[med-svn] [Git][med-team/python-scanpy][master] 12 commits: New upstream version 1.8.2

[Diane Trout (@diane)]

Diane Trout pushed to branch master at Debian Med / python-scanpy


Commits:
388748f0 by Diane Trout at 2021-11-09T16:37:52-08:00
New upstream version 1.8.2
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1a516aad by Diane Trout at 2021-11-09T16:38:25-08:00
Update upstream source from tag 'upstream/1.8.2'

Update to upstream version '1.8.2'
with Debian dir 36c8303a60ae8d7883ad671a386b86eeae3febec
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d07f939e by Diane Trout at 2021-11-10T14:45:52-08:00
Upstream dropped this dependency

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c793a1c0 by Diane Trout at 2021-11-10T14:46:13-08:00
Some test cases try to use the leiden and louvain clustering algoritms

Unfortunately I think scanpy really wants the vtaag louvain which
I think the developer removed in preference of their leiden method

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c235d9d4 by Diane Trout at 2021-11-10T14:49:51-08:00
test_plot_rank_genes_groups_gene_symbols worked without internet

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5e770b0f by Diane Trout at 2021-11-10T14:50:30-08:00
compute methods were installed correctly into test environment

Also pybuild.testfiles doesn't seem to copy into subdirectories

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bdb858c3 by Diane Trout at 2021-11-10T14:51:22-08:00
Install conftest.py into pybuild test environment

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988cea44 by Diane Trout at 2021-11-10T14:53:26-08:00
Include more test data

This allows more tests to run without needing internet access.

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22bba973 by Diane Trout at 2021-11-10T14:56:19-08:00
Update tests that depnded on louvain package

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6e83b16f by Diane Trout at 2021-11-10T14:56:40-08:00
Disable some more tests that ran me out of memory

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e0e87f20 by Diane Trout at 2021-11-10T14:57:00-08:00
Disable test_visium_default after asking upstream about it.

https://github.com/theislab/scanpy/issues/2048

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9179e3fc by Diane Trout at 2021-11-10T15:07:39-08:00
Provide image comparison test cases better test data

There's some modest differences in plot layouts between upstreams test
enviornments and ours that cause slightly different layouts.

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30 changed files:

- .pre-commit-config.yaml
- + debian/README.Debian
- + debian/_images/correlation.png
- + debian/_images/master_dotplot3.png
- + debian/_images/master_matrixplot_std_scale_var_dict.png
- + debian/_images/master_paga.png
- + debian/_images/master_paga_continuous.png
- + debian/_images/master_paga_continuous_multiple.png
- + debian/_images/master_paga_continuous_obs.png
- + debian/_images/master_paga_pie.png
- + debian/_images/master_spatial_external_img.png
- + debian/_images/master_spatial_general_cat.png
- + debian/_images/master_spatial_visium_empty_image.png
- + debian/_images/master_umap_with_edges.png
- debian/control
- debian/data/get
- + debian/data/paul15/paul15.h5
- + debian/data/pbmc3k_processed.h5ad
- debian/patches/mark-tests-need-internet.patch
- debian/pybuild.testfiles
- debian/rules
- debian/source/include-binaries
- docs/ecosystem.rst
- + docs/release-notes/1.8.1.rst
- + docs/release-notes/1.8.2.rst
- docs/release-notes/release-latest.rst
- pyproject.toml
- scanpy/external/exporting.py
- scanpy/plotting/_anndata.py
- scanpy/plotting/_tools/__init__.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/python-scanpy/-/compare/94eaf9310490ffab17a2cc33667bbcffaebfffd7...9179e3fc88d0ab55912a2b4e6dd9e7dc1d484d83

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-scanpy/-/compare/94eaf9310490ffab17a2cc33667bbcffaebfffd7...9179e3fc88d0ab55912a2b4e6dd9e7dc1d484d83
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