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User defined constraints#996

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Hemant27031999 wants to merge 80 commits intoopencobra:developencobra/cobrapy:develfrom Hemant27031999:UserDefinedConstraintsHemant27031999/cobrapy:UserDefinedConstraintsCopy head branch name to clipboard

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Commits

Commits on Jun 4, 2020

• added annotation class

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  782b645

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• made some modifications

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Commits on Jun 9, 2020

• made the complete metadata package

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Commits on Jun 10, 2020

• modified meta_data classes

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Commits on Jun 11, 2020

• modified classes to look exactly like dictionaries and lists

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• modified imports and incorporated SBO term in metadata

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  committed
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Commits on Jun 13, 2020

• made the classed to inherit from MutableSequence and MutableMapping

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Commits on Jun 15, 2020

• adding backward compatibility

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• added instance

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• work on annotation structure

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• adding json example

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• fixed instance2

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• work on cvterms

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Commits on Jun 18, 2020

• made backward compatible

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  committed
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• code review metadata

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Commits on Jun 21, 2020

• cleaned the metadata class by putting code in respective classes

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Commits on Jun 23, 2020

• new annotation format supported for SBML to cobra model

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Commits on Jun 24, 2020

• added io for json and other formats

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Commits on Jun 25, 2020

• added tests for new annotation format

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  c9e904b

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• updated history

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  a6e2f8a

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Commits on Jun 28, 2020

• fixing broken tests

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  23f9699

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• commented a few methods

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Commits on Jun 29, 2020

• added equal method inisde metadata classes

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Commits on Jun 30, 2020

• modified directories paths

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  d467a14

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• fixed imports and tox tests

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  e4cc72b

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Commits on Jul 1, 2020

• solved the problem of annotation copy

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Commits on Jul 2, 2020

• new notes format

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  a07ccaf

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• code refactoring

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  f69a55c

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Commits on Jul 4, 2020

• modified history, keyvaluepair and notes

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  e4ab40b

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Commits on Jul 5, 2020

• modified tests and imports

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Commits on Jul 6, 2020

• modified cvterm class

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  committed
  a3685d4

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Commits on Jul 9, 2020

• small fixes

  matthiaskoenig

  committed
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Commits on Jul 12, 2020

• refactored a few names

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  committed
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Commits on Jul 15, 2020

• modified notes documentation

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  0e20a91

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Commits on Jul 16, 2020

• added user defined constraint class

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  committed
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• example test cases

  matthiaskoenig

  committed
  f93723b

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Commits on Jul 23, 2020

• added tests for UserDefinedConstraints

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  committed
  efcf064

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• modified tests

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  3039344

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Commits on Jul 26, 2020

• small modifications

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  committed
  d5dedc9

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• moved cobra directory to src directory

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  f839755

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• solved conflicts

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  9704a4b

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• fixed some tests

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  committed
  211bf48

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• fixed conflicts and tests

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  1dba21e

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Commits on Jul 27, 2020

• fixed tests

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  90c156f

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• added support of group to JSON

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Commits on Jul 28, 2020

• added support for optional ids in UserDefinedConstraint class

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Commits on Jul 30, 2020

• added test for json validation function

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  committed
  de2398d

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• added json schema import requirement

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  54809ad

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• added helper function for UserDefinedConstraint

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  c758bc5

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• added validate function for json models

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  5c5e2c2

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Commits on Aug 5, 2020

• added ast tree for parsing constraint expression

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  committed
  0884f4a

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Commits on Aug 6, 2020

• modified json validation function

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  0f93cdd

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• removed python 2 support

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  3da58be

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• modified ids in json

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  8ec5ef2

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• code refactoring

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  committed
  d2d8ee9

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Commits on Aug 9, 2020

• reformatted code to python 3

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  committed
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Commits on Aug 15, 2020

• added datetime validation for py3.6

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  80fdcaa

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• modified dict.py

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• modified xfail

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• removed .idea files

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• removed .idea

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Commits on Aug 16, 2020

• merged with devel

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• removed idea

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Commits on Aug 21, 2020

• modified notes string passing

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Commits on Aug 26, 2020

• modified notes return type

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• adding dependency for json validation

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• added .idea files

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• merged latest devel

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• refactored and cleanup of history

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• Intermediate refactoring, breaking changes

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  a6aefc5

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• refactored keyvaluepairs

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  42f4838

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• cleanup of datetimes

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  b3e26cc

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• cleanup metadata

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• cleanup dict methods

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Commits on Aug 27, 2020

• added to_dict for CVTerm and fixed models

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• added metadata.ipynb

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  c8b850a

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• fixed imports

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• Merge branch 'devel' into metadata_fbc3_group

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  b951dbd

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• smaller fix to_dict usage

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  e5b3fba

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Commits on Aug 28, 2020

• modified to_dict for cvterms

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  committed
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