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* gnu/packages/patches/python-dendropy-fix-tests.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it. * gnu/packages/bioinformatics.scm (python-dendropy)[source]: Add patch.
41 lines
1.5 KiB
Diff
41 lines
1.5 KiB
Diff
This patch fixes two test failures. It was downloaded from:
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https://github.com/jeetsukumaran/DendroPy/commit/93f984bba7a6c588a28ca87f4e557ce283809453
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From 93f984bba7a6c588a28ca87f4e557ce283809453 Mon Sep 17 00:00:00 2001
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From: jeetsukumaran <jeetsukumaran@gmail.com>
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Date: Tue, 21 Feb 2017 16:41:01 -0500
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Subject: [PATCH] Update to Python 3 container and iteration semantics
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---
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dendropy/dataio/newickreader.py | 3 ++-
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dendropy/datamodel/treemodel.py | 3 +++
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2 files changed, 5 insertions(+), 1 deletion(-)
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diff --git a/dendropy/dataio/newickreader.py b/dendropy/dataio/newickreader.py
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index 6dcf3c5..f978729 100644
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--- a/dendropy/dataio/newickreader.py
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+++ b/dendropy/dataio/newickreader.py
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@@ -303,7 +303,8 @@ def tree_iter(self,
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taxon_symbol_map_fn=taxon_symbol_mapper.require_taxon_for_symbol)
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yield tree
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if tree is None:
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- raise StopIteration
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+ # raise StopIteration
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+ return
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def _read(self,
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stream,
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diff --git a/dendropy/datamodel/treemodel.py b/dendropy/datamodel/treemodel.py
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index 0ecfe31..73146f0 100644
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--- a/dendropy/datamodel/treemodel.py
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+++ b/dendropy/datamodel/treemodel.py
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@@ -772,6 +772,9 @@ def __hash__(self):
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def __eq__(self, other):
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return self is other
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+ def __lt__(self, other):
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+ return id(self) < id(other)
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+
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###########################################################################
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### Basic Structure
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