Merge pull request #400 from ComputationalCryoEM/patch_363

Move some developer deps to "dev" package extension

Author: garrettwrong

setup.py

@@ -27,20 +27,15 @@ def read(fname):
         "finufft",
         "importlib_resources>=1.0.2",
         "joblib",
-        "jupyter",
         "matplotlib",
         "mrcfile",
         "numpy==1.16",
         "pandas==0.25.3",
         "pyfftw",
         "pillow",
-        "pytest",
-        "pytest-cov",
         "scipy==1.4.0",
         "scikit-learn",
         "setuptools>=0.41",
-        "sphinxcontrib-bibtex",
-        "sphinx-rtd-theme>=0.4.2",
         "tqdm",
     ],
     # Here we can call out specific extras,
@@ -54,9 +49,14 @@ def read(fname):
             "check-manifest",
             "flake8>=3.7.0",
             "isort",
+            "jupyter",
             "pyflakes",
             "pydocstyle",
+            "pytest",
+            "pytest-cov",
             "pytest-random-order",
+            "sphinxcontrib-bibtex",
+            "sphinx-rtd-theme>=0.4.2",
             "snakeviz",
             "tox",
         ],

tox.ini

@@ -13,6 +13,7 @@ minversion = 3.8.0
 changedir = tests
 deps =
     pytest
+    pytest-cov
     Cython>=0.23
 commands =
     python -V
@@ -28,6 +29,7 @@ whitelist_externals=
 changedir = tests
 deps =
     pytest
+    pytest-cov
     Cython>=0.23
 commands =
     sh -c "pip freeze | cut -d@ -f1 | cut -d= -f1 | xargs -n1 pip install -U"
@@ -38,8 +40,10 @@ commands =
 
 [testenv:docs]
 changedir = docs
-depends =
+deps =
     sphinx
+    sphinxcontrib-bibtex
+    sphinx-rtd-theme
 commands =
     sphinx-apidoc -f -o ./source ../src -H Modules