Comments (2)
cdanielmachado
commented on June 12, 2024
Hi @arvindjs
This is caused by a bug in framed that was fixed but is not yet in the pypi respository.
Can you please update your version of framed using:
pip install -U https://github.com/cdanielmachado/framed/archive/master.zip
Also, for this model you should use --fbc2.
Let me know if this works.
from carveme.
arvindjs
commented on June 12, 2024
Yes, That seems to have fixed it. Thank you @cdanielmachado
Also, I found some reaction identifiers were not changed correctly. (Demand and sink reactions: They still had parentheses to denote compartments, do not know if that anything to do with the error though)
from carveme.
Related Issues (20)
- CarveMe ignores highly similar genes during the building of GPRs
- Solver error: pip release not corresponding to latest release
- CarveMe doesn’t satisfy the original protein complex definitions during the building of GPRs
- GPR rules and COBRA HOT 1
- Where to find the biomass equation for FBA?
- Problems gapfilling with CPLEX and Gurobi HOT 4
- Diamond version incompatible / TypeError: sequence item 0
- 'BiGG_gene' is both an index level and a column label, which is ambiguous.
- incompatibility with BIGG formula
- Biomass reaction in bacteria_universe sums to 1.03
- Error when giving user universe
- ImportError: cannot import name 'SCIPSolver' from 'reframed.solvers' HOT 9
- How to create a universe?
- I meet some errors when I use CarveMe for gap-filling HOT 4
- Is it necessary to use a VNC server for the modeling process using CarveMe?
- Having issues with cyanobacteria universe in latest version, and cplex installation for carveme version 1.4
- Do not work with scipy 1.12.0 HOT 2
- Hidden universe?
- First time installation issue
- SCIP with gap-filling and init HOT 5
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from carveme.