From 921b15efe75dbde8b6f2e3bb85fe648cba73f0db Mon Sep 17 00:00:00 2001
From: Ben Darwin <bcdarwin@gmail.com>
Date: Wed, 7 Oct 2020 13:49:17 -0400
Subject: [PATCH 1/2] python3Packages.nipype: remove Python 2 support
 (dependency nibabel already unsupported)

---
 pkgs/development/python-modules/nipype/default.nix | 13 ++-----------
 1 file changed, 2 insertions(+), 11 deletions(-)

diff --git a/pkgs/development/python-modules/nipype/default.nix b/pkgs/development/python-modules/nipype/default.nix
index 80ee7691a1a..c621341b2f8 100644
--- a/pkgs/development/python-modules/nipype/default.nix
+++ b/pkgs/development/python-modules/nipype/default.nix
@@ -1,23 +1,19 @@
 { stdenv
 , buildPythonPackage
 , fetchPypi
-, isPy3k
-, isPy38
+, isPy27
 # python dependencies
 , click
-, configparser ? null
 , dateutil
 , etelemetry
 , filelock
 , funcsigs
 , future
-, futures
 , mock
 , networkx
 , nibabel
 , numpy
 , packaging
-, pathlib2
 , prov
 , psutil
 , pybids
@@ -39,8 +35,6 @@
 , callPackage
 }:
 
-assert !isPy3k -> configparser != null;
-
 let
 
  # This is a temporary convenience package for changes waiting to be merged into the primary rdflib repo.
@@ -51,6 +45,7 @@ in
 buildPythonPackage rec {
   pname = "nipype";
   version = "1.5.1";
+  disabled = isPy27;
 
   src = fetchPypi {
     inherit pname version;
@@ -85,10 +80,6 @@ buildPythonPackage rec {
     simplejson
     traits
     xvfbwrapper
-  ] ++ stdenv.lib.optionals (!isPy3k) [
-    configparser
-    futures
-    pathlib2 # darwin doesn't receive this transitively, but it is in install_requires
   ];
 
   checkInputs = [

From f31be2ec2576f787811ae1ddd900c322b84a5ab2 Mon Sep 17 00:00:00 2001
From: Ben Darwin <bcdarwin@gmail.com>
Date: Wed, 7 Oct 2020 14:02:26 -0400
Subject: [PATCH 2/2] python3Packages.nipype: avoid use of neurdflib by default
 since it causes a package collision when rdflib is in the closure

---
 pkgs/development/python-modules/nipype/default.nix | 8 ++++++--
 1 file changed, 6 insertions(+), 2 deletions(-)

diff --git a/pkgs/development/python-modules/nipype/default.nix b/pkgs/development/python-modules/nipype/default.nix
index c621341b2f8..2d8eaecf775 100644
--- a/pkgs/development/python-modules/nipype/default.nix
+++ b/pkgs/development/python-modules/nipype/default.nix
@@ -21,6 +21,7 @@
 , pytest
 , pytest_xdist
 , pytest-forked
+, rdflib
 , scipy
 , simplejson
 , traits
@@ -33,6 +34,10 @@
 , bash
 , glibcLocales
 , callPackage
+# causes Python packaging conflict with any package requiring rdflib,
+# so use the unpatched rdflib by default (disables Nipype provenance tracking);
+# see https://github.com/nipy/nipype/issues/2888:
+, useNeurdflib ? false
 }:
 
 let
@@ -69,7 +74,6 @@ buildPythonPackage rec {
     funcsigs
     future
     networkx
-    neurdflib
     nibabel
     numpy
     packaging
@@ -80,7 +84,7 @@ buildPythonPackage rec {
     simplejson
     traits
     xvfbwrapper
-  ];
+  ] ++ [ (if useNeurdflib then neurdflib else rdflib) ];
 
   checkInputs = [
     pybids