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I'm having a little trouble with how StructuredAnnotations are intended to be validated.
We have ome-tiffs with large Structured Annotation blocks that essentially are inlining other "arbitrary" xml …
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In [`36fc090`](https://github.com/BioImage-Archive/upptime/commit/36fc090ca8978e67839a3505d93d42f031399e46
), S-BIAD531 (https://www.ebi.ac.uk/biostudies/files/S-BIAD531/Zebrafish_ML_Archive/outputs/2…
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In [`cdaf4ed`](https://github.com/BioImage-Archive/upptime/commit/cdaf4ed5f2a9dbe6c91ab1820a97d76b04079ef6
), S-BIAD531-TFER-HTTP (https://ftp.ebi.ac.uk/biostudies/fire/S-BIAD/531/S-BIAD531/Files/Zebr…
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#127 implemented `lxml` parsing, which significantly increased parsing and validation times. However, `xmlschema` is the only option for converting `OME` to an xml string with the `to_xml` function. I…
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need to add the following eventually (not necessarily within this branch):
- [x] add try except line to allow some positions to fail alignment. and record in dataframe when alignment fails.
…
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**User story**
As part of issue #1406 we implemented a first version of the zero config code feature, which generates a default Vitessce view config for 3 file types: OME-TIFF, OME-Zarr and Anndata-Z…
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The MicromanagerReader can swallow an IOException and infinite loop. The offending method is:
```java
private void parsePosition(int posIndex) throws IOException, FormatException
```
I have a TIFF…
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Apologies if this was asked already. I am looking to save a time series acquisition as `NDTiff` from the Micro Manager GUI (not via pycromanager) but I don't see the menu options the enable to switch …
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@ieivanov raised the need of converting all image plane metadata, which will be useful for the mantis project.
In a previous meeting we agreed that the easiest, fastest, and most robust way to pres…
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Hi there,
## System and Software
* aicsimageio Version: 4.11.0
* Python Version: 3.9
* Operating System: MacOS
## Description
With the new version of aicsimageio I cannot open _some_ czi …