CRAN Package Check Results for Maintainer ‘Zhang Renliang <zhang_renliang at 163.com>’

Last updated on 2025-10-30 08:51:58 CET.

Package	ERROR	OK
geneHapR	5	8
lolliplot	2	11

Package geneHapR

Current CRAN status: ERROR: 5, OK: 8

Version: 1.2.4
Check: examples
Result: ERROR Running examples in ‘geneHapR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: LDheatmap > ### Title: This function produces a pairwise LD plot. > ### Aliases: LDheatmap plot_LDheatmap > > ### ** Examples > > # Pass LDheatmap a SnpMatrix object > data(geneHapR_test) > plot_LDheatmap(hap = hapResult, + gff = gff, + Chr = hapResult[1,2], + start = 4000, end = 8200) Warning in LDheatmap(gdat, gff = gff, Chr = Chr, start = start, end = end, : Only bi-alleles supported,Variables with less or more than 2 allels will be omitted. Loading required namespace: GenomeInfoDb Failed with error: ‘there is no package called ‘GenomeInfoDb’’ Error in h(simpleError(msg, call)) : error in evaluating the argument 'i' in selecting a method for function '[': unable to load required package ‘GenomeInfoDb’ Calls: plot_LDheatmap ... vapply -> FUN -> is -> getClassDef -> .requirePackage Execution halted Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Version: 1.2.4
Check: examples
Result: ERROR Running examples in ‘geneHapR-Ex.R’ failed The error most likely occurred in: > ### Name: LDheatmap > ### Title: This function produces a pairwise LD plot. > ### Aliases: LDheatmap plot_LDheatmap > > ### ** Examples > > # Pass LDheatmap a SnpMatrix object > data(geneHapR_test) > plot_LDheatmap(hap = hapResult, + gff = gff, + Chr = hapResult[1,2], + start = 4000, end = 8200) Warning in LDheatmap(gdat, gff = gff, Chr = Chr, start = start, end = end, : Only bi-alleles supported,Variables with less or more than 2 allels will be omitted. Loading required namespace: GenomeInfoDb Failed with error: ‘there is no package called ‘GenomeInfoDb’’ Error in h(simpleError(msg, call)) : error in evaluating the argument 'i' in selecting a method for function '[': unable to load required package ‘GenomeInfoDb’ Calls: plot_LDheatmap ... vapply -> FUN -> is -> getClassDef -> .requirePackage Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-x86_64

Version: 1.2.4
Check: package dependencies
Result: ERROR Package required but not available: ‘rtracklayer’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavor: r-patched-linux-x86_64

Package lolliplot

Current CRAN status: ERROR: 2, OK: 11

Version: 0.2.2
Check: examples
Result: ERROR Running examples in ‘lolliplot-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: lolliplot > ### Title: Lolliplots > ### Aliases: lolliplot > > ### ** Examples > > SNP <- c(10, 100, 105, 108, 400, 410, 420, 600, 700, 805, 840, 1400, 1402) > x <- sample.int(100, length(SNP)) > SNP.gr <- GenomicRanges::GRanges("chr1", IRanges::IRanges(SNP, width=1, names=paste0("snp", SNP)), + value1=x, value2=100-x) > SNP.gr$color <- rep(list(c("red", 'blue')), length(SNP)) > SNP.gr$border <- sample.int(7, length(SNP), replace=TRUE) > features <- GenomicRanges::GRanges( + "chr1", IRanges::IRanges( + c(1, 501, 1001), + width=c(120, 500, 405), + names=paste0("block", 1:3)), + color="black", + fill=c("#FF8833", "#51C6E6", "#DFA32D"), + height=c(0.1, 0.05, 0.08), + label.parameter.rot=45) > lolliplot(SNP.gr, features, type="pie") Error in S4Vectors:::load_package_gracefully("XVector", "by the range() method ", : Could not load package XVector. Is it installed? Note that the XVector package is required by the range() method for CompressedIRangesList objects. Please install it with: BiocManager::install("XVector") Calls: lolliplot ... .local -> .range_CompressedIRangesList -> <Anonymous> Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.2.2
Check: examples
Result: ERROR Running examples in ‘lolliplot-Ex.R’ failed The error most likely occurred in: > ### Name: lolliplot > ### Title: Lolliplots > ### Aliases: lolliplot > > ### ** Examples > > SNP <- c(10, 100, 105, 108, 400, 410, 420, 600, 700, 805, 840, 1400, 1402) > x <- sample.int(100, length(SNP)) > SNP.gr <- GenomicRanges::GRanges("chr1", IRanges::IRanges(SNP, width=1, names=paste0("snp", SNP)), + value1=x, value2=100-x) > SNP.gr$color <- rep(list(c("red", 'blue')), length(SNP)) > SNP.gr$border <- sample.int(7, length(SNP), replace=TRUE) > features <- GenomicRanges::GRanges( + "chr1", IRanges::IRanges( + c(1, 501, 1001), + width=c(120, 500, 405), + names=paste0("block", 1:3)), + color="black", + fill=c("#FF8833", "#51C6E6", "#DFA32D"), + height=c(0.1, 0.05, 0.08), + label.parameter.rot=45) > lolliplot(SNP.gr, features, type="pie") Error in S4Vectors:::load_package_gracefully("XVector", "by the range() method ", : Could not load package XVector. Is it installed? Note that the XVector package is required by the range() method for CompressedIRangesList objects. Please install it with: BiocManager::install("XVector") Calls: lolliplot ... .local -> .range_CompressedIRangesList -> <Anonymous> Execution halted Flavor: r-devel-linux-x86_64-fedora-clang