* using log directory 'd:/Rcompile/CRANpkg/local/3.6/ptm.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* checking for file 'ptm/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ptm' version '0.2.2'
* 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 'ptm' can be installed ... OK
* 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 R 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 ... [31s] OK
* checking Rd files ... OK
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking examples ... ERROR
Running examples in 'ptm-Ex.R' failed
The error most likely occurred in:

> ### Name: prot2codon
> ### Title: Find the Coding Triplets for a Given Protein
> ### Aliases: prot2codon
> 
> ### ** Examples
> 
> prot2codon('P01009')

*** WARNING *** Invalid character '*' in FASTA sequence data, ignored

*** WARNING *** Assuming Amino (see -seqtype option), invalid letters found: O
file10228366339df 2 seqs, max length 418, avg  length 216
4278 MB(26%)00:00:00                Iter   1   33.33%  K-mer dist pass 1
4278 MB(26%)00:00:00                Iter   1  100.00%  K-mer dist pass 1
4278 MB(26%)00:00:00                Iter   1   33.33%  K-mer dist pass 2
4278 MB(26%)00:00:00                Iter   1  100.00%  K-mer dist pass 2
4278 MB(26%)00:00:00                Iter   1  100.00%  Align node       
4278 MB(26%)00:00:00                Iter   1  100.00%  Align node
4278 MB(26%)00:00:00                Iter   1   50.00%  Root alignment
4278 MB(26%)00:00:00                Iter   1  100.00%  Root alignment
4278 MB(26%)00:00:00                Iter   1  100.00%  Root alignment
Warning in file.remove(tempIn, tempOut) :
  cannot remove file 'D:\temp\RtmpmGNWwn\file10228404a3a91.afa', reason 'Permission denied'
Error in `$<-.data.frame`(`*tmp*`, "codon", value = c("CTG", "GCA")) : 
  replacement has 2 rows, data has 1
Calls: prot2codon -> $<- -> $<-.data.frame
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [38s] OK
  Running 'testthat.R' [38s]
* checking PDF version of manual ... OK
* DONE
Status: 1 ERROR