* using log directory 'd:/Rcompile/CRANpkg/local/4.4/ftrCOOL.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'ftrCOOL/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ftrCOOL' version '2.0.0'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'ftrCOOL' can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-release-windows-x86_64/ftrCOOL-00install.html' for details.
* checking installed package size ... OK
* checking package 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 ... [0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s] OK
* checking whether the package can be unloaded cleanly ... [0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s] OK
* checking loading without being on the library search path ... [0s] 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 ... [35s] OK
* checking Rd files ... [3s] NOTE
checkRd: (-1) MMI_DNA.Rd:20: Lost braces; missing escapes or markup?
20 | MMI computes mutual information based on 2-mers T2 = { AA, AC, AG, AT, CC, CG, CT, GG, GT, TT}
| ^
checkRd: (-1) MMI_DNA.Rd:21: Lost braces; missing escapes or markup?
21 | and 3-mers T3 = {AAA, AAC, AAG, AAT, ACC, ACG, ACT, AGG, AGT, ATT, CCC, CCG, CCT, CGG, CGT, CTT, GGG, GGT, GTT and TTT}
| ^
checkRd: (-1) MMI_RNA.Rd:20: Lost braces; missing escapes or markup?
20 | MMI computes mutual information based on 2-mers T2 = { AA, AC, AG, AU, CC, CG, CU, GG, GU, U}
| ^
checkRd: (-1) MMI_RNA.Rd:21: Lost braces; missing escapes or markup?
21 | and 3-mers T3 = {AAA, AAC, AAG, AAU, ACC, ACG, ACU, AGG, AGU, AUU, CCC, CCG, CCU, CGG, CGU, CUU, GGG, GGU, GUU and UUU}
| ^
checkRd: (-1) binary_5bit_T1.Rd:40: Lost braces; missing escapes or markup?
40 | Then represent group of amino acids by a 5 dimentional vector i.e.{e1, e2, e3, e4, e5}.
| ^
checkRd: (-1) binary_5bit_T1.Rd:41: Lost braces; missing escapes or markup?
41 | e1={G, A, V, L, M, I}, e2={F, Y, W}, e3={K, R, H}, e4={D, E}, e5={S, T, C, P, N, Q}. e1 is ecoded by 10000
| ^
checkRd: (-1) binary_5bit_T1.Rd:41: Lost braces; missing escapes or markup?
41 | e1={G, A, V, L, M, I}, e2={F, Y, W}, e3={K, R, H}, e4={D, E}, e5={S, T, C, P, N, Q}. e1 is ecoded by 10000
| ^
checkRd: (-1) binary_5bit_T1.Rd:41: Lost braces; missing escapes or markup?
41 | e1={G, A, V, L, M, I}, e2={F, Y, W}, e3={K, R, H}, e4={D, E}, e5={S, T, C, P, N, Q}. e1 is ecoded by 10000
| ^
checkRd: (-1) binary_5bit_T1.Rd:41: Lost braces; missing escapes or markup?
41 | e1={G, A, V, L, M, I}, e2={F, Y, W}, e3={K, R, H}, e4={D, E}, e5={S, T, C, P, N, Q}. e1 is ecoded by 10000
| ^
checkRd: (-1) binary_5bit_T1.Rd:41: Lost braces; missing escapes or markup?
41 | e1={G, A, V, L, M, I}, e2={F, Y, W}, e3={K, R, H}, e4={D, E}, e5={S, T, C, P, N, Q}. e1 is ecoded by 10000
| ^
checkRd: (-1) binary_6bit.Rd:40: Lost braces; missing escapes or markup?
40 | Then represent group of amino acids by a 6 dimentional vector i.e.{e1, e2, e3, e4, e5, e6}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
checkRd: (-1) binary_6bit.Rd:41: Lost braces; missing escapes or markup?
41 | e1={H, R, K}, e2={D, E, N, D}, e3={C}, e4={S, T, P, A, G}, e5={M, I, L, V}, e6={F, Y, W}.
| ^
* checking Rd metadata ... 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 examples ... [45s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [1s] OK
Running 'testthat.R' [0s]
* checking PDF version of manual ... [27s] OK
* checking HTML version of manual ... [27s] OK
* DONE
Status: 1 NOTE