5.2.2. `cobramod.error`¶

Errors for CobraMod

This module creates special errors for CobraMod. Read each error for their explanation.

5.2.2.1. Module Contents¶

exception cobramod.error.NoDelimiter(string: str)¶

Simple Error that should be raised when a string does not include the delimiter “|”

exception cobramod.error.GraphKeyError¶

Bases: Exception

Simple Error that should be raised when a value is missing as key in a graph

exception cobramod.error.FoundInPairError¶

Bases: Exception

Simple Error that is raised when the pair of a PairDictionary has already given key name.

exception cobramod.error.NodeAttributeError¶

Bases: Exception

Simple Error that should be raised when a cobramod.visualization.Node() cannot identify its type.

exception cobramod.error.WrongParserError¶

Bases: Exception

Simple Error that should be raised if a method cannot handle the parsing.

exception cobramod.error.WrongDataError¶

Bases: Exception

Simple Error that should be raised if COBRApy object is not the correct one.

exception cobramod.error.WrongSyntax¶

Bases: Exception

Simple Error that should be raised if a specific syntax is invalid. For instance, when strings do not have a certain number of items when splitted.

exception cobramod.error.PatternNotFound¶

Bases: Exception

Simple error that should be raised when a pattern is not found in a item. e.g. a substring.

exception cobramod.error.NoIntersectFound¶

Bases: Exception

Simple error that should be raised when no intersect is found between two sets.

exception cobramod.error.NoGeneInformation¶

Bases: Exception

Simple error that should be raised when given object has no gene information in the database.

exception cobramod.error.AbbreviationWarning¶

Simple Warning that should be raised when given abbreviation does not exists.

exception cobramod.error.SuperpathwayWarning¶

Simple Warning that should be raised if a pathway is identified as a Superpathway

exception cobramod.error.UnbalancedReaction(identifier: str, dict_balance: str)¶

Simple Error that should be raised if a reaction has wrong mass balance.

exception cobramod.error.NotInRangeError(reaction: cobra.Reaction)¶

Simple Error that should be raised if, after adding a reaction, the optimized value, is not in range.