subset
function for masking - will either do two PRs or all as oneio
submodule is donezarrs
optimization?scanpy.tests
- use testing utils from anndata
(or scanpy
).raw
copying issueshall
from the variablevitessce-python
PRdelayed
objectsbbknn
work needs to be done on GPUspmatrix
sub types that aren't csr or csc in X
- bug or real?
CSRDataset
and CSCDataset
- are we ready? leave in experimental
? export a Protocol
?
io
module along with read_elem
and write_elem
experimental
should
vs must
in booleansshould
vs must
towncrier
work progressing -> assuming all looks, merge the towncrier
PR. Then update and automate once header fix is insession-info2
worksession-info2
stufftowncrier
uv
installsession-info2
install of uv
very helpfulsession-info2
, would be good. Possible to hack in GPU question for driver, cuda-version etc.?AnnData
print
statements for logging, what is best practice?
map_blocks
”, but maybe not. Ilan is debugging it.read_as_dask
, so Phil should take overflat
turns to C continuousconcatenate3
being called with sparse matrices, not arraysxarray
bug that they called me forconcat_on_disk
fix for outer
joinsvitessce
work, anndata-js
vitessce-python
work as wellsrc/testing/scanpy
src
? Or maybe should wait until Phil is back, updating open PRsxarray
release is out so no blocker now for backed {obs,var}
Görlitz GPU Hackathon: results good, but messy, need to be integrated well
read_dask_elem
scanpy
benchmarkingpytest
bugobs
vs. obs
src
directory PR, will be done post-release_subset_obs_in_place
+ obsp
src
folder - was waiting on PyTest response, but now that we have the reply, it still does not work_mean_var
and so onleidenalg
src
structure, but still figuring out other odds and ends e.g., with doctest
sys.module
to fix imports for testing_config.py
to something settings
var
/obs
)to_memory()
exclude_keys
, drop
methodtuple
)Version without reindexing
Reindexing next, but we can merge without it
Maybe still needs to do obsm
Thesis?
New read function
Opened a PR for concatenation
Pytorch geometric
Out of core concatenation
TODO: Email accounts ask florian
__setitem__
to_memory
to_memory
compute
than persist
assert_equal
doneto_memory
.compute
persist
is also valid, but would need an argument. Also precedence from xarrayAttendees: Isaac, Rahul, Selman