This works fine and produces working models for some of my fasta files but for others the command just continuously runs (over several days) and does not complete. This seems to be a solver issue as these fasta files will complete with the cplex solver but I really need to use SCIP. I've read in other threads that SCIP should finish/timeout with a non optimal solution after 10 minutes but that isn't happening here.
Are there any suggestions as to why this isn't working or anything I can try to reach a solution using SCIP for these files?
I've been generating models from a range of bacterial isolates using my own custom media with the gapfill and init flags. Full command is:
carve --dna <fasta> --output <xml> --gapfill MRS --init MRS --mediadb mediadb.tsv --solver scipThis works fine and produces working models for some of my fasta files but for others the command just continuously runs (over several days) and does not complete. This seems to be a solver issue as these fasta files will complete with the cplex solver but I really need to use SCIP. I've read in other threads that SCIP should finish/timeout with a non optimal solution after 10 minutes but that isn't happening here.
Are there any suggestions as to why this isn't working or anything I can try to reach a solution using SCIP for these files?