• using R version 4.4.2 Patched (2024-12-13 r87451)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (Debian 14.2.0-8) 14.2.0     GNU Fortran (Debian 14.2.0-8) 14.2.0
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘AntAngioCOOL/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘AntAngioCOOL’ version ‘1.2’
• 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 serialization versions ... OK
• checking whether package ‘AntAngioCOOL’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [5s/7s] OK
• checking whether the package can be loaded with stated dependencies ... [5s/6s] OK
• checking whether the package can be unloaded cleanly ... [5s/6s] OK
• checking whether the namespace can be loaded with stated dependencies ... [5s/6s] OK
• checking whether the namespace can be unloaded cleanly ... [6s/7s] OK
• checking loading without being on the library search path ... [5s/7s] 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 ... [46s/60s] OK
• checking Rd files ... [0s/0s] NOTE checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^ checkRd: (-1) AntAngioCOOL.Rd:33: Lost braces; missing escapes or markup?     33 | 2- K-mer composition that shows the fraction of all possible subsequences with length k in the given peptide. To compute k-mer composition features, reduced amino acid alphabet that proposed by Zahiri et al (Zahiri et al., 2014) has been exploited: the 20 alphabet of amino acids have been reduced to a new alphabet with size 8 according to 544 physicochemical and biochemical indices that extracted from AAIndex database (Kawashima et al., 2008) (C1={A, E}, C2={I, L, F, M, V}, C3={N, D, T, S}, C4={G}, C5={P}, C6={R, K, Q, H}, C7={Y, W}, C8={C}). We have computed k-mer composition for k=2,3,4 for each peptide.        | ^
• 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 R/sysdata.rda ... OK
• checking examples ... [12s/15s] OK Examples with CPU (user + system) or elapsed time > 5s              user system elapsed AntAngioCOOL 6.53 0.39 8.459
• checking PDF version of manual ... [4s/5s] OK
• checking HTML version of manual ... [0s/0s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 NOTE