Ecell

Latest version: v4.1.4

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4.1.4

(2018-03-13)

If you want to download E-Cell4 whl files, see https://pypi.python.org/pypi/ecell

Features

* Remove VacantType::getInstance() ([57bc37fe](https://github.com/ecell/ecell4/commit/57bc37fe))
* Add VacantType::allocate ([bd9c34b9](https://github.com/ecell/ecell4/commit/bd9c34b9))
* Add OneToManyMap ([27c21ad9](https://github.com/ecell/ecell4/commit/27c21ad9))
* 183 Add an utility to generate equations in the LaTeX format ([08803d86](https://github.com/ecell/ecell4/commit/08803d86))
* 129 139 Dump a brief description of the given Model ([0adc4e97](https://github.com/ecell/ecell4/commit/0adc4e97))
* extras::parse_version_information allows boost::regex and std::tr1::regex ([1a916a60](https://github.com/ecell/ecell4/commit/1a916a60))
* Add the get_neighbor() and move_to_neighbor() to OffLatticeSpace ([ad14e335](https://github.com/ecell/ecell4/commit/ad14e335))
* Add num_neighbors() function to LatticeSpace ([ab9b6b36](https://github.com/ecell/ecell4/commit/ab9b6b36))
* Add the implementations of can_move() and move() to OffLatticeSpace ([6dded0e9](https://github.com/ecell/ecell4/commit/6dded0e9))
* Add a test for ParticleSpace ([cd15c2b9](https://github.com/ecell/ecell4/commit/cd15c2b9))
* Add the default behavior for ParticleSpace::volume ([dc8e5ce3](https://github.com/ecell/ecell4/commit/dc8e5ce3))
* 159 Add TimingTrajectoryObserver ([b8047eac](https://github.com/ecell/ecell4/commit/b8047eac))
* Add OffLatticeSpace class ([a137eac1](https://github.com/ecell/ecell4/commit/a137eac1))
* Add VoxelSpaceBase class ([db14ad62](https://github.com/ecell/ecell4/commit/db14ad62))
* Extend CSVObserver(s) for users to set own format ([4bb9f5d7](https://github.com/ecell/ecell4/commit/4bb9f5d7))
* 146 Save std::string with no limitation in its length ([413ad479](https://github.com/ecell/ecell4/commit/413ad479))
* 146 Save std::string with no limitation in its length ([23297155](https://github.com/ecell/ecell4/commit/23297155))
* Add the DataSource module ([c681497e](https://github.com/ecell/ecell4/commit/c681497e))

Bug Fixes

* Add an include line to VoxelSpaceBase.hpp ([4e6cf058](https://github.com/ecell/ecell4/commit/4e6cf058))
* Use get_location_serial in SpatiocyteWorld ([8b5303f5](https://github.com/ecell/ecell4/commit/8b5303f5))
* Fix a null pointer bug ([ef7be264](https://github.com/ecell/ecell4/commit/ef7be264))
* Avoid dangerous default value, [] and {} ([a1cb436c](https://github.com/ecell/ecell4/commit/a1cb436c))
* TransparentCallback inherits Callback class ([8624ef1c](https://github.com/ecell/ecell4/commit/8624ef1c))
* 169 A single variable could be parsed as a rate law ([150f294e](https://github.com/ecell/ecell4/commit/150f294e))
* Revert the HDF5 module ([5de49b2b](https://github.com/ecell/ecell4/commit/5de49b2b))
* 173 revert HDF5Writers (except LatticeSpaceHDF5Writer) to v4.0.8 ([15532882](https://github.com/ecell/ecell4/commit/15532882))
* Do not forget to add a new file ([213707f6](https://github.com/ecell/ecell4/commit/213707f6))
* The function must return some value ([13ea320c](https://github.com/ecell/ecell4/commit/13ea320c))
* Fix the bug of OffLatticeSpace::move_to_neighbor() ([170a611d](https://github.com/ecell/ecell4/commit/170a611d))
* Rename get_voxel(coordinate) to get_voxel_at(coordinate) in the python world ([133dcd0b](https://github.com/ecell/ecell4/commit/133dcd0b))
* Rename get_voxel(coordinate) to get_voxel_at(coordinate) in the python world ([44b054a1](https://github.com/ecell/ecell4/commit/44b054a1))
* Fix a critical bug related to ParticleSpaceCellListImpl::remove_particle ([facd73ff](https://github.com/ecell/ecell4/commit/facd73ff))
* Add a patch when merging ([f2593dc4](https://github.com/ecell/ecell4/commit/f2593dc4))
* H5std_string in struct doesn't work with scalar DataSet ([2591e25b](https://github.com/ecell/ecell4/commit/2591e25b))
* Fix the bug of VoxelSpaceBase ([99f3a3f3](https://github.com/ecell/ecell4/commit/99f3a3f3))
* Donot forget fi ([0492ddfb](https://github.com/ecell/ecell4/commit/0492ddfb))
* Can not perform a '--user' in the virtualenv ([bae8ccd8](https://github.com/ecell/ecell4/commit/bae8ccd8))
* python is not placed at /usr/bin on linux ([6ab791bd](https://github.com/ecell/ecell4/commit/6ab791bd))
* Travis does not support Python3 on osx ([7e4ba8a2](https://github.com/ecell/ecell4/commit/7e4ba8a2))
* Oops! Fix a silly typo ([8ae7b224](https://github.com/ecell/ecell4/commit/8ae7b224))
* Add an unnecessary option when installing ([87c44b36](https://github.com/ecell/ecell4/commit/87c44b36))
* Fix a wrong switching about the availability of shared libraries ([47fd0855](https://github.com/ecell/ecell4/commit/47fd0855))
* Fix the walk_on_surface() ([d23a6595](https://github.com/ecell/ecell4/commit/d23a6595))
* Donot search another neighbor once finding the one ([092597cf](https://github.com/ecell/ecell4/commit/092597cf))
* Uncomment LatticeSpace_test ([0588a40e](https://github.com/ecell/ecell4/commit/0588a40e))
* Remove needless functions ([7698d214](https://github.com/ecell/ecell4/commit/7698d214))
* Allow to deepcopy ParseObj ([c78d45a8](https://github.com/ecell/ecell4/commit/c78d45a8))

