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ModelSEED / ModelSEEDDatabase

This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno approach
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Print_Master_Reactions_List.pl requires genEquationCode() method #1

Closed mmundy42 closed 9 years ago

mmundy42 commented 9 years ago

Just a reminder that the Print_Master_Reactions_List.pl script requires a Bio::KBase::ObjectAPI::KBaseBiochem::Reaction object that has a genEquationCode() method.

samseaver commented 9 years ago

You will find that function in this branch in my fork:

https://github.com/samseaver/KBaseFBAModeling/tree/CompartmentFree

At some point, I have to merge the master branch with this, but I need to double-check everything will still work.

samseaver commented 9 years ago

So, I was able to pull updates for the master branch of KBaseFBAModeling and then merge the CompartmentFree branch in my fork. However, I just realized that though I've been working on using the API available in KBaseFBAModeling, ProbModelSEED has its own copy of the API.

So, @cshenry the question is, moving forward, while developing the biochemistry in ModelSEEDDatabase, should I use KBaseFBAModeling or ProbModelSEED?

chian commented 9 years ago

I would assume ProbModelSEED moving forward

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On Jul 6, 2015, at 6:02 PM, samseaver notifications@github.com wrote:

So, I was able to pull updates for the master branch of KBaseFBAModeling and then merge the CompartmentFree branch in my fork. However, I just realized that though I've been working on using the API available in KBaseFBAModeling, ProbModelSEED has its own copy of the API.

So, @cshenry the question is, moving forward, while developing the biochemistry in ModelSEEDDatabase, should I use KBaseFBAModeling or ProbModelSEED?

— Reply to this email directly or view it on GitHub.

cshenry commented 9 years ago

Really, you should try and keep corrections posted in both. But ProbModelSEED is the priority.

On Jul 6, 2015, at 6:02 PM, samseaver notifications@github.com wrote:

So, I was able to pull updates for the master branch of KBaseFBAModeling and then merge the CompartmentFree branch in my fork. However, I just realized that though I've been working on using the API available in KBaseFBAModeling, ProbModelSEED has its own copy of the API.

So, @cshenry the question is, moving forward, while developing the biochemistry in ModelSEEDDatabase, should I use KBaseFBAModeling or ProbModelSEED?

� Reply to this email directly or view it on GitHub.

mmundy42 commented 9 years ago

This is resolved by ModelSEED/ProbModelSEED#41.