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gabora / visid

Visualization of Identifiability Problems in Dynamic Biochemical Models
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AMIGO_merge_struct error on running case study #1

Closed gabora closed 6 years ago

gabora commented 6 years ago

running B2 or tgfb case study results in an error:

Error using AMIGO_merge_struct (line 43)
Unrecognized field name stddeva in inputs.exps

Error in AMIGO_merge_struct (line 47)
        value=AMIGO_merge_struct(default.(default_names{j,:}),opts.(opt_names{i,:}),[parentName '.' default_names{j,:}]);

Error in AMIGO_check_model (line 76)
    inputs = AMIGO_merge_struct(inputs, input_file,'inputs');

Error in AMIGO_Structs_PE (line 57)
[inputs,results]=AMIGO_check_model(input_file,inputs_def);

Error in network2Cytoscape (line 27)
evalc('inputs = AMIGO_Structs_PE(inputs)');

Error in main_analyse_B2 (line 264)
network2Cytoscape(inputs,[cytoscapeFolder 'network'],id_param)
gabora commented 6 years ago

I was generating the “inputs” structure with AMIGO2016. In that version, stddeva was part of inputs.exps.

Apparently, this field should not be part of the input structure in all AMIGO versions.

We don't need these fields in the inputs structure for the identifiability analysis, so I removed them in the main_analysis *.m files.