From eff1293d72280fa9dd35a64e2ba17fa664838625 Mon Sep 17 00:00:00 2001
From: Roshan Rao <roshan_rao@berkeley.edu>
Date: Fri, 1 May 2020 09:15:17 -0700
Subject: [PATCH 1/3] change requirements, update to version 0.4

---
 requirements.txt | 2 +-
 setup.py         | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/requirements.txt b/requirements.txt
index 98baa60a..9c5ac5ca 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,4 +1,4 @@
-torch>=1.0
+torch>=1.0,<1.5
 tqdm
 tensorboardX
 scipy
diff --git a/setup.py b/setup.py
index b92399ae..ca296e40 100644
--- a/setup.py
+++ b/setup.py
@@ -11,7 +11,7 @@
 setup(
     name='tape_proteins',
     packages=find_packages(),
-    version='0.3',
+    version='0.4',
     description="Repostory of Protein Benchmarking and Modeling",
     author="Roshan Rao, Nick Bhattacharya, Neil Thomas",
     author_email='roshan_rao@berkeley.edu, nickbhat@berkeley.edu, nthomas@berkeley.edu',

From 1d71bc8a456e2b9f7af0dbc6c45a1d3190165019 Mon Sep 17 00:00:00 2001
From: Roshan Rao <roshan_rao@berkeley.edu>
Date: Fri, 1 May 2020 09:25:48 -0700
Subject: [PATCH 2/3] read requirements from requirements.txt

---
 setup.py | 14 ++++----------
 1 file changed, 4 insertions(+), 10 deletions(-)

diff --git a/setup.py b/setup.py
index ca296e40..baa86a9d 100644
--- a/setup.py
+++ b/setup.py
@@ -8,6 +8,9 @@
 with open('LICENSE', 'r') as lf:
     LICENSE = lf.read()
 
+with open('requirements.txt', 'r') as reqs:
+    requirements = reqs.read().split()
+
 setup(
     name='tape_proteins',
     packages=find_packages(),
@@ -19,16 +22,7 @@
     license=LICENSE,
     keywords=['Proteins', 'Deep Learning', 'Pytorch', 'TAPE'],
     include_package_data=True,
-    install_requires=[
-        'torch>=1.0',
-        'tqdm',
-        'tensorboardX',
-        'scipy',
-        'lmdb',
-        'boto3',
-        'requests',
-        'biopython',
-    ],
+    install_requires=requirements,
     entry_points={
         'console_scripts': [
             'tape-train = tape.main:run_train',

From 0cfd2030f12bd708217110de8c0c1cc0a4bf2f3a Mon Sep 17 00:00:00 2001
From: Roshan Rao <roshan_rao@berkeley.edu>
Date: Fri, 1 May 2020 09:31:02 -0700
Subject: [PATCH 3/3] set version in __init__.py

---
 setup.py         | 15 ++++++++++++++-
 tape/__init__.py |  2 ++
 2 files changed, 16 insertions(+), 1 deletion(-)

diff --git a/setup.py b/setup.py
index baa86a9d..7f67c0e4 100644
--- a/setup.py
+++ b/setup.py
@@ -1,5 +1,18 @@
 # -*- coding: utf-8 -*-
 from setuptools import setup, find_packages
+import os
+
+
+def get_version():
+    directory = os.path.abspath(os.path.dirname(__file__))
+    init_file = os.path.join(directory, 'tape', '__init__.py')
+    with open(init_file) as f:
+        for line in f:
+            if line.startswith('__version__'):
+                delim = '"' if '"' in line else "'"
+                return line.split(delim)[1]
+        else:
+            raise RuntimeError("Unable to find version string.")
 
 
 with open('README.md', 'r') as rf:
@@ -14,7 +27,7 @@
 setup(
     name='tape_proteins',
     packages=find_packages(),
-    version='0.4',
+    version=get_version(),
     description="Repostory of Protein Benchmarking and Modeling",
     author="Roshan Rao, Nick Bhattacharya, Neil Thomas",
     author_email='roshan_rao@berkeley.edu, nickbhat@berkeley.edu, nthomas@berkeley.edu',
diff --git a/tape/__init__.py b/tape/__init__.py
index 70b2bd30..c847a435 100644
--- a/tape/__init__.py
+++ b/tape/__init__.py
@@ -9,6 +9,8 @@
 import importlib
 import pkgutil
 
+__version__ = '0.4'
+
 
 # Import all the models and configs
 for _, name, _ in pkgutil.iter_modules([str(Path(__file__).parent / 'models')]):