ipyrad/analysis/structure.py
def _call_structure(mname, ename, sname, name, workdir, seed, ntaxa, nsites, kpop, rep):
    """ make the subprocess call to structure """
    ## create call string
    outname = os.path.join(workdir, "{}-K-{}-rep-{}".format(name, kpop, rep))

    cmd = ["structure", 
           "-m", mname, 
           "-e", ename, 
           "-K", str(kpop),
           "-D", str(seed), 
           "-N", str(ntaxa), 
           "-L", str(nsites),
           "-i", sname, 
           "-o", outname]

    ## call the shell function
    proc = subprocess.Popen(cmd,
                            stdout=subprocess.PIPE, 
                            stderr=subprocess.STDOUT)
    comm = proc.communicate()

    ## cleanup
    oldfiles = [mname, ename, sname]
    for oldfile in oldfiles:
        if os.path.exists(oldfile):
            os.remove(oldfile)
    return comm
def _call_structure(mname, ename, sname, name, workdir, seed, ntaxa, nsites, kpop, rep):
    """ make the subprocess call to structure """
    ## create call string
    outname = os.path.join(workdir, "{}-K-{}-rep-{}".format(name, kpop, rep))

    cmd = ["structure", 
           "-m", mname, 
           "-e", ename, 
           "-K", str(kpop),
           "-D", str(seed), 
           "-N", str(ntaxa), 
           "-L", str(nsites),
           "-i", sname, 
           "-o", outname]

    ## call the shell function
    proc = subprocess.Popen(cmd,
                            stdout=subprocess.PIPE, 
                            stderr=subprocess.STDOUT)
    comm = proc.communicate()

    ## cleanup
    oldfiles = [mname, ename, sname]
    for oldfile in oldfiles:
        if os.path.exists(oldfile):
            os.remove(oldfile)
    return comm
def _call_structure ( mname , ename , sname , name , workdir , seed , ntaxa , nsites , kpop , rep ) : ## create call string outname = os . path . join ( workdir , "{}-K-{}-rep-{}" . format ( name , kpop , rep ) ) cmd = [ "structure" , "-m" , mname , "-e" , ename , "-K" , str ( kpop ) , "-D" , str ( seed ) , "-N" , str ( ntaxa ) , "-L" , str ( nsites ) , "-i" , sname , "-o" , outname ] ## call the shell function proc = subprocess . Popen ( cmd , stdout = subprocess . PIPE , stderr = subprocess . STDOUT ) comm = proc . communicate ( ) ## cleanup oldfiles = [ mname , ename , sname ] for oldfile in oldfiles : if os . path . exists ( oldfile ) : os . remove ( oldfile ) return comm
make the subprocess call to structure
make the subprocess call to structure