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Unit test #132

Merged
merged 64 commits into from
Sep 6, 2023
Merged

Unit test #132

merged 64 commits into from
Sep 6, 2023

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jpjarnoux
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Made some refactoring and add unitary test to all classes

jpjarnoux and others added 30 commits May 12, 2023 15:56
@jpjarnoux
Add pathlib to get path of input file in annot
bbef096
@jpjarnoux
Replace str by Path in cluster
70f4e71
@jpjarnoux
Remove old option defrag
412bfbb
@jpjarnoux
Rafactoring and change for pathlib
de84b00
@jpjarnoux
Refactor info
074e8b2
@jpjarnoux
Refactor and replace str by path in arguments
8787c4a
@jpjarnoux
Refactor and replace str by path in arguments for write files
0c9c911
@jpjarnoux
Remove getLogger from logging
991dc87
@jpjarnoux
Refactor partition and rarefaction
d8f04c2
@jpjarnoux
Refactor region and spot
459fb3f
@jpjarnoux
Merge branch 'dev' into refactoring
0d92af1
@jpjarnoux
Add getLogger(PPanggolin) for other tools utilization
6623c84
@jpjarnoux
Refactor to respect PEP
7f37edb
@jpjarnoux
Update requirements.txt
185acb0
@jpjarnoux
Refactor Metric
74c5c40
@jpjarnoux
Merge branch 'refactoring' of https://github.com/labgem/PPanGGOLiN in…
b53c64f 
…to refactoring
@jpjarnoux
Fix bug with removed option
9d7a7c4
@jpjarnoux
Change for unit test
70dd691
@jpjarnoux
Merge branch 'refactoring' into metadata
175fb4d
@jpjarnoux
Add unit Test for Pangenome and Metadata
483a2bc
@jpjarnoux
Last refactor pangenome class
7da7345
@jpjarnoux
Write 102 tests for Pangenome Class
76e5166
@jpjarnoux
Test for Features and Gene
eb7f95f
@jpjarnoux
Change that RGP is unique and not set in gene
36ed9be
@jpjarnoux
Fix writeFlat after RGP gene modif
4e16c8b
@jpjarnoux
refactor contig class
104c71a
@jpjarnoux
Tests contig class
97547b2
@jpjarnoux
Refactor and test of Genomes classes
2e8272c
@jpjarnoux
Refactor GenFamily class
03f46d0
@jpjarnoux
Make number_of_* as property in GeneFamily
21f34f2
@JeanMainguy JeanMainguy self-requested a review September 6, 2023 10:11
@JeanMainguy JeanMainguy merged commit b741bbb into dev Sep 6, 2023
12 checks passed
@JeanMainguy JeanMainguy deleted the unitTest branch September 6, 2023 12:57
JeanMainguy added a commit that referenced this pull request Sep 15, 2023
@JeanMainguy
fix issue in adding gene in contig introduced in PR #132
7e460db
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@JeanMainguy JeanMainguy JeanMainguy approved these changes

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@jpjarnoux @JeanMainguy