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| # PyNWB Changelog | ||
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| ## PyNWB 1.3.1 (Upcoming) | ||
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| ### Bug fixes: | ||
| - Fix bugged `Device` constructor. @rly (#1209) | ||
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| ### Internal improvements: | ||
| - Update CI to use supported MacOS version. @rly (#1211) | ||
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| ## PyNWB 1.3.0 (Mar. 4, 2020) | ||
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| ### New features: | ||
| - Add support for nwb-schema 2.2.2. @rly (#1146) | ||
| - This is a large change. See the PR and schema release notes for more information: nwb-schema.readthedocs.io/en/latest/format_release_notes.html#march-2-2020 | ||
| - Validate against most specific namespace. @t-b, @rly (#1094) | ||
| - Replace 'ic_electrode' with 'icephys_electrode' in NWBFile. @oruebel (#1200) | ||
| - Integrate minor enhancements and bug fixes introduced in HDMF 1.6.0 and 1.6.1, including improved handling of namespaces that lack a version key, | ||
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| ### Internal improvements: | ||
| - Add nightly testing of validation CLI. @t-b, @rly (#1164, #1195, #1197) | ||
| - Treat ipython notebooks as binary in git. @t-b (#1168) | ||
| - Use proper file removal in tests. @t-b (#1165) | ||
| - Use hdmf-docutils instead of nwb-docutils for documentation. @jcfr (#1176) | ||
| - Run minimum requirements testing n Python 3.6. @rly (#1194) | ||
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| ### Bug fixes: | ||
| - Fix API documentation. @bendichter (#1159) | ||
| - Fix unit testing output. @rly (#1158) | ||
| - Fix copying files with Subject. @rly (#1171) | ||
| - Add "unit" attribute back as an optional attribute in icephys classes. @rly (#1188) | ||
| - Fix reported development status in setup.py. @rly (#1201) | ||
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| ## PyNWB 1.2.1 (Jan. 22, 2020) | ||
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| ### Bug fixes: | ||
| - Fix ReadTheDocs build. @rly (#1155) | ||
| - Update manifest to fix conda build. @rly (#1156) | ||
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| ## PyNWB 1.2.0 (Jan. 21, 2020) | ||
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| ### Minor enhancements: | ||
| - Add new logo to docs. @rly (#1096) | ||
| - Add warning when referencing electrode table before it exists. @ajtritt (#1098) | ||
| - Refactor internal calls to docval. @rly (#1104) | ||
| - Enhance icephys example and documentation. @t-b (#1081) | ||
| - Add multi index and time bounds to get_unit_spikes. @bendichter (#1001) | ||
| - Improve ophys docstrings. @bendichter (#1126) | ||
| - Improve icephys docstrings for gain. @bendichter (#1129) | ||
| - Update legal information. @rly (#1131) | ||
| - Add support for device description and manufacturer. @rly (#1135) | ||
| - Update dependencies and remove explicit six, unittest2 dependency. @rly (#1136, #1138, #1142, #1137, #1154) | ||
| - Add object ID tutorial. @rly (#1140) | ||
| - Update CI. @rly (#1141) | ||
| - Catch critical warnings and throw errors in unit tests. @rly (#1112) | ||
| - Create and use testing module, remove builder tests, clean up test code. @rly (#1117) | ||
| - Add and test minimum requirements for PyNWB. @rly (#1148) | ||
| - Improve docs for get_class. @bendichter (#1149) | ||
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| ### Bug fixes: | ||
| - Fix versioneer reporting version. @rly (#1100) | ||
| - Fix `DynamicTable` import after move to hdmf.common. @bendichter (#1103) | ||
| - Fix handling of unmapped attributes. @rly (#1105) | ||
| - Update tests and documentation to reflect new selection behavior of `DynamicTable`. @oruebel (#1106) | ||
| - Fix reference images not being mapped in PlaneSegmentation. @rly (#1109) | ||
| - Fix legacy import of `ObjectMapper`. @rly (#1124) | ||
| - Fix extensions documentation typo: 'str' -> 'text'. @bendichter (#1132) | ||
| - Revert "PatchClampSeries: Force sweep_number to uint64". @t-b (#1123) | ||
| - Fix sphinx code to use latest sphinx. @rly (#1139) | ||
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| ## PyNWB 1.1.2 (Oct. 15, 2019) | ||
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| ### Minor features: | ||
| - Use latest HDMF 1.3.3. #1093 (@rly) | ||
| - Expose HDMF export_spec utility function for use by extensions. #1092 (@rly) | ||
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| ### Bug fixes: | ||
| - Fix bug in writing SpikeEventSeries data or timestamps datasets with a DataChunkIterator. #1089 (@bendichter) | ||
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| ## PyNWB 1.1.1 (Oct. 7, 2019) | ||
