Metadata fbc3 group

.gitignore

@@ -87,6 +87,7 @@ ipython_config.py
 # Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839
 
 # User-specific stuff
+.idea/**/*.iml
 .idea/**/workspace.xml
 .idea/**/tasks.xml
 .idea/**/usage.statistics.xml
@@ -114,14 +115,15 @@ ipython_config.py
 # When using Gradle or Maven with auto-import, you should exclude module files,
 # since they will be recreated, and may cause churn.  Uncomment if using
 # auto-import.
-# .idea/artifacts
-# .idea/compiler.xml
-# .idea/jarRepositories.xml
-# .idea/modules.xml
-# .idea/*.iml
-# .idea/modules
-# *.iml
-# *.ipr
+ .idea/artifacts
+ .idea/compiler.xml
+ .idea/jarRepositories.xml
+ .idea/modules.xml
+ .idea/*.iml
+ .idea/*.xml
+ .idea/modules
+ *.iml
+ *.ipr
 
 # CMake
 cmake-build-*/
@@ -303,3 +305,5 @@ gurobi.log
 /documentation_builder/test*\.*
 /.benchmarks
 /.testmondata
+/.idea/sonarlint/
+/.idea/sonarlint/issuestore/

documentation_builder/getting_started.ipynb

@@ -40,7 +40,7 @@
     "import cobra\n",
     "from cobra.io import load_model\n",
     "\n",
-    "# \"iJO1366\" and \"salmonella\" are also valid arguments\n",
+    "# \"iJO1366\" and \"iYS1720\" are also valid arguments\n",
     "model = load_model(\"textbook\")"
    ]
   },

documentation_builder/loopless.ipynb

@@ -13014,7 +13014,7 @@
     }
    ],
    "source": [
-    "salmonella = load_model('salmonella')\n",
+    "salmonella = load_model('iYS1720')\n",
     "nominal = salmonella.optimize()\n",
     "loopless = loopless_solution(salmonella)"
    ]