Python 3 compatibility: provide apply for ipython tasks

Provides an apply function for ipython tasks, since this gets
used for unpacking tuples as part of calling and apply is not
available on py3k. Fixes #2741

HISTORY.md

@@ -1,3 +1,7 @@
+## 1.1.5 (in progress)
+
+- Fixes for Python3 incompatibilities on distributed IPython runs.
+
 ## 1.1.4 (3 April 2019)
 
 - Move to Python 3.6. A python2 environment in the install runs non python3

bcbio/distributed/ipythontasks.py

@@ -68,7 +68,18 @@ def wrapper(*args):
             return ipython.zip_args(fn(*args))
     return wrapper
 
-@require(sample)
+def apply(object, args=None, kwargs=None):
+    """Python3 apply replacement for double unpacking of inputs during apply.
+
+    Thanks to: https://github.com/stefanholek/apply
+    """
+    if args is None:
+        args = ()
+    if kwargs is None:
+        kwargs = {}
+    return object(*args, **kwargs)
+
+require(sample)
 def prepare_sample(*args):
     args = ipython.unzip_args(args)
     with _setup_logging(args) as config:

setup.py

@@ -4,7 +4,7 @@
 import os
 from setuptools import setup, find_packages
 
-version = "1.1.4"
+version = "1.1.5a"
 
 def write_version_py():
     version_py = os.path.join(os.path.dirname(__file__), 'bcbio', 'pipeline',