added setup.cfg

Mark version 0.1.0
Add python_requires
add long_description

cellxgene_gateway/filecrawl.py

@@ -1,3 +1,12 @@
+# Copyright 2019 Novartis Institutes for BioMedical Research Inc. Licensed
+# under the Apache License, Version 2.0 (the "License"); you may not use
+# this file except in compliance with the License. You may obtain a copy
+# of the License at http://www.apache.org/licenses/LICENSE-2.0. Unless
+# required by applicable law or agreed to in writing, software distributed
+# under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES
+# OR CONDITIONS OF ANY KIND, either express or implied. See the License for
+# the specific language governing permissions and limitations under the License.
+
 import os
 from cellxgene_gateway import env
 from cellxgene_gateway.dir_util import make_h5ad, make_annotations, annotations_suffix

cellxgene_gateway/flask_util.py

@@ -1,3 +1,12 @@
+# Copyright 2019 Novartis Institutes for BioMedical Research Inc. Licensed
+# under the Apache License, Version 2.0 (the "License"); you may not use
+# this file except in compliance with the License. You may obtain a copy
+# of the License at http://www.apache.org/licenses/LICENSE-2.0. Unless
+# required by applicable law or agreed to in writing, software distributed
+# under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES
+# OR CONDITIONS OF ANY KIND, either express or implied. See the License for
+# the specific language governing permissions and limitations under the License.
+
 from flask import request
 
 def querystring():

cellxgene_gateway/gateway.py

@@ -23,7 +23,7 @@ from flask import (
     url_for,
 )
 from flask_api import status
-from werkzeug import secure_filename
+from werkzeug.utils import secure_filename
 
 from cellxgene_gateway import env
 from cellxgene_gateway.backend_cache import BackendCache

cellxgene_gateway/process_exception.py

@@ -9,7 +9,7 @@
 
 
 class ProcessException(Exception):
-    def __init__(self, message, stdout, stderr, http_status, dataset):
+    def __init__(self, message, stdout, stderr, http_status, key):
         Exception.__init__(self)
         self.message = message
         self.stdout = stdout

environment-dev.yml

@@ -8,4 +8,4 @@ dependencies:
 - psutil
 - pip:
   - flask-api
-  - cellxgene
+  - cellxgene==0.14.1

requirements.txt

@@ -1,4 +1,4 @@
-cellxgene
+cellxgene==0.14.1
 flask
 flask_api
 psutil

setup.cfg

@@ -0,0 +1,2 @@
+[metadata]
+description-file = README.md

setup.py

@@ -1,7 +1,6 @@
 import os
 from setuptools import setup
 
-
 def parse_requirements():
     reqs = []
     with open("requirements.txt", "r") as f:
@@ -9,6 +8,8 @@ def parse_requirements():
             reqs.append(l.strip("\n"))
     return reqs
 
+with open("README.md", "r") as fh:
+    long_description = fh.read()
 
 install_reqs = parse_requirements()
 
@@ -16,11 +17,13 @@ setup(
     # mandatory
     name="cellxgene-gateway",
     # mandatory
-    version="0.1",
+    version="0.1.0",
     # mandatory
     author="Niket Patel, Yohann Potier, Alok Saldanha",
     author_email="alok.saldanha@novartis.com",
     description=("Cellxgene Gateway"),
+    long_description=long_description,
+    long_description_content_type="text/markdown",
     license="MIT",
     keywords="visualization, genomics",
     url="http://github.com/Novartis/cellxgene-gateway",
@@ -31,10 +34,11 @@ setup(
             "static/nibr.ico",
             "templates/*.html"
     ]},
-    data_files=[('', ['Readme.md', 'LICENSE.txt'])],
+    data_files=[('', ['README.md', 'LICENSE'])],
     install_requires=install_reqs,
     entry_points={
         "console_scripts": ["cellxgene-gateway=cellxgene_gateway.gateway:main"]
     },
     classifiers=["Topic :: Scientific/Engineering :: Visualization"],
+    python_requires='>=3.6',
 )