.00 | ERROR | |||
| r-oldrel-windows-x86_64 | 1.1.0 | 29.00 | 586.00 | 615.00 | NOTE |
Version: 1.1.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘ArchR’
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.1.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'ArchR', 'TxDb.Hsapiens.UCSC.hg38.refGene',
'TxDb.Hsapiens.UCSC.hg19.knownGene', 'BSgenome.Hsapiens.UCSC.hg19'
Flavors: r-release-macos-arm64, r-release-macos-x86_64
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [46s/57s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(MOCHA)
>
> test_check("MOCHA")
Loading required package: chromVARmotifs
harmonizing input:
removing 1 sampleMap rows not in names(experiments)
harmonizing input:
removing 3 sampleMap rows not in names(experiments)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
══ Skipped tests (23) ══════════════════════════════════════════════════════════
• BSgenome.Hsapiens.UCSC.hg19 cannot be loaded (3):
'test_combineSampleTileMatrix.R:2:1', 'test_dimensionalityReduction.R:1:1',
'test_testCoAccessibility.R:2:1'
• On CRAN (20): 'test_COVID_data_pipeline.R:1:1', 'test_MotifEnrichment.R:1:1',
'test_MotifSetEnrichmentAnalysis.R:1:1', 'test_addMotifSet.R:1:1',
'test_callOpenTiles.R:3:1', 'test_exportCoverage.R:1:1',
'test_extractRegion.R:1:1', 'test_getCoAccessibleLinks.R:22:3',
'test_getCoAccessibleLinks.R:53:3', 'test_getCoverage.R:1:1',
'test_getDifferentialAccessibleTiles.R:1:1', 'test_getPopFrags.R:13:1',
'test_getSampleTileMatrix.R:18:3', 'test_packMOCHA.R:1:1',
'test_plotRegion.R:1:1', 'test_subsetMOCHAObject.R:13:3',
'test_subsetMOCHAObject.R:25:3', 'test_subsetMOCHAObject.R:67:3',
'test_subsetMOCHAObject.R:97:3', 'test_subsetMOCHAObject.R:127:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_exportDifferentials.R:28:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportDifferentials(...) at test_exportDifferentials.R:28:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
── Error ('test_exportOpenTiles.R:13:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportOpenTiles(...) at test_exportOpenTiles.R:13:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
Error: Test failures
Execution halted
Flavor: r-release-macos-arm64
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [75s/84s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(MOCHA)
>
> test_check("MOCHA")
Loading required package: chromVARmotifs
harmonizing input:
removing 1 sampleMap rows not in names(experiments)
harmonizing input:
removing 3 sampleMap rows not in names(experiments)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
══ Skipped tests (23) ══════════════════════════════════════════════════════════
• BSgenome.Hsapiens.UCSC.hg19 cannot be loaded (3):
'test_combineSampleTileMatrix.R:2:1', 'test_dimensionalityReduction.R:1:1',
'test_testCoAccessibility.R:2:1'
• On CRAN (20): 'test_COVID_data_pipeline.R:1:1', 'test_MotifEnrichment.R:1:1',
'test_MotifSetEnrichmentAnalysis.R:1:1', 'test_addMotifSet.R:1:1',
'test_callOpenTiles.R:3:1', 'test_exportCoverage.R:1:1',
'test_extractRegion.R:1:1', 'test_getCoAccessibleLinks.R:22:3',
'test_getCoAccessibleLinks.R:53:3', 'test_getCoverage.R:1:1',
'test_getDifferentialAccessibleTiles.R:1:1', 'test_getPopFrags.R:13:1',
'test_getSampleTileMatrix.R:18:3', 'test_packMOCHA.R:1:1',
'test_plotRegion.R:1:1', 'test_subsetMOCHAObject.R:13:3',
'test_subsetMOCHAObject.R:25:3', 'test_subsetMOCHAObject.R:67:3',
'test_subsetMOCHAObject.R:97:3', 'test_subsetMOCHAObject.R:127:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_exportDifferentials.R:28:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportDifferentials(...) at test_exportDifferentials.R:28:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
── Error ('test_exportOpenTiles.R:13:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportOpenTiles(...) at test_exportOpenTiles.R:13:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
Error: Test failures
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.1.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'ArchR', 'TxDb.Hsapiens.UCSC.hg38.refGene'
