Backport PR scverse#2566: Switch to igraph name

.gitignore

@@ -18,6 +18,7 @@
 /scanpy/tests/notebooks/figures/
 
 # Environment management
+/hatch.toml
 /Pipfile
 /Pipfile.lock
 

docs/installation.md

@@ -24,7 +24,7 @@ pip install 'scanpy[leiden]'
 ```
 
 The extra `[leiden]` installs two packages that are needed for popular
-parts of scanpy but aren't requirements: [python-igraph] [^cite_csardi06] and [leiden] [^cite_traag18].
+parts of scanpy but aren't requirements: [igraph] [^cite_csardi06] and [leiden] [^cite_traag18].
 
 (dev-install-instructions)=
 
@@ -83,7 +83,7 @@ pip install --user scanpy
 
 - `brew install igraph`
 
-- If python-igraph still fails to install, see the question on [compiling igraph].
+- If igraph still fails to install, see the question on [compiling igraph].
   Alternatively consider installing gcc via `brew install gcc --without-multilib`
   and exporting the required variables:
 
@@ -125,5 +125,5 @@ The whole process takes just a couple of minutes.
 [leiden]: https://leidenalg.readthedocs.io
 [miniconda]: http://conda.pydata.org/miniconda.html
 [on github]: https://github.com/scverse/scanpy
-[python-igraph]: http://igraph.org/python/
+[igraph]: https://python.igraph.org/en/stable/
 [unofficial binaries]: https://www.lfd.uci.edu/~gohlke/pythonlibs/

pyproject.toml

@@ -121,9 +121,9 @@ dev = [
     "docutils",
 ]
 # Algorithms
-paga = ["python-igraph"]
-louvain = ["python-igraph", "louvain>=0.6,!=0.6.2"]  # Louvain community detection
-leiden = ["python-igraph", "leidenalg"]  # Leiden community detection
+paga = ["igraph"]
+louvain = ["igraph", "louvain>=0.6,!=0.6.2"]  # Louvain community detection
+leiden = ["igraph>=0.10", "leidenalg>=0.9"]  # Leiden community detection
 bbknn = ["bbknn"]  # Batch balanced KNN (batch correction)
 magic = ["magic-impute>=2.0"]  # MAGIC imputation method
 skmisc = ["scikit-misc>=0.1.3"]  # highly_variable_genes method 'seurat_v3'

scanpy/logging.py

@@ -127,7 +127,7 @@ def format(self, record: logging.LogRecord):
     'pandas',
     ('sklearn', 'scikit-learn'),
     'statsmodels',
-    ('igraph', 'python-igraph'),
+    'igraph',
     'louvain',
     'leidenalg',
     'pynndescent',

scanpy/testing/_pytest/marks.py

@@ -10,7 +10,7 @@
     louvain="louvain",
     skmisc="scikit-misc",
     fa2="fa2",
-    igraph="python-igraph",
+    igraph="igraph",
     dask="dask",
     zarr="zarr",
     zappy="zappy",