4.1.3

(2018-01-24)

If you want to download E-Cell4 whl files, see https://pypi.python.org/pypi/ecell

Features

* 183 Add an utility to generate equations in the LaTeX format ([08803d86](https://github.com/ecell/ecell4/commit/08803d86))
* 129 139 Dump a brief description of the given Model ([0adc4e97](https://github.com/ecell/ecell4/commit/0adc4e97))
* extras::parse_version_information allows boost::regex and std::tr1::regex ([1a916a60](https://github.com/ecell/ecell4/commit/1a916a60))
* Add the get_neighbor() and move_to_neighbor() to OffLatticeSpace ([ad14e335](https://github.com/ecell/ecell4/commit/ad14e335))
* Add num_neighbors() function to LatticeSpace ([ab9b6b36](https://github.com/ecell/ecell4/commit/ab9b6b36))
* Add the implementations of can_move() and move() to OffLatticeSpace ([6dded0e9](https://github.com/ecell/ecell4/commit/6dded0e9))
* Add a test for ParticleSpace ([cd15c2b9](https://github.com/ecell/ecell4/commit/cd15c2b9))
* Add the default behavior for ParticleSpace::volume ([dc8e5ce3](https://github.com/ecell/ecell4/commit/dc8e5ce3))
* 159 Add TimingTrajectoryObserver ([b8047eac](https://github.com/ecell/ecell4/commit/b8047eac))
* Add OffLatticeSpace class ([a137eac1](https://github.com/ecell/ecell4/commit/a137eac1))
* Add VoxelSpaceBase class ([db14ad62](https://github.com/ecell/ecell4/commit/db14ad62))
* Extend CSVObserver(s) for users to set own format ([4bb9f5d7](https://github.com/ecell/ecell4/commit/4bb9f5d7))
* 146 Save std::string with no limitation in its length ([413ad479](https://github.com/ecell/ecell4/commit/413ad479))
* 146 Save std::string with no limitation in its length ([23297155](https://github.com/ecell/ecell4/commit/23297155))
* Add the DataSource module ([c681497e](https://github.com/ecell/ecell4/commit/c681497e))

Bug Fixes

* Fix a null pointer bug ([ef7be264](https://github.com/ecell/ecell4/commit/ef7be264))
* Avoid dangerous default value, [] and {} ([a1cb436c](https://github.com/ecell/ecell4/commit/a1cb436c))
* TransparentCallback inherits Callback class ([8624ef1c](https://github.com/ecell/ecell4/commit/8624ef1c))
* 169 A single variable could be parsed as a rate law ([150f294e](https://github.com/ecell/ecell4/commit/150f294e))
* Revert the HDF5 module ([5de49b2b](https://github.com/ecell/ecell4/commit/5de49b2b))
* 173 revert HDF5Writers (except LatticeSpaceHDF5Writer) to v4.0.8 ([15532882](https://github.com/ecell/ecell4/commit/15532882))
* Do not forget to add a new file ([213707f6](https://github.com/ecell/ecell4/commit/213707f6))
* The function must return some value ([13ea320c](https://github.com/ecell/ecell4/commit/13ea320c))
* Fix the bug of OffLatticeSpace::move_to_neighbor() ([170a611d](https://github.com/ecell/ecell4/commit/170a611d))
* Rename get_voxel(coordinate) to get_voxel_at(coordinate) in the python world ([133dcd0b](https://github.com/ecell/ecell4/commit/133dcd0b))
* Rename get_voxel(coordinate) to get_voxel_at(coordinate) in the python world ([44b054a1](https://github.com/ecell/ecell4/commit/44b054a1))
* Fix a critical bug related to ParticleSpaceCellListImpl::remove_particle ([facd73ff](https://github.com/ecell/ecell4/commit/facd73ff))
* Add a patch when merging ([f2593dc4](https://github.com/ecell/ecell4/commit/f2593dc4))
* H5std_string in struct doesn't work with scalar DataSet ([2591e25b](https://github.com/ecell/ecell4/commit/2591e25b))
* Fix the bug of VoxelSpaceBase ([99f3a3f3](https://github.com/ecell/ecell4/commit/99f3a3f3))
* Donot forget fi ([0492ddfb](https://github.com/ecell/ecell4/commit/0492ddfb))
* Can not perform a '--user' in the virtualenv ([bae8ccd8](https://github.com/ecell/ecell4/commit/bae8ccd8))
* python is not placed at /usr/bin on linux ([6ab791bd](https://github.com/ecell/ecell4/commit/6ab791bd))
* Travis does not support Python3 on osx ([7e4ba8a2](https://github.com/ecell/ecell4/commit/7e4ba8a2))
* Oops! Fix a silly typo ([8ae7b224](https://github.com/ecell/ecell4/commit/8ae7b224))
* Add an unnecessary option when installing ([87c44b36](https://github.com/ecell/ecell4/commit/87c44b36))
* Fix a wrong switching about the availability of shared libraries ([47fd0855](https://github.com/ecell/ecell4/commit/47fd0855))
* Fix the walk_on_surface() ([d23a6595](https://github.com/ecell/ecell4/commit/d23a6595))
* Donot search another neighbor once finding the one ([092597cf](https://github.com/ecell/ecell4/commit/092597cf))
* Uncomment LatticeSpace_test ([0588a40e](https://github.com/ecell/ecell4/commit/0588a40e))

