[med-svn] [Git][med-team/gubbins][upstream] New upstream version 2.4.0

[Steffen Möller]

Steffen Möller pushed to branch upstream at Debian Med / gubbins


Commits:
292f4685 by Steffen Moeller at 2020-01-08T12:59:28+01:00
New upstream version 2.4.0
- - - - -


30 changed files:

- Dockerfile
- README.md
- VERSION
- − depcomp
- example_data/PMEN1/README.md
- install_dependencies.sh
- − ltmain.sh
- − missing
- python/gubbins/PreProcessFasta.py
- − python/gubbins/RAxMLExecutable.py
- − python/gubbins/RAxMLSequenceReconstruction.py
- python/gubbins/common.py
- + python/gubbins/tests/__init__.py
- + python/gubbins/tests/data/concatenate_fasta_files.aln.expected
- python/gubbins/tests/data/raxml_sequence_reconstruction/expected_rooted_tree.newick → python/gubbins/tests/data/expected_rooted_tree.newick
- + python/gubbins/tests/data/further_alignment.aln
- + python/gubbins/tests/data/iqtree_ancestral.fasta.expected
- + python/gubbins/tests/data/iqtree_ancestral.state
- + python/gubbins/tests/data/raxml_ancestral.fasta.expected
- + python/gubbins/tests/data/raxml_ancestral.state
- − python/gubbins/tests/data/raxml_sequence_reconstruction/1.fasta
- − python/gubbins/tests/data/raxml_sequence_reconstruction/2.fasta
- − python/gubbins/tests/data/raxml_sequence_reconstruction/expected_ancestor_sequence_from_raxml
- − python/gubbins/tests/data/raxml_sequence_reconstruction/expected_combined_1_2.fasta
- − python/gubbins/tests/data/raxml_sequence_reconstruction/expected_marginalAncestralStates.fasta
- − python/gubbins/tests/data/raxml_sequence_reconstruction/input_alignment.fasta
- − python/gubbins/tests/data/raxml_sequence_reconstruction/raw_marginalAncestralStates.phylip
- python/gubbins/tests/data/small_alignment.aln
- python/gubbins/tests/data/raxml_sequence_reconstruction/unrooted_tree.newick → python/gubbins/tests/data/unrooted_tree.newick
- python/gubbins/tests/test_alignment_python_methods.py


The diff was not included because it is too large.


View it on GitLab: https://salsa.debian.org/med-team/gubbins/commit/292f4685c23106a642c39a4c372ca71b9c397b67

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View it on GitLab: https://salsa.debian.org/med-team/gubbins/commit/292f4685c23106a642c39a4c372ca71b9c397b67
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