• using R Under development (unstable) (2024-11-15 r87338)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (GCC) 14.2.0     GNU Fortran (GCC) 14.2.0
• running under: Fedora Linux 36 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘pould/DESCRIPTION’ ... OK
• this is package ‘pould’ version ‘1.0.1’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘pould’ can be installed ... [20s/25s] OK See the install log for details.
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [27s/34s] OK
• checking Rd files ... NOTE checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup?      5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().}        | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup?      5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().}        | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup?      5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().}        | ^ checkRd: (-1) LD.heat.map.Rd:5: Lost braces; missing escapes or markup?      5 | \title{Generates heat-maps for four linkage disequilibrium (LD) values ({D'}, {Wn}, {WLoc1/Loc2} and {WLoc2/Loc1}) generated for all pairs of phased and unphased two-locus haplotypes by LDWrap().}        | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup?     27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap().        | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup?     27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap().        | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup?     27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap().        | ^ checkRd: (-1) LD.sign.test.Rd:27: Lost braces; missing escapes or markup?     27 | Applies binom.test() to pairs of {D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and number of haplotypes values in the *_LD_results.csv files generated by LDWrap().        | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup?     24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values).        | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup?     24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values).        | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup?     24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values).        | ^ checkRd: (-1) LD.sign.test.Rd:24: Lost braces; missing escapes or markup?     24 | A data frame of five columns ({D'}, {Wn}, {WLoc1/Loc2}, {WLoc2/Loc1} and N_Haplotypes) and four rows (#unphased > phased, #unphased = phased, #locus pairs and p-values).        | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup?     33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated        | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup?     33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated        | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup?     33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated        | ^ checkRd: (-1) cALD.Rd:33: Lost braces; missing escapes or markup?     33 | A vector of {D'}, {Wn}, {WLocus2/Locus1}, {WLocus1/Locus2} values, and the number of haplotypes evaluated        | ^
• checking Rd metadata ... OK
• checking Rd line widths ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [10s/12s] OK
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [15s/18s] OK
• checking PDF version of manual ... [7s/11s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 NOTE