4.1.2

(2017-04-12)

If you want to download E-Cell4 whl files, see https://pypi.python.org/pypi/ecell

Bug Fixes

* The version in Windows HDF5 is still 4.1.0 177

4.1.1

(2017-04-07)

You can upgrade E-Cell4 with `pip install -U ecell`.
If you want to download E-Cell4 whl files, please see https://pypi.python.org/pypi/ecell/4.1.1

The whl files for Windows depend on HDF5 version 1.8.17.

Bug Fixes

* HDF5, corrupted double-linked list 173

4.1.0

(2017-03-17)

If you want to download E-Cell4 whl files for Linux, please see https://github.com/ecell/ecell4-manylinux/releases/tag/v4.1.0

The wheels for Windows depend on HDF5 version **1.8.17**.

Features

* extras::parse_version_information allows boost::regex and std::tr1::regex (https://github.com/ecell/ecell4/commit/1a916a60)
* Add the get_neighbor() and move_to_neighbor() to OffLatticeSpace (https://github.com/ecell/ecell4/commit/ad14e335)
* Add num_neighbors() function to LatticeSpace (https://github.com/ecell/ecell4/commit/ab9b6b36)
* Add the implementations of can_move() and move() to OffLatticeSpace (https://github.com/ecell/ecell4/commit/6dded0e9)
* Add a test for ParticleSpace (https://github.com/ecell/ecell4/commit/cd15c2b9)
* Add the default behavior for ParticleSpace::volume (https://github.com/ecell/ecell4/commit/dc8e5ce3)
* 159 Add TimingTrajectoryObserver (https://github.com/ecell/ecell4/commit/b8047eac)
* Add OffLatticeSpace class (https://github.com/ecell/ecell4/commit/a137eac1)
* Add VoxelSpaceBase class (https://github.com/ecell/ecell4/commit/db14ad62)
* Extend CSVObserver(s) for users to set own format (https://github.com/ecell/ecell4/commit/4bb9f5d7)
* 146 Save std::string with no limitation in its length (https://github.com/ecell/ecell4/commit/413ad479)
* Add the DataSource module (https://github.com/ecell/ecell4/commit/c681497e)

Bug Fixes

* The function must return some value (https://github.com/ecell/ecell4/commit/13ea320c)
* Fix the bug of OffLatticeSpace::move_to_neighbor() (https://github.com/ecell/ecell4/commit/170a611d)
* Rename get_voxel(coordinate) to get_voxel_at(coordinate) in the python world (https://github.com/ecell/ecell4/commit/44b054a1)
* Fix a critical bug related to ParticleSpaceCellListImpl::remove_particle (https://github.com/ecell/ecell4/commit/facd73ff)
* Add a patch when merging (https://github.com/ecell/ecell4/commit/f2593dc4)
* H5std_string in struct doesn't work with scalar DataSet (https://github.com/ecell/ecell4/commit/2591e25b)
* Fix the bug of VoxelSpaceBase (https://github.com/ecell/ecell4/commit/99f3a3f3)
* Add an unnecessary option when installing (https://github.com/ecell/ecell4/commit/87c44b36)
* Fix a wrong switching about the availability of shared libraries (https://github.com/ecell/ecell4/commit/47fd0855)
* Fix the walk_on_surface() (https://github.com/ecell/ecell4/commit/d23a6595)
* Donot search another neighbor once finding the one (https://github.com/ecell/ecell4/commit/092597cf)
* Remove needless functions (https://github.com/ecell/ecell4/commit/7698d214)
* Allow to deepcopy ParseObj (https://github.com/ecell/ecell4/commit/c78d45a8)

4.0.8

Fix the delocate mistake issue 157

(2017/02/01)
added Python36 support for Windows

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