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| PyNWB 1.1.0 does not work with HDMF>=1.3. This release will work with HDMF>=1.3.2. | ||
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| ### Minor improvements: | ||
| - Support newly added channel-specific conversion factor for ElectricalSeries #1072 (@bendichter) | ||
| - Move generic types out of PyNWB into hdmf-common. #1061 (@ajtritt) | ||
| - Update documentation to reflect the above changes. #1078 (@rly) | ||
| - Add new case to the iterative write tutorial. #1029 (@oruebel) | ||
| - Improve CI. #1079 (@rly) | ||
| - Pin the current latest version of HDMF to requirements for setup.py. #1083 (@rly) | ||
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| ## PyNWB 1.1.0 (Sep. 17, 2019) | ||
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| ### New features: | ||
| - Add object ID to all neurodata types #991 (@ajtritt, @rly) | ||
| - Add NWBFile shallow copy method #994 (@ajtritt, @rly) | ||
| - Drop official Python 2.7 support #1028 (@rly) | ||
| - Add scratch space #1027 #1038 (@ajtritt, @rly) | ||
| - Support multiple experimenters #988 #1035 (@ajtritt, @rly) | ||
| - Support multiple related publications #1047 (@rly) | ||
| - Update schema to 2.1.0 (see release notes in https://nwb-schema.readthedocs.io/en/latest/format_release_notes.html) (@rly, @bendichter, @ajtritt, @oruebel, @t-b) | ||
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| ### Minor enhancements: | ||
| - Add iterative write check for TimeSeries timestamps #1012 (@bendichter, @oruebel) | ||
| - Add functions to convert between pixel mask and image mask for ophys data #766 (@mamelara) | ||
| - Add cortical surface extension example #1040 (@bendichter) | ||
| - Match API with schema defaults #1033 (@rly) | ||
| - Core schema is now a git submodule #1045 (@ajtritt) | ||
| - Implement better support for floating point data for Python 3.5 on Windows #1043 (@rly) | ||
| - Enhance iterative write tutorial #1029 (@oruebel) | ||
| - Allow empty data in DynamicTable with non-empty VectorIndex #887 (@ajtritt) | ||
| - Allow OpticalSeries constructor argument 'field_of_view' to be H5Dataset #1063 (@bendichter) | ||
| - Clarify documentation for deprecated ImageSeries constructor arg 'bits_per_pixel' #1065 (@rly) | ||
| - Adjust code to explicitly map properties after changes made in HDMF 1.2 #1048 #1069 (@rly) | ||
| - Improvements to CI, documentation, and GitHub repo structure #1055 (@rly) | ||
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| ## PyNWB 1.0.3 (Jul. 18, 2019) | ||
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| ### New/modified functionality: | ||
| - Add MPI functionality to NWBHDF5IO (@bendichter) | ||
| - Add option to exclude columns from DynamicTable.to_dataframe() (@NileGraddis) | ||
| - Remove ability to add DecompositionSeries to LFP (@bendichter) | ||
| - Remove num_samples from TimeSeries (@NileGraddis) | ||
| - Automatically detect ragged arrays in from_dataframe (@bendichter) | ||
| - Cache the spec by default on write (@rly) | ||
| - Improve printing of NWB objects (@rly) | ||
| - Change ProcessingModule.add_data_interface() to .add(), ProcessingModule.get_data_interface() to .get(), NWBFile.modules to NWBFile.processing (@bendichter) | ||
| - Remove unused SpecFile type (@oruebel) | ||
| - Add ability to validate files against the cached spec (@t-b) | ||
| - Make CurrentClampSeries/VoltageClampSeries parameters optional (@t-b) | ||
| - Update documentation (@t-b, @rly) | ||
| - Update copyright/license | ||
| - Improve tests and CI | ||
| - Update requirements | ||
| - See also HDMF changes https://github.com/hdmf-dev/hdmf/releases/tag/1.0.4 | ||
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| ### Bug fixes: | ||
| - Fix dynamictableregion iteration failure after roundtrip (@NileGraddis) | ||
| - Fix from_dataframe for children of DynamicTable (@bendichter) | ||
| - Fix for modular (cross-file) storage of timeseries timestamps (@NileGraddis) | ||
| - Fix bug on loading lists of strings from hdmf 1.0.4 (@rly) | ||
| - Fix IO for intervals (@bendichter) | ||
| - Fix round trip for Subject.date_of_birth (@bendichter) | ||
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| ### Schema changes: | ||
| - DecompositionSeries "source_timeseries" link is no longer required (@bendichter) | ||
| - Reorder keys (@rly) | ||
| - Remove NWBFile "specifications" group (@oruebel) | ||
| - CorrectedImageStack and ImagingRetinotopy inherits from NWBDataInterface instead of NWBContainer (@rly) | ||
| - Fix typo in unit of resistance_comp_prediction/correction (@t-b) | ||
| - Add option for third dimension for Units "waveforms" dataset to represent different electrodes (@bendichter) | ||
| - Update NWBFile.nwb_version to 2.0.2 | ||
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| ## PyNWB 1.0.2 (Apr. 19, 2019) |