I've been attempting to run the examples from the GeneGA vignette but am getting an error message when I attempt to run the second block of code. The block of code in question is:
seqfile = system.file("sequence","EGFP.fasta",package="GeneGA")
seq = unlist(getSequence(read.fasta(seqfile),as.string=TRUE))
GeneGA.result = GeneGA(sequence=seq,popSize=40,iters=150,crossoverRate=0.3,mutationChance=0.05,region=c(1,60),organism="ec",showGeneration=FALSE)
The error message, produced by the last line of code, is:
Error in system(paste("echo ", x, "|RNAfold", sep = ""), intern = T) : 'echo' not found
Has anyone else encountered this, and does anyone know how to fix it? Thanks.
R version 3.3.3 (2017-03-06) Platform: i386-w64-mingw32/i386 (32-bit) Running under: Windows 7 x64 (build 7601) Service Pack 1 locale:  LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252  LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages:  stats graphics grDevices utils datasets methods base other attached packages:  BiocInstaller_1.24.0 GeneGA_1.24.0 hash_2.2.6 seqinr_3.4-5 timeDate_3012.100 gtools_3.5.0  RODM_1.1 sendmailR_1.2-1 R2wd_1.5 qcc_2.7 WriteXLS_4.0.0 xlsx_0.5.7  xlsxjars_0.6.1 rJava_0.9-8 RODBC_1.3-15 loaded via a namespace (and not attached):  MASS_7.3-47 tools_3.3.3 ade4_1.7-8 base64enc_0.1-3