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add a bffile datasource and bioformats load path in image.py#1652

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barentine wants to merge 1 commit intopython-microscopy:masterfrom
barentine:bffile
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add a bffile datasource and bioformats load path in image.py#1652
barentine wants to merge 1 commit intopython-microscopy:masterfrom
barentine:bffile

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@barentine
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Addresses issue #bioformats installation. Posting as a draft for discussion - unclear if this is a direction we're interested in or not, but it was helpful for me to load some nd2 files from a collaborator.

Is this a bugfix or an enhancement?
enhancement
Proposed changes:

  • add option to load using bffile

loading tested with

  • single-channel nd2 file
  • multi-channel nd2 file

untested
-time series

  • other file types

@David-Baddeley
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Sounds good to me. Is installing bffile relatively painless? Is it painless enough that w might consider adding it to our dependencies?

@David-Baddeley
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I especially like the fact that it has a lazy loader (although the terminology is slightly misleading - asarray would usually imply forcing into memory ...)

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2 participants