(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
(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