🌩️🌩️🌩️ Thunder Cloud Volume 🌩️🌩️🌩️

Igneous, our Python software for managing Neuroglancer 3D images, meshes, and skeletons, is now published open access in Frontiers in Neural Circuits! Aleksandar Zlateski @jalex_bae @tartavull @nkemnitz1 @jingpeng_wu @SebastianSeung frontiersin.org/articles/10.33…

fastremap 1.18.0 - Adds is_solid(arr, value), which is a short circuiting routine for checking if the array is all one value. This avoids the issue with np.all (no short circuit + a copy) and np.array_equal (which doesn't admit an integer argument) github.com/seung-lab/fast…

CloudVolume 12.12.0 - Fixes bug in setting cache encoding - Adds function for inserting a new mesh into an existing multires mesh shard - Adds Mesh.from_trimesh, save, load github.com/seung-lab/clou…

zmesh 1.11.0 - Adds memory optimized non-topology preserving option based on pyfqmr. github.com/seung-lab/zmesh

igneous-pipeline 4.35.0 - Improvements and fixes to meshing, skeletonization, cross section analysis, downsampling, encoding defaults, deployment defaults github.com/seung-lab/igne…

CloudFiles 6.2.0 - Adds "cloudfiles watch net" submenu for printing network IO (RX/TX) or generating a histogram over a specified duration github.com/seung-lab/clou…

cloud-volume 12.10.0 - Faster mem:// when encoding is raw and cache is disabled github.com/seung-lab/clou…

CORRECTION: I mean duplicate faces, not degenerate faces.

zmesh 1.10.0 - Improvements to filtering degenerate faces on .consolidate() - Adds connected components algorithms, dust, largest_k for meshes. github.com/seung-lab/zmesh

CloudFiles 5.9.0 - Improved performance and memory usage for GCS file listing github.com/seung-lab/clou…

CloudVolume 12.9.2 - Fixes for bugs introduced during refactor of ShardReader to avoid a dependency on "meta" github.com/seung-lab/clou…

For over twenty years, many dedicated researchers around the world have worked to realize the dream of connectomics. I'm especially indebted to the talented members of my laboratory, past and present. And I've been lucky to benefit from so many powerful collaborations.

Thanks to @DodamIh for contributing overwrite_partial_chunks

CloudVolume 12.9.0 - Adds BETA annotation reader! Use annotation_source = cloudvolume.from_cloudpath(path) - Adds skeleton label listing - Performance improvement for mem:// - Adds overwrite_partial_chunks for risky but efficient non-aligned writes github.com/seung-lab/clou…

mapbuffer 1.1.0 - performance improvement for first index read - ability to skip calculating CRCs (e.g. if your format already includes them) to speed up construction github.com/seung-lab/mapb…

edt 3.1.0 - Makes definitions of types more uniform, which seems to have fixed a windows issue - Maybe 10% faster on my test data? github.com/seung-lab/eucl…

connected-components-3d 3.26.1 - Allows voxel_connectivity_graph to work with 8-bit 6-connected graphs (incorrectly limited to only 32-bit) github.com/seung-lab/conn…

crackle-codec 0.36.0 for label, tmp_label, img in crackle.each(binary, multi=True): pass Iterate 255 labels at a time using a uint8 image. Much faster than binary image iteration while using equal memory (if you can handle this efficiently). github.com/seung-lab/crac…

cloud-volume 12.8.0 - Support for postgres databases in spatial index (thanks Ran!) - Fix for mesh exists for dynamic graphene meshes (thanks Val!) -memory efficiency for download_crackle when parallel=1 github.com/seung-lab/clou…

fastmorph 1.8.0 ~10-30% performance increase in the dilate operator thanks to the use of sorting networks github.com/seung-lab/fast…

kimimaro 5.7.0 - Adds multipass option to cross section analysis github.com/seung-lab/kimi…