hail-is · danking · Jun 3, 2019 · May 29, 2019 · May 29, 2019 · May 30, 2019
diff --git a/hail/deploy_scripts/setup.py b/hail/deploy_scripts/setup.py
@@ -33,15 +33,15 @@
         'numpy<2',
         'pandas>0.22,<0.24',
         'matplotlib<3',
-        'seaborn<0.9',
-        'bokeh<0.14',
+        'bokeh>1.1,<1.3',
         'pyspark>=2.4,<2.4.2',
         'parsimonious<0.9',
         'ipykernel<5',
         'decorator<5',
         'requests>=2.21.0,<2.21.1',
         'gcsfs==0.2.1',
-        'hurry.filesize==0.9'
+        'hurry.filesize==0.9',
+        'scipy>1.2, <1.4'
     ],
     entry_points={
         'console_scripts': ['hailctl = hailctl.__main__:main']

diff --git a/hail/python/hail/dev-environment-py3.7.yml b/hail/python/hail/dev-environment-py3.7.yml
@@ -8,7 +8,6 @@ dependencies:
 - numpy=1.15.3
 - pandas=0.23.4
 - matplotlib=3.0.1
-- seaborn=0.9.0
 - bokeh=1.0.0
 - jupyter=1.0.0
 - pip=18.0

diff --git a/hail/python/hail/dev-environment.yml b/hail/python/hail/dev-environment.yml
@@ -8,7 +8,6 @@ dependencies:
 - numpy=1.14.0
 - pandas=0.23.4
 - matplotlib=2.2.3
-- seaborn=0.8.1
 - bokeh=0.12.13
 - jupyter=1.0.0
 - pip=10.0.1

diff --git a/hail/python/hail/docs/style-guide.txt b/hail/python/hail/docs/style-guide.txt
@@ -8,7 +8,6 @@
  - matplotlib
  - pandas
  - numpy
- - seaborn
 
 ## Function Documentation Structure
  - Description

diff --git a/hail/python/hail/docs/tutorials/04-aggregation.ipynb b/hail/python/hail/docs/tutorials/04-aggregation.ipynb
@@ -52,9 +52,7 @@
    "source": [
     "import hail as hl\n",
     "from bokeh.io import output_notebook,show\n",
-    "import seaborn\n",
     "output_notebook()\n",
-    "seaborn.set()\n",
     "hl.init()\n",
     "\n",
     "\n",

diff --git a/hail/python/hail/docs/tutorials/05-filter-annotate.ipynb b/hail/python/hail/docs/tutorials/05-filter-annotate.ipynb
@@ -26,7 +26,6 @@
    "outputs": [],
    "source": [
     "import hail as hl\n",
-    "import seaborn\n",
     "\n",
     "hl.utils.get_movie_lens('data/')\n",
     "users = hl.read_table('data/users.ht')"

diff --git a/hail/python/hail/docs/tutorials/06-joins.ipynb b/hail/python/hail/docs/tutorials/06-joins.ipynb
@@ -32,7 +32,6 @@
    "outputs": [],
    "source": [
     "import hail as hl\n",
-    "import seaborn\n",
     "\n",
     "hl.utils.get_movie_lens('data/')\n",
     "\n",

diff --git a/hail/python/hail/docs/tutorials/07-matrixtable.ipynb b/hail/python/hail/docs/tutorials/07-matrixtable.ipynb
@@ -93,10 +93,8 @@
    "outputs": [],
    "source": [
     "import hail as hl\n",
-    "import seaborn\n",
     "from bokeh.io import output_notebook, show\n",
     "output_notebook()\n",
-    "seaborn.set()\n",
     "\n",
     "hl.utils.get_1kg('data/')"
    ]

diff --git a/hail/python/hail/environment.yml b/hail/python/hail/environment.yml
@@ -4,7 +4,6 @@ dependencies:
 - numpy=1.14.0
 - pandas=0.23.0
 - matplotlib=2.2.3
-- seaborn=0.8.1
 - bokeh=0.12.13
 - jupyter=1.0.0
 - pip=10.0.1

diff --git a/hail/python/hailctl/dataproc/resources/init_notebook.py b/hail/python/hailctl/dataproc/resources/init_notebook.py
@@ -45,7 +45,6 @@ def mkdir_if_not_exists(path):
         'pandas<0.24'
     ]
     pip_pkgs = [
-        'seaborn<0.10',
         'decorator==4.2.1',
         'parsimonious<0.9',
         'ipywidgets<8',

diff --git a/hail/python/requirements.txt b/hail/python/requirements.txt
@@ -1,16 +1,15 @@
-numpy==1.14.0
-pandas==0.23.0
-matplotlib==2.2.3
-seaborn==0.8.1
-bokeh==0.12.13
+numpy==1.16
+pandas==0.23
+bokeh==1.2
 jupyter==1.0.0
 tornado<6
-parsimonious==0.8.0
-ipykernel==4.9.0
+parsimonious==0.8
+ipykernel==5.1
 # should go in test image
-pytest==3.10.1
+pytest==4.5
 pytest-html==1.20.0
-pytest-xdist==1.23.2
-sphinx==1.8.3
-nbsphinx==0.3.1
+pytest-xdist==1.28
+sphinx==2.0
+nbsphinx==0.4
 sphinx_rtd_theme==0.4.2
+scipy==1.3