cdanielmachado / smetana

SMETANA: a tool to analyse interactions in microbial communities
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optimality is not an available tolerance parameter with this solver #42

Open LiZhihua1982 opened 10 months ago

LiZhihua1982 commented 10 months ago

(carveme) lizhihua@lizhihua-T640:/media/lizhihua/software/gapseq/gapseq/GJ89_bins$ smetana carveme/*.xml Traceback (most recent call last): File "/home/lizhihua/.local/lib/python3.8/site-packages/optlang/util.py", line 305, in getattr return self._functions[item][0]() KeyError: 'optimality'

During handling of the above exception, another exception occurred:

Traceback (most recent call last): File "/home/lizhihua/.local/bin/smetana", line 89, in main( File "/home/lizhihua/.local/lib/python3.8/site-packages/smetana/interface.py", line 341, in main entries, debug_entries = run_global(comm_id, community, organisms, medium_id, excluded_mets, env, File "/home/lizhihua/.local/lib/python3.8/site-packages/smetana/interface.py", line 132, in run_global mip, extras = mip_score(community, environment=env, verbose=verbose, File "/home/lizhihua/.local/lib/python3.8/site-packages/smetana/smetana.py", line 257, in mip_score noninteracting_medium, sol1 = minimal_medium(noninteracting.merged, exchange_reactions=exch_reactions, File "/home/lizhihua/.local/lib/python3.8/site-packages/reframed/cobra/medium.py", line 50, in minimal_medium solver = solver_instance(model) File "/home/lizhihua/.local/lib/python3.8/site-packages/reframed/solvers/init.py", line 76, in solver_instance return solverssolver File "/home/lizhihua/.local/lib/python3.8/site-packages/reframed/solvers/optlang_solver.py", line 29, in init Parameter.OPTIMALITY_TOL: self.problem.configuration.tolerances.optimality, File "/home/lizhihua/.local/lib/python3.8/site-packages/optlang/util.py", line 307, in getattr raise AttributeError(item + " is not an available tolerance parameter with this solver") AttributeError: optimality is not an available tolerance parameter with this solver