-
User suggested that we use the csv files as basenames for the images and masks.
For example: When 1.csv is found, assume that there is a 1.ome.tif in the image path, and a 1.tif in the mask path.
pe…
-
I noticed that TIF files with the `TiffFileTileSource` and `OMETiffFileTileSource` sources (at least), if the image is opened without a style, the areas outside the bounds of the image for `getTile()`…
-
I am using **bioformats_package.jar** to convert **PerkinElmer Operetta XML** to **.OME.XML**.
The problem I am currently facing is that after conversion to **.OME.XML** I receive coordinate values t…
-
I am looking at the modulo-Datasets here:
https://docs.openmicroscopy.org/ome-model/6.0.0/ome-tiff/data.html#modulo-datasets
Which use the XML structured annotation documented here:
https://docs.…
-
# NGFF generation
Generation takes place on `pilot-zarr1-dev` or `pilot-zarr2-dev` machines.
We need to generate NGFF data with https://github.com/IDR/bioformats2raw/releases/tag/v0.6.0-24 which has…
-
Translate the detail documentation for a Bhatkhande font to Bangla. This will help with the upcoming addition of Ome Bhatkhande Bangla.
-
Issue was raised on forum thread https://forum.image.sc/t/read-ome-xml-metadata/26354/17 and a sample file was provided which reproduces the issue with Bio-Formats 6.11.0.
The original issue is rep…
-
**Is your feature request related to a problem? Please describe.**
We need to look at Next-generation file formats (NGFF) (https://ngff.openmicroscopy.org/latest/) which use [Zarr](https://zarr.rea…
-
I tested the notebook on Ubuntu 20.04 in WSL 1:
- I used the `conda install` from `pyvips` (https://libvips.github.io/pyvips/README.html#conda-install). It already includes the `libvips` library so I…
-
Hi BioFormats developers and community members,
I am using BioFormat 5.9.2 in MATLAB r2018b. When I read files with the bfmatlab library, for certain files in the dataset, the interpreted series si…