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kbaseattic / KBaseFBAModeling

Flux balance modeling service. Deploys both the client and service codes.
MIT License
6 stars 11 forks source link

fix returning all items that match query in get_compounds(),get_reactions() #15

Closed mmundy42 closed 10 years ago

mmundy42 commented 10 years ago

(1) Fixed the get_compounds() and get_reactions() methods to return all items that match the query. Previously the methods returned the first match but there can be multiple items in the biochemistry database that are a match. (2) Added --biochem and --biochemws arguments to the fba-getcompounds and fba-getreactions commands to take advantage of support already provided by the server methods. (3) Updated the export_genome() method to support a 'genomeTO' format to return the genome in the format used by the genome annotation service.

mmundy42 commented 10 years ago

Missed one other change ... (4) Removed old commands from the deploy-kbscripts rule in the Makefile so a 'make deploy' completes successfully.