diff --git a/bigg_models/model_dumper.py b/bigg_models/model_dumper.py index 42fbfc3..082f6f4 100644 --- a/bigg_models/model_dumper.py +++ b/bigg_models/model_dumper.py @@ -18,7 +18,7 @@ def autodetect_model_polisher(): """Return the path to ModelPolisher.""" return abspath(join(dirname(__file__), '..', 'bin', - 'ModelPolisher-1.3.jar')) + 'ModelPolisher-1.5.jar')) def make_all_static_models(): @@ -97,7 +97,8 @@ def write_static_model(bigg_id, model_polisher_path=None): '--check-mass-balance=true', '--omit-generic-terms=false', '--log-level=INFO', - '--include-any-uri=false'] + '--include-any-uri=false', + '--annotate-with-bigg=true'] polish_result = call(command) print('Polishing finished in %.2f seconds' % (time.time() - t)) if polish_result == 0: diff --git a/bin/ModelPolisher-1.3.jar b/bin/ModelPolisher-1.3.jar deleted file mode 100644 index d0d4f4e..0000000 Binary files a/bin/ModelPolisher-1.3.jar and /dev/null differ diff --git a/bin/ModelPolisher-1.5.jar b/bin/ModelPolisher-1.5.jar new file mode 100644 index 0000000..1b7ba81 Binary files /dev/null and b/bin/ModelPolisher-1.5.jar differ