CRAN Package Check Results for Package dartR.base

Last updated on 2026-05-04 05:51:45 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.2.3	54.56	384.86	439.42	OK
r-devel-linux-x86_64-debian-gcc	1.2.3	34.81	265.17	299.98	OK
r-devel-linux-x86_64-fedora-clang	1.2.3	94.00	605.95	699.95	ERROR
r-devel-linux-x86_64-fedora-gcc	1.2.3	46.00	285.88	331.88	ERROR
r-devel-windows-x86_64	1.2.3	50.00	355.00	405.00	ERROR
r-patched-linux-x86_64	1.2.3	48.03	384.03	432.06	OK
r-release-linux-x86_64	1.2.3	48.00	391.54	439.54	OK
r-release-macos-arm64	1.2.3	11.00	82.00	93.00	OK
r-release-macos-x86_64	1.2.3	33.00	361.00	394.00	OK
r-release-windows-x86_64	1.2.3	56.00	430.00	486.00	OK
r-oldrel-macos-arm64	1.2.3			4.00	ERROR
r-oldrel-macos-x86_64	1.2.3	34.00	233.00	267.00	ERROR
r-oldrel-windows-x86_64	1.2.3	77.00	570.00	647.00	OK

Check Details

Version: 1.2.3
Check: examples
Result: ERROR Running examples in ‘dartR.base-Ex.R’ failed The error most likely occurred in: > ### Name: gl.report.basics > ### Title: Basic statistics for a genlight object > ### Aliases: gl.report.basics > > ### ** Examples > > if (isTRUE(getOption("dartR_fbm"))) platypus.gl <- gl.gen2fbm(platypus.gl) > gl.report.basics(platypus.gl) Starting gl.report.basics SUMMARY STATISTICS Datatype: SNP Loci: 1000 Individuals: 81 Populations: 3 Average Read Depth: 31.3504 Values: 81000 Error in as.data.frame.numeric(x[[i]], optional = TRUE) : row names contain missing values Calls: gl.report.basics ... data.frame -> as.data.frame -> as.data.frame.numeric Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64

Version: 1.2.3
Check: package dependencies
Result: ERROR Packages required but not available: 'SNPRelate', 'snpStats' See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-oldrel-macos-arm64

Version: 1.2.3
Check: examples
Result: ERROR Running examples in ‘dartR.base-Ex.R’ failed The error most likely occurred in: > ### Name: gl.filter.ld > ### Title: Filters loci based on linkage disequilibrium (LD) > ### Aliases: gl.filter.ld > > ### ** Examples > > if ((requireNamespace("snpStats", quietly = TRUE)) & (requireNamespace("fields", quietly = TRUE))) { + test <- gl.filter.callrate(platypus.gl, threshold = 1) + test <- gl.filter.monomorphs(test) + report <- gl.report.ld.map(test) + res <- gl.filter.ld(x=test,ld.report = report) + } Starting gl.filter.callrate Processing genlight object with SNP data Warning: data include loci that are scored NA across all individuals. Consider filtering using gl <- gl.filter.allna(gl) Warning: Data may include monomorphic loci in call rate calculations for filtering Recalculating Call Rate Removing loci based on Call Rate, threshold = 1 Completed: gl.filter.callrate Starting gl.filter.monomorphs Processing genlight object with SNP data Identifying monomorphic loci Removing monomorphic loci and loci with all missing data Completed: gl.filter.monomorphs Starting gl.report.ld.map Processing genlight object with SNP data There is no information in the chromosome/position slot of the genlight object. Assigning the same chromosome ('1') to all the SNPs in the dataset. Assigning a sequence from 1 to n loci as the position of each SNP. Calculating LD for all possible SNP pair combinations Calculating pairwise LD in population SEVERN_ABOVE *** caught segfault *** address 0x1, cause 'memory not mapped' Traceback: 1: snpStats::ld(genotype_loci, genotype_loci, stats = ld.stat) 2: gl.report.ld.map(test) An irrecoverable exception occurred. R is aborting now ... Flavor: r-oldrel-macos-x86_64