single-cell-data/TileDB-SOMA

Issues

• [python] Python GIL not being released in a number of cases where it should be

  #2749 opened 5 months ago by johnkerl
  2

• [Bug] Illegal instruction despite building from source

  #2867 opened 4 months ago by chrish935
  17

• [python] TileDB-SOMA-Py should map `None`, `pd.NA`, and `math.nan` in string columns to null values

  #2861 opened 4 months ago by johnkerl
  0

• `python` Utilize Arrow schema `pa.field` nullabilities in `DataFrame.create`

  #2869 opened 4 months ago by johnkerl
  0

• [python/r] Nullability tracking (parent)

  #2858 opened 4 months ago by johnkerl
  5

• SOMAError: SOMAError: Incorrect type for attribute name: Constant(value='<column value>') - While Converting SOMA query to Anndata

  #2832 opened 4 months ago by danishzmalik
  9

• Daily GitHub Actions Build Fail on Fri, August 9th 2024

  #2863 opened 4 months ago by github-actions
  1

• [python] TileDB-SOMA-Py incorrectly writes nullable-boolean columns

  #2857 opened 4 months ago by johnkerl
  0

• [python] TileDB-SOMA-Py can do better null-filtering with implicit Pandas DataFrame categories

  #2860 opened 4 months ago by johnkerl
  0

• [python] TileDB-SOMA-Py does not allow only `""` as string-enum value in some cases

  #2859 opened 4 months ago by johnkerl
  0

• [Issue] TileDB dictionary encoding, and empty strings in enumerations

  #2822 opened 4 months ago by mdylan2
  12

• [python] CI `mypy` issue as of 2024-08-05

  #2839 opened 4 months ago by johnkerl
  4

• [Bug] Updated error message is much less helpful/ provides incorrect information

  #2812 opened 4 months ago by ivirshup
  1

• [python] Implement scheduled removal of `TileDBCreateOptions` being passed to `write` methods

  #2841 opened 4 months ago by johnkerl
  0

• [performance] Implement/validate a non-opening member-list accessor

  #2787 opened 4 months ago by johnkerl
  0

• [Bug] `pd.DataFrame`s modified during ingest/outgest round-trips

  #2829 opened 4 months ago by ryan-williams
  1

• [Feature request] `ExperimentAxisQuery.to_anndata()` (and R analogs) should drop unused categories on axis data frames

  #2765 opened 4 months ago by pablo-gar
  8

• [r] Replace `vfs.is_dir` with `SOMADataFrame::exists` et al.

  #2714 opened 4 months ago by johnkerl
  1

• [c++] Add `soma_data` type getter for `NDArray`s

  #2797 opened 4 months ago by nguyenv
  0

• [c++] `libtiledbsoma`'s `SOMADataFrame.exists()` needs to accept a context

  #2793 opened 4 months ago by johnkerl
  1

• [Bug][Python] Sparse array read with `result_order` is slow

  #2687 opened 6 months ago by bkmartinjr
  1

• Spatial prototyping

  #2799 opened 4 months ago by johnkerl
  0

• [c++] Add `SOMAArray.platform_config()` getter

  #2700 opened 4 months ago by nguyenv
  1

• [c++] libtiledbsoma may need a filtering layer

  #2709 opened 4 months ago by eddelbuettel
  0

• [spatial] Update Visium ingestor to use points instead of geometries for spots

  #2750 opened 4 months ago by jp-dark
  1

• Visualization of SOMA Experiment

  #2781 opened 5 months ago by danishzmalik
  3

• Daily GitHub Actions Build Fail on Mon, July 8th 2024

  #2779 opened 5 months ago by github-actions
  2

• how to list values for query filter ?

  #2761 opened 5 months ago by HugoCornu
  2

• [python] Deprecate `tiledb.Filter{List}` getters for `PlatformConfig`

  #2699 opened 5 months ago by nguyenv
  0

• [python] Replace `tiledb.Group` with `clib.SOMAGroup`

  #2674 opened 5 months ago by nguyenv
  0

• [python] for an Experiment, `soma.open` is 3X slower than `soma.Experiment.open`

  #2726 opened 5 months ago by bkmartinjr
  3

• Error while Ingesting Multiple H5ad to One SOMA Object : ArrowInvalid: Failed to parse string: '<category column>' as a scalar of type double[Bug]

  #2696 opened 5 months ago by danishzmalik
  13

• [Bug] Incorrect install requirements on the latest tiledbsoma 1.12.0

  #2758 opened 5 months ago by Koncopd
  4

• Daily GitHub Actions Build Fail on Sun, June 23rd 2024

  #2760 opened 5 months ago by github-actions
  1

• Daily GitHub Actions Build Fail on Thu, June 20th 2024

  #2754 opened 5 months ago by github-actions
  2

• TileDB-SOMA 1.12.0 release

  #2672 opened 5 months ago by johnkerl
  1

• R and Python create groups with incompatible SOMA metadata

  #2698 opened 6 months ago by bkmartinjr
  0

• Daily GitHub Actions Build Fail on Mon, June 17th 2024

  #2743 opened 5 months ago by github-actions
  2

• [python] Numpy 2.0

  #2744 opened 5 months ago by johnkerl
  1

• [python] Support `tiledbsoma.io.update_obs` with post-nullable non-string attributes

  #2717 opened 5 months ago by johnkerl
  0

• [r/ci] Unbreak `pkgdown` and `r-valgrind` CI

  #2702 opened 5 months ago by johnkerl
  0

• [python] `tiledbsoma.io.update_uns` (parent issue)

  #2707 opened 6 months ago by johnkerl
  0

• Daily GitHub Actions Build Fail on Sat, June 8th 2024

  #2697 opened 6 months ago by github-actions
  1

• [Bug] README.md points at stale CI badge

  #2694 opened 6 months ago by eddelbuettel
  0

• [c++] Improve default buffer size

  #2682 opened 6 months ago by johnkerl
  0

• [r] Examine dependency of `SOMAArrayReader-Iterated` test on buffer sizes

  #2684 opened 6 months ago by johnkerl
  0

• [ci] Reduce Mac resource requirements for pre-push/post-push

  #2680 opened 6 months ago by johnkerl
  1

• Implement geometry array ABC class in `somacore`

  #2677 opened 6 months ago by johnkerl
  0

• Pure Python prototype for geometries arrays

  #2676 opened 6 months ago by johnkerl
  0

• [r] Seurat v5 prototype ingest/outgest

  #2673 opened 6 months ago by johnkerl
  0