Commit ba917a68 authored by Raquel Bromberg's avatar Raquel Bromberg

Code now writes mobile elements to separate directory mobkept/ and path to mobkept/ fixed

parent 262e8216
......@@ -457,14 +457,12 @@ int main(int argc, char* argv[])
if(i<ref_set_size) //if current organism is a reference org
{
faa_out=path+"/"+bfn+"/"+"/FAA_ref_mobelim/"+orgdir+"/mobelim.faa";
// faa_out2=path+"/"+bfn+"/"+"/FAA_ref_mobkept/"+orgdir+"/mobkept.faa";
faa_out2="/sbg/zo_mega_d1/rbromb/Project1/RUNS/20160216_Ecoli/mobs_unc3/FAA_ncsv_10_3/"+orgdir+"/mobkept.faa";
faa_out2=path+"/"+bfn+"/"+"/FAA_ref_mobkept/"+orgdir+"/mobkept.faa";
}
else
{
faa_out=path+"/"+bfn+"/"+"/FAA_mobelim/"+orgdir+"/mobelim.faa";
// faa_out2=path+"/"+bfn+"/"+"/FAA_mobkept/"+orgdir+"/mobkept.faa";
faa_out2="/sbg/zo_mega_d1/rbromb/Project1/RUNS/20160216_Ecoli/mobs_unc3/FAA_ncsv_10_3/"+orgdir+"/mobkept.faa";
faa_out2=path+"/"+bfn+"/"+"/FAA_mobkept/"+orgdir+"/mobkept.faa";
}
if(write_out_mefiltered)
......
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