From Optflux
Jump to: navigation, search
(Model-seed plug-in operations)
 
(37 intermediate revisions by the same user not shown)
Line 1: Line 1:
 
{{DISPLAYTITLE:Model-seed plug-in for OptFlux 3}}
 
{{DISPLAYTITLE:Model-seed plug-in for OptFlux 3}}
  
=== Model-seed plug-in operations ===
+
The Model-seed operations are located in the menu Plug-in Builder -> MSeed.<br />
 +
If the MS plug-in is not yet loaded in OptFlux, just go to to Plug-in Builder -> Create... and select the MS XML file, OptFlux will then automatically build the new plug-in.<br />
 +
In the log window (bottom of the OptFlux window) it is possible to see the communication between OptFlux and Model-seed and the commands that are being executed.
  
 
+
== Model-seed plug-in operations ==
*Login: operation to login in the local model-seed
+
[[File:Menu-ms.png]]
* Logout: operation to logout
+
*[[ms-loginout | Login: operation to login in the local model-seed]]
* Pull:
+
*[[ms-loginout | Logout: operation to logout]]
** Model: import a model from model-seed to OptFlux
+
*[[ms-pull | Pull (from MSeed to OptFlux):]]
** Media: import a media from model-seed to OptFlux
+
**[[ms-pull#Pull_model | Model: import a model from model-seed to OptFlux]]
* Commit:
+
**[[ms-pull#Pull_media | Media: import a media from model-seed to OptFlux]]
**Model: send a model from OptFlux to model-seed
+
* [[ms-commit | Commit (from OptFlux to MSeed):]]
**Media: send a media from OptFlux to model-seed
+
**[[ms-commit#Commit_model |Model: send a model from OptFlux to model-seed]]
== Operations ==
+
**[[ms-commit#Commit_media |Media: send a media from OptFlux to model-seed]]
*Merge Biochemistry: merge two biochemistries in local model-seed.
+
*[[merge-biochems | Merge Biochemistry: merge two biochemistries in local model-seed]]
*Import:
+
*[[ms-import | Import from server to local model-seed:]]
**Biochemistry: import biochemistry to local model-seed
+
**[[ms-import#Import_biochemistry | Biochemistry: import biochemistry]]
**Mappings: import mappings to local model-seed
+
**[[ms-import#Import_mappings | Mappings: import mappings ]]
**Genome: import annotation to local model-seed
+
**[[ms-import#Import_genome | Genome: import annotation]]
*Model:
+
*[[ms-model | Model]]
**Build: build a model in local model-seed
+
**[[ms-model | Build: build a model in local model-seed]]
**FBA
+
**[[ms-fba | FBA]]
** Wild Type:
+
***[[ms-fba#Wild-type_FBA | Wild Type]]
***Reaction KOs
+
***[[ms-fba#Reaction_KO_FBA | Reaction KO]]
 
+
***[[ms-fba#Gene_KO_FBA | Gene KO]]
 
 
*[[OptFlux3:CORE:NewProject|New project]]
 
**[[CORE:Readers:Drains | Drains Definition]]
 
**[[OptFlux Readers]]
 
***[[SBML Reader]]
 
***[[OptFlux3:MR | OptFlux Repository]]
 
***[[Flat Files Reader]]
 
***[[Table format Reader]]
 
***[[Cell Designer Reader]]
 
*[[OptFlux3:CORE:ImportProject | Import Project]]
 
*[[OptFlux3:SMP |Model Simplification]]
 
  
 
== Technical documentation for developers  ==
 
== Technical documentation for developers  ==
 
+
*[[Create a new plugin using the plugin builder (pdf)]]
*[[Create a new plugin using the plugin builder]]
 

Latest revision as of 18:18, 25 March 2013


The Model-seed operations are located in the menu Plug-in Builder -> MSeed.
If the MS plug-in is not yet loaded in OptFlux, just go to to Plug-in Builder -> Create... and select the MS XML file, OptFlux will then automatically build the new plug-in.
In the log window (bottom of the OptFlux window) it is possible to see the communication between OptFlux and Model-seed and the commands that are being executed.

Model-seed plug-in operations[edit]

Menu-ms.png

Technical documentation for developers[edit]