William Scott

Yes I already added pathways related to my paper into Yeast8 in PR #248 https://github.com/SysBioChalmers/yeast-GEM/pull/248 This new PR is based on new literature about sulfur metabolism. On Tue, Mar 29,...

@jotech Thanks for your reply! The error I got for 14DICHLORBENZDEG-PWY has been solved by using the latest version of gapseq. However, I still obtain the no model reactions found...

Hi there @jotech, Thanks for your quick response and guidance. I followed your advice and updated to the latest version of gapseq, and I'm happy to report that it did...

@jotech I tried running the latest version of gapseq with the added dehalogenation reactions from 3 days ago. However, I still obtain the no model reactions found error. This is...

Hi @jotech, Thank you for your message and for your assistance so far. I am still experiencing difficulties adding the reactions and pathways, and I don't believe I have a...

@vmspereira Can you or anyone else help me with this? I can also provide the accompanying files if needed. Thanks in advance!

Hi @cdanielmachado I revised my script to call each model separately for the SteadyCom function. Despite these adjustments, I am still encountering errors related to the Gurobi solver. Below are...

Hi @cdanielmachado Thanks for your reply! Yes, indeed the SteadyCom function works fine when using CPLEX as the solver.

Hi @cdiener By "stall," I mean that the analysis runs for an extended period without reaching a solution, eventually terminating due to solver iteration limits or not finding a solution....

Hi @cdiener, no problem. Yes all models were generated using Carveme and are able to grow and when constrained under the medium conditions, the growth rates are roughly between 0.05...