[med-svn] [circlator] 02/04: Merge tag 'upstream/1.5.1'

[Sascha Steinbiss]

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satta pushed a commit to branch master
in repository circlator.

commit db03f0948c80e6dbcaf93dad3685bacd9fa5e747
Merge: 92736a6 e6369ca
Author: Sascha Steinbiss <satta at debian.org>
Date:   Fri Jun 23 11:58:57 2017 +0200

    Merge tag 'upstream/1.5.1'
    
    Upstream version 1.5.1

 AUTHORS                                            |  2 +
 circlator/assemble.py                              | 69 +++++++++++++++--
 circlator/assembly.py                              | 90 +++++++++++++++-------
 circlator/bamfilter.py                             | 32 +++++++-
 circlator/common.py                                |  3 +
 circlator/external_progs.py                        | 17 +++-
 circlator/merge.py                                 | 25 ++++--
 circlator/tasks/all.py                             | 17 +++-
 circlator/tasks/assemble.py                        |  6 +-
 circlator/tasks/bam2reads.py                       |  2 +
 circlator/tasks/merge.py                           |  8 ++
 circlator/tests/assemble_test.py                   | 33 ++++++++
 circlator/tests/assembly_test.py                   | 30 +++++---
 .../assemble_test_rename_canu_contigs.expect.fa    |  8 ++
 .../data/assemble_test_rename_canu_contigs.in.fa   |  8 ++
 .../assembly_test_circular_contigs_from_canu.gfa   | 14 ++++
 circlator/versions.py                              |  4 +-
 install_dependencies.sh                            | 10 +++
 setup.py                                           |  4 +-
 19 files changed, 314 insertions(+), 68 deletions(-)

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