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zolfa-nd2reader
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Branch: feature/load_slices
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275 Commits (feature/load_slices)

Author SHA1 Message Date
  Jim Rybarski 0289234391 Potential fix for #138. Makes select() work with ND2s that have a single frame by iterating over a range of integers instead of the frames. 9 years ago
  Jim Rybarski 25c4ce7f78 resolves #135. we're ready to publish version 2.0.0 9 years ago
  Jim Rybarski 343a39dd9d fixes #133. The index assigned to images produced by `select` was wrong. 9 years ago
  jim faa50235d3 moved public methods to the top of classes 9 years ago
  Jim Rybarski 47966b75dd resolves #129: renamed filter() to select() 9 years ago
  Jim Rybarski 7f359bacc1 updated docs, fixed typos 9 years ago
  Jim Rybarski aedfa921a5 resolves #117. The XML-formatted strings in a few raw_metadata are now parsed into OrderedDicts. This isn't exposed to the user but if we want to add any of the data it will be more convenient for contributors to examine the contents of the data 9 years ago
  Jim Rybarski f366f38009 resolves #114. added index to Images to help with testing. Increased test coverage for filter() 9 years ago
  Jim Rybarski e141b0504c #114: wrote fast filter that works, but we need way more testing for corner cases 9 years ago
  Jim Rybarski 1268b2768c #125: fixed bug by ordering channel names, which works but seems suspect. added py2 support to Dockerfile 9 years ago
  Jim Rybarski 1436068d4c #125: refactored to make adding more metadata easier 9 years ago
  jim 5196c7d2c7 #125 decoded much more metadata and also found pointers to XML data 9 years ago
  jim 4943a854f1 resolves #123: the label map and raw metadata are now accessible, so we can more easily compare what they contain to the information in the XML (which we're still not parsing) 9 years ago
  jim e9ff0915bf #123 switched to the new LabelMap object, added support for another metadata field 9 years ago
  jim 9548b92957 #123: created label map object, which parses the pointers to locations in the file where data is stored 9 years ago
  jim 09173fcb9e resolves #110: added comments and parameter types to every method with a few minor exceptions where it's super obvious and unimportant what's happening 9 years ago
  jim cc2a49ac6d #110 added many comments, fixed parameter names where frame_number was incorrectly used in place of index 9 years ago
  jim a102f6189b resolves #113: removed `.data` property from images now that they simply behave like numpy arrays 9 years ago
  jim 7c0c8be065 resolves #119: removed some commented-out code and an unused import 9 years ago
  jim fd3c67d65b resolves #112: removed ImageGroup object and image_sets method, as they were deprecated because of their general uselessness 9 years ago
  Jim Rybarski 90ae0907de resolves #106: implemented missing method and added tests 9 years ago
  Jim Rybarski 284f6775de resolves #103: ND2s with a single image could not be parsed properly as they do not contain any dimension data, so when absent we can assume a single frame exists 9 years ago
  jim 2e6611b027 #101: Shows the text "Created:" even if there is no creation date 9 years ago
  jim c3a3cbadd4 resolves #101: No longer assumes a date will always be present in the metadata and falls back by displayed "Unknown" in the Nd2 repr 9 years ago
  Jim Rybarski 70467b9661 Added functional tests 9 years ago
  Jim Rybarski 6b859bd7ba updated docs, minor bug fixes, added unit tests 9 years ago
  Jim Rybarski 963310178d fixed merge conflict and docs 9 years ago
  Jim Rybarski d49c5f03eb #96: documentation changes 9 years ago
  Jim Rybarski a9ccdb19ce resolves #96: added context manager 9 years ago
  Jim Rybarski 2b2ad95a82 fixed syntax errors 9 years ago
  Jim Rybarski ac91d388c1 cleaned up a bit 9 years ago
  jim e55029c1de resolves #90 9 years ago
  jim 70e7f7a1b2 added data attribute back with deprecation warning 9 years ago
  jim 89d78030f1 #66 resolves v3 driver refactor 9 years ago
  jim 4ec54183d1 #66 fixed import problems 9 years ago
  jim 12512a5a1a #66 lol 9 years ago
  jim 45c148a1d3 #66 even more refactoring 9 years ago
  jim 544fd974eb #66 more refactoring 9 years ago
  jim 177530d657 #66 refactored init 9 years ago
  jim c096653a92 #66 interface refactoring is complete except for comments 9 years ago
  jim 949d0612d4 #66 began enormous refactor to support multiple versions of ND2s in an elegant way 9 years ago
  jim 55a3222e4f resolves #81: images now include the frame number (formerly called the time index). This tells you what order a particular image appeared in its field of view, which is useful when you're considering fields of view as independent regions of interest. Also fixed a bug where the number of image cycles (which should be renamed to "frames") was incorrect for some nd2s. 9 years ago
  jim 86d2924d35 resolves #68: indexing was not returning the correct image and skipped frame entirely when there were multiple channels 9 years ago
  jim 74dc101776 resolves #77: fixes bug where an nd2 with a single cycle or z-level wouldn't work 9 years ago
  Jim Rybarski 49737f678f resolves #56 10 years ago
  jim 18bb3f5392 resolves #54: raises Index error when you go out of bounds 10 years ago
  jim 047af59a1a #42 many passing tests for calculate_channel 10 years ago
  jim 07e2297aaf #42 fixed dockerfile and makefile, got one passing test 10 years ago
  jim ae09b688b2 #42 refactored and tidied up a bit, created test files 10 years ago
  Jim Rybarski a40b243abb resolves #40: adds slicing semantics 10 years ago