Merge e104fae into 86426b4

.travis.yml

@@ -5,14 +5,8 @@ python:
 - '3.7-dev'
 
 install:
-- pip install --upgrade pip
-# fix fpzip problem
-# - pip install numpy==1.16
-# fix neuroglancer problem
-- pip install tornado==5.0
-- pip install fpzip
 - pip install -r requirements.txt
-- pip install -e .  
+- python setup.py install  
 
 before_script:
 - pip install coveralls

chunkflow/flow.py

@@ -156,7 +156,7 @@ def generate_task_cmd(offset, shape):
 @click.option('--visibility-timeout', type=int, default=None,
               help='visibility timeout of sqs queue; default is using the timeout of the queue.')
 @generator 
-def fetch_task_cmd(queue_name, offset, shape, visibility_timeout):
+def fetch_task_cmd(queue_name, visibility_timeout):
     """[generator] Fetch task from queue."""
     task = initialize_task()
     queue = SQSQueue(queue_name, visibility_timeout=visibility_timeout)

requirements.txt

@@ -0,0 +1,11 @@
+numpy>=1.16
+cloud-volume>=0.47.0
+click 
+scikit-image>=0.14.2
+six>=1.12.0
+boto3
+h5py
+tifffile
+neuroglancer
+tinybrain
+zmesh

setup.py

@@ -1,10 +1,20 @@
 from setuptools import setup, find_packages
 
-version = '0.3.0'
+version = '0.3.1'
 
 with open("README.md", "r") as fh:
     long_description = fh.read()
 
+# This is a fix for numpy to work with setuptools
+# https://github.com/numpy/numpy/blob/master/setup.py
+# This is a bit hackish: we are setting a global variable so that the main
+# numpy __init__ can detect if it is being loaded by the setup routine, to
+# avoid attempting to load components that aren't built yet.  While ugly, it's
+# a lot more robust than what was previously being used.
+import builtins
+builtins.__NUMPY_SETUP__ = True
+
+
 setup(
     name='chunkflow',
     description='Large Scale 3d Convolution Net Inference',
@@ -18,12 +28,13 @@
     url='https://github.com/seung-lab/chunkflow',
     install_requires=[
         'click',
-        'numpy',
+        'numpy>=1.16',
         'cloud-volume',
         'scikit-image',
         'boto3',
         'h5py',
         'tifffile',
+        'tornado==5.0',
         'neuroglancer',
         'tinybrain',
         'zmesh'