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**Describe the bug**
I've noticed a linear increase in memory usage when processing multiple czi files in headless mode, with memory usage increasing with every image being processed. The memory does…
ovesh updated
2 years ago
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What started with a simple issue in June 2022 (https://github.com/holoviz-topics/examples/issues/202) ended up being a project much longer than I had planned 🙃 I'd like to wrap up this "phase" leading…
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Hi.
Is it possible to feed data using some other data format? Read CZI file or numpy array?
Thanks.
Petro.
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Auxiliary images (label etc) in Zeiss CZI files often appear fully black. Upon inspection it seems that they have the `SignificantBits` attribute set to a value smaller than the width of the `Type`.
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## Context
See [**cell-science-modalites**](https://czi-sci.slack.com/archives/C02TSE92DBM/p1713562383176259?thread_ts=1713374968.017459&cid=C02TSE92DBM).
@jahilton writes:
> Solution is to r…
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Hi, I'm enjoying the great capability of the BioFormats, thanks developers & maintainers!
Recently I noticed that the exposure time seems to be parsed incorrectly for some Zeiss CZI files. For exam…
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Hi,
bioformats fails to extract correct timestamps from CZI files produced by the Z1 light sheet. If i understand it correctly the timestamps (DeltaT) should report seconds elapsed since the beginn…
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**Priority**: high
I previously created maps of the freeform cell type annotations provided by the original scRNA-seq dataset authors onto standardised, ontology-aligned Cell Ontology IDs and names…
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## Pending Issues
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## Design
This draft design reflects additions to corresponding sections in [schema 5.2.0](https://github.com/chanzuckerberg/single-cell-curation/blob/main/schema/5.2.0/…
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There are potential use cases where extracting only a few specific tiles from a .czi file would be desirable, such as inspecting image regions which cross tile edges. An external tool could examine du…