Flavors: r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 1.1.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'ArchR', 'motifmatchr', 'TxDb.Hsapiens.UCSC.hg38.refGene',
'BSgenome.Hsapiens.UCSC.hg19', 'chromVAR'
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [44s/53s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(MOCHA)
>
> test_check("MOCHA")
Loading required package: chromVARmotifs
harmonizing input:
removing 1 sampleMap rows not in names(experiments)
harmonizing input:
removing 3 sampleMap rows not in names(experiments)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
══ Skipped tests (23) ══════════════════════════════════════════════════════════
• BSgenome.Hsapiens.UCSC.hg19 cannot be loaded (1):
'test_dimensionalityReduction.R:1:1'
• On CRAN (20): 'test_COVID_data_pipeline.R:1:1', 'test_MotifEnrichment.R:1:1',
'test_MotifSetEnrichmentAnalysis.R:1:1', 'test_addMotifSet.R:1:1',
'test_callOpenTiles.R:3:1', 'test_exportCoverage.R:1:1',
'test_extractRegion.R:1:1', 'test_getCoAccessibleLinks.R:22:3',
'test_getCoAccessibleLinks.R:53:3', 'test_getCoverage.R:1:1',
'test_getDifferentialAccessibleTiles.R:1:1', 'test_getPopFrags.R:13:1',
'test_getSampleTileMatrix.R:18:3', 'test_packMOCHA.R:1:1',
'test_plotRegion.R:1:1', 'test_subsetMOCHAObject.R:13:3',
'test_subsetMOCHAObject.R:25:3', 'test_subsetMOCHAObject.R:67:3',
'test_subsetMOCHAObject.R:97:3', 'test_subsetMOCHAObject.R:127:3'
• chromVAR cannot be loaded (2): 'test_combineSampleTileMatrix.R:1:1',
'test_testCoAccessibility.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_exportDifferentials.R:28:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportDifferentials(...) at test_exportDifferentials.R:28:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
── Error ('test_exportOpenTiles.R:13:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportOpenTiles(...) at test_exportOpenTiles.R:13:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-macos-arm64
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [71s/81s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(MOCHA)
>
> test_check("MOCHA")
Loading required package: chromVARmotifs
harmonizing input:
removing 1 sampleMap rows not in names(experiments)
harmonizing input:
removing 3 sampleMap rows not in names(experiments)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
══ Skipped tests (23) ══════════════════════════════════════════════════════════
• BSgenome.Hsapiens.UCSC.hg19 cannot be loaded (1):
'test_dimensionalityReduction.R:1:1'
• On CRAN (20): 'test_COVID_data_pipeline.R:1:1', 'test_MotifEnrichment.R:1:1',
'test_MotifSetEnrichmentAnalysis.R:1:1', 'test_addMotifSet.R:1:1',
'test_callOpenTiles.R:3:1', 'test_exportCoverage.R:1:1',
'test_extractRegion.R:1:1', 'test_getCoAccessibleLinks.R:22:3',
'test_getCoAccessibleLinks.R:53:3', 'test_getCoverage.R:1:1',
'test_getDifferentialAccessibleTiles.R:1:1', 'test_getPopFrags.R:13:1',
'test_getSampleTileMatrix.R:18:3', 'test_packMOCHA.R:1:1',
'test_plotRegion.R:1:1', 'test_subsetMOCHAObject.R:13:3',
'test_subsetMOCHAObject.R:25:3', 'test_subsetMOCHAObject.R:67:3',
'test_subsetMOCHAObject.R:97:3', 'test_subsetMOCHAObject.R:127:3'
• chromVAR cannot be loaded (2): 'test_combineSampleTileMatrix.R:1:1',
'test_testCoAccessibility.R:1:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_exportDifferentials.R:28:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportDifferentials(...) at test_exportDifferentials.R:28:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
── Error ('test_exportOpenTiles.R:13:3'): exportDifferentials works on a 3 sample test dataset ──
Error in `.stopOnAvailablePkg(genome)`: BSgenome.Hsapiens.UCSC.hg19 package is not currently installed.
You first need to install it, which you can do with:
library(BiocManager)
install("BSgenome.Hsapiens.UCSC.hg19")
Backtrace:
▆
1. └─MOCHA::exportOpenTiles(...) at test_exportOpenTiles.R:13:3
2. └─BSgenome::getBSgenome(S4Vectors::metadata(SampleTileObject)$Genome)
3. └─BSgenome:::.getInstalledPkgnameFromGenome(genome, masked = masked)
4. └─BSgenome:::.stopOnAvailablePkg(genome)
[ FAIL 2 | WARN 13 | SKIP 23 | PASS 21 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-macos-x86_64