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EricArcher / strataG

strataG is a toolkit for haploid sequence and multilocus genetic data summaries, and analyses of population structure.
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Problems to run FastSimCoal with strataG r #18

Closed juan1610 closed 4 years ago

juan1610 commented 6 years ago

Dear Eric I have some issues to run FastSimCoal with strataG r I am following the scripts to simulate http://onlinelibrary.wiley.com/store/10.1111/1755-0998.12559/asset/supinfo/men12559-sup-0001-AppendixS1.R?v=1&s=de6dcdaf0c2c298d4ba925ea282432429d203d80

Although I have setting the Path to setwd("C:/Users/JuanM/Desktop/SIMULATION IN ECOLOGY AN GENETIC/FASTSIMCOAL/fsc_win64") But wen I tried to run an error appears in the R console I'm using Rstudio and R 3.4.1 and Windows 10

Error in fastsimcoal(pop.info, msat.params, mig.rates, hist.ev) : fastsimcoal exited with error 1 In addition: Warning messages: 1: running command 'C:\WINDOWS\system32\cmd.exe /c fsc252 -i fsc.run.par -n 1 -q -S ' had status 1 2: In shell(cmd.line, intern = F) : 'fsc252 -i fsc.run.par -n 1 -q -S ' execution failed with error code 1

sim.sub <- lapply(c(50, 100, 500), function(x) {

  • ran.loc <- sample(locNames(sim.msats), x)
  • sim.msats[, ran.loc, ]

Any advice because I'm interested to use FastSimCoal with strataG r Thanks in advance Have a good day Dr. Juan Manuel Penaloza Ramirez Secretaría de Desarrollo Institucional Torre de Rectoría 8° piso, Ciudad Universitaria, UNAM

EricArcher commented 6 years ago

This appears to be an error generated by fastsimcoal and not R or strataG. To help diagnose, in the fastsimcoal function, add the argument delete.files = FALSE and re-run. Then in the folder that has the file fsc.run.par, on the command line, run fsc252 -i fsc.run.par -n 1 -q -S and examine the error that is returned.