Fix compatibility with ReportLab 3.5

python-biopython (1.72+dfsg-2) UNRELEASED; urgency=medium

  [ Andreas Tille ]

  * Remove unneeded comment about samtools - which is not found by biopython

    anyway

  [ Graham Inggs ]

  * Fix compatibility with ReportLab 3.5 (Closes: #913064)

 -- Andreas Tille <tille@debian.org>  Sat, 28 Jul 2018 05:06:54 +0200

python-biopython (1.72+dfsg-1) unstable; urgency=medium

Description: Fix compatibility with ReportLab 3.5

Bug: https://github.com/biopython/biopython/issues/1737

Bug-Debian: https://bugs.debian.org/913064

Origin: upstream, https://github.com/biopython/biopython/commit/c7b909e842139f82d87639f3080bc45ff9613cca

Origin: upstream, https://github.com/biopython/biopython/commit/a5fe524925f42370349ceb50aa57aa1129d384d8

Author: Peter Cock <p.j.a.cock@googlemail.com>

Last-Update: 2018-08-13

--- a/Tests/test_GenomeDiagram.py

+++ b/Tests/test_GenomeDiagram.py

@@ -47,6 +47,8 @@

 from Bio.Graphics.GenomeDiagram._Graph import GraphData

 from Bio.Graphics.GenomeDiagram._Colors import ColorTranslator

+from reportlab import rl_config

+rl_config.invariant = True

 def fill_and_border(base_color, alpha=0.5):

     try:

@@ -765,9 +767,7 @@

         gdd.write(output_filename, 'PDF')

         # Also check the write_to_string (bytes string) method matches,

-        # (Note the possible confusion over new lines on Windows)

-        assert open(output_filename, "rb").read().replace(b"\r\n", b"\n") \

-               == gdd.write_to_string('PDF').replace(b"\r\n", b"\n")

+        assert open(output_filename, "rb").read() == gdd.write_to_string('PDF')

         output_filename = os.path.join('Graphics', 'GD_region_linear.svg')

         gdd.write(output_filename, 'SVG')

remove_mathml-qname.patch

privacy_breach.patch

reportlab3.5.patch