From 8ddf336418a609cb76f51aa7d24d665d1a617d86 Mon Sep 17 00:00:00 2001
From: steppi <albert_steppi@hms.harvard.edu>
Date: Thu, 6 May 2021 21:31:44 -0400
Subject: [PATCH 1/3] Use appdirs to choose location of adeft home folder

---
 adeft/download/__main__.py |  2 +-
 adeft/locations.py         | 10 ++++------
 doc/requirements.txt       |  1 +
 setup.py                   |  2 +-
 4 files changed, 7 insertions(+), 8 deletions(-)

diff --git a/adeft/download/__main__.py b/adeft/download/__main__.py
index 0801e26b..1422bb79 100644
--- a/adeft/download/__main__.py
+++ b/adeft/download/__main__.py
@@ -5,7 +5,7 @@
     setup_test_resource_folder
 
 
-# Create .adeft folder if it does not already exist
+# Create adeft data folder if it does not already exist
 if not os.path.exists(ADEFT_PATH):
     os.makedirs(ADEFT_PATH)
 
diff --git a/adeft/locations.py b/adeft/locations.py
index 988c9da6..d7cc7a38 100644
--- a/adeft/locations.py
+++ b/adeft/locations.py
@@ -6,14 +6,12 @@
 """
 
 import os
-import pystow
 from adeft import __version__
+from appdirs import user_data_dir
 
-# If the adeft resource directory does not exist, try to create it using PyStow
-# Can be specified with ADEFT_HOME environment variable, otherwise defaults
-# to $HOME/.data/adeft/<__version__>. The location of $HOME can be overridden with
-# the PYSTOW_HOME environment variable
-ADEFT_HOME = pystow.join('adeft')
+ADEFT_HOME = os.environ.get('ADEFT_HOME')
+if ADEFT_HOME is None:
+    ADEFT_HOME = os.path.join(user_data_dir(), 'adeft')
 
 ADEFT_PATH = os.path.join(ADEFT_HOME, __version__)
 ADEFT_MODELS_PATH = os.path.join(ADEFT_PATH, 'models')
diff --git a/doc/requirements.txt b/doc/requirements.txt
index 41e26f7d..fc518753 100644
--- a/doc/requirements.txt
+++ b/doc/requirements.txt
@@ -5,3 +5,4 @@ nltk
 wget
 requests
 flask
+appdirs
diff --git a/setup.py b/setup.py
index 221cd6da..817fedee 100644
--- a/setup.py
+++ b/setup.py
@@ -46,7 +46,7 @@
       ],
       packages=find_packages(),
       install_requires=['nltk', 'scikit-learn>=0.20.0', 'wget',
-                        'requests', 'flask', 'pystow'],
+                        'requests', 'flask', 'appdirs'],
       extras_require={'test': ['pytest', 'pytest-cov']},
       keywords=['nlp', 'biology', 'disambiguation'],
       ext_modules=extensions,

From 8a83781ed0a5264479a55f2fd0eda915f29d54dd Mon Sep 17 00:00:00 2001
From: steppi <albert_steppi@hms.harvard.edu>
Date: Thu, 6 May 2021 22:52:43 -0400
Subject: [PATCH 2/3] Update intro notebook with new adeft home location

---
 notebooks/introduction.ipynb | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/notebooks/introduction.ipynb b/notebooks/introduction.ipynb
index df2c11b8..47045030 100644
--- a/notebooks/introduction.ipynb
+++ b/notebooks/introduction.ipynb
@@ -25,7 +25,7 @@
     "$ python -m adeft.download\n",
     "```\n",
     "\n",
-    "By default, models will be stored in the users home directory in a hidden folder named ``.adeft``. Users may set the environment variable `ADEFT_HOME` in their shell profile to choose an alternative location."
+    "By default, models will be stored in a folder named ``adeft`` within a platform specific user data location determined by the [appdirs](https://pypi.org/project/appdirs/) Python package. Users may set the environment variable `ADEFT_HOME` in their shell profile to choose an alternative location."
    ]
   },
   {
@@ -453,7 +453,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.8.5"
+   "version": "3.8.6"
   }
  },
  "nbformat": 4,

From ff7a4a6c5387cd45424e3f879e8de457228a18d0 Mon Sep 17 00:00:00 2001
From: steppi <albert_steppi@hms.harvard.edu>
Date: Thu, 6 May 2021 22:55:14 -0400
Subject: [PATCH 3/3] Update module docstring for new home location

---
 adeft/locations.py | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

diff --git a/adeft/locations.py b/adeft/locations.py
index d7cc7a38..5313cb79 100644
--- a/adeft/locations.py
+++ b/adeft/locations.py
@@ -1,8 +1,9 @@
 """
 Contains paths to locations on user's system where models and resources are
-to be stored. These all live in adeft's home folder which defaults to the
-hidden directory ".adeft" in the user's home directory but which can be
-specified by setting the environment variable ADEFT_HOME in the user's profile.
+to be stored. These all live in adeft's home folder which defaults to
+a directory "adeft" in a location determined by Python's `appdirs` package.
+An alternative location can be specified by setting the environment variable
+ADEFT_HOME in the user's profile.
 """
 
 import os