merge_community function producing error

[nbutyrate]

Hi

I had created several models using following workflow

carve Enterococcus_faecium_EF2_pro --fbc2 -o Enterococcus_faecium_EF2.xml

then i tried to merge them, to create a community model, but it produced the following error

python /home/naseer/Desktop/Metabolic_Modelling/John_gut/proteins/Merge_community.py *.xml --no-community-biomass /root/miniconda2/lib/python2.7/site-packages/framed/model/cbmodel.py:366: UserWarning: No biomass reaction detected warnings.warn(w, UserWarning) Traceback (most recent call last): File "/home/naseer/Desktop/Metabolic_Modelling/John_gut/proteins/Merge_community.py", line 91, in outputfile=args.output) File "/home/naseer/Desktop/Metabolic_Modelling/John_gut/proteins/Merge_community.py", line 29, in main merged = community.generate_merged_model() File "/root/miniconda2/lib/python2.7/site-packages/framed/community/model.py", line 281, in generate_merged_model raise RuntimeError("Biomass reaction not found in models: {}".format("', '".join(models_missing_biomass))) RuntimeError: Biomass reaction not found in models: Porphyromonas_asaccharolytica', 'Porphyromonas_bennonis', 'Ruminococcus_torques', 'Streptococcus_anginosus', 'Streptococcus_salivarius

[cdanielmachado]

Hi, I wasn't able to reproduce your error. Can you tell me which versions of CarveMe and framed you have installed?

[nbutyrate]

Hi Daniel I have installed the following

framed-0.4.0.

carveme-1.0.0.

regards

Naseer

[cdanielmachado]

Can you update to CarveMe 1.1.0 and see if the error persists ?