-
The docstring for `ImageReader()` mentions a non-existant `GetImageReader()`:
https://github.com/CellProfiler/python-bioformats/blob/0d47e384d5ab8669cfcbf43b8900b0d544aa274b/bioformats/formatreader…
omsai updated
6 years ago
-
New Nodes:
- [ ] CellH5 Reader Node to read CellH5 format (Images, Labelings, Features)
- [ ] CellH5 Writer Node to write CellH5 format (Images, Labelings, Features)
use: https://github.com/openmicr…
-
**Is your feature request related to a problem? Please describe.**
We would like to start thinking about supporting [BioFormats](https://www.openmicroscopy.org/bio-formats/).
Bioformats is a pat…
-
Hi Artur,
Great work with this package! I was trying it today (Dev branch) for some of my Xenium data and noticed that I get a Java heap space issue.
I solved it using ```options(java.parameters…
-
If metadata is present as a filed called "metadata.txt", it is somehow read and this seems to cause a crash preventing any data to read.
Here is an example metadata.txt file causing such a crash:
[m…
-
Hi, thanks for your great open-source method.
I'm going to run the "register_ihg.py" file in the example folder.
Both JDK and Maven were installed, and JAVA_HOME environmental variables were well …
-
When creating a new geometry for PDE sims, image fails to load
NullPointerException-Cannot invoke "org.vcell.vcellij.ImageDatasetReader.getImageSizeInfoForceZ(String, java.lang.Integer)" because "i…
-
Sometimes version string is unknown version https://github.com/ome/bioformats/blob/e1aaf58bee6eebe5d4fd425e2005565d42890af7/components/formats-api/src/loci/formats/FormatTools.java#L290 . in this case…
-
The `bioformats` java package was recently updated to properly handle certain `.dm4` files. My understanding is that this python wrapper package (specifically the `.jar` file) also needs to be update…
-
Hello, I am trying to convert an `nd2` file containing several field of views with 6 channels each and a variable amount of slides (it is quite big, around 18 GB).
When I read the metadata and get th…