Hi, folks,
I updated and tested this functionality, it works well on our system: saving into a single H5 file with multiple tiles, channels, downsampling levels, and compression is supported. The H5 files can be open with BigDataViewer, BigStitcher, and Imaris.
Please, review before we merge. Thanks!
Changes:
H5 controls are added into demo_config.py: subsampling levels, compression, axis flipping for tile coordinates.
unrelated to H5, a quick fix for error handling in Ludl filter wheel, to prevent crashing from serial comm errors.
The latest npy2bdv version is required: pip install --upgrade npy2bdv.
Automatic merge with master seems to be OK, the resulting version works.
Hi, folks, I updated and tested this functionality, it works well on our system: saving into a single H5 file with multiple tiles, channels, downsampling levels, and compression is supported. The H5 files can be open with BigDataViewer, BigStitcher, and Imaris. Please, review before we merge. Thanks!
Changes:
demo_config.py
: subsampling levels, compression, axis flipping for tile coordinates.The latest npy2bdv version is required:
pip install --upgrade npy2bdv
.Automatic merge with
master
seems to be OK, the resulting version works.