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vidjil
vidjil
Commits
83a82c10
Commit
83a82c10
authored
Feb 24, 2015
by
Mathieu Giraud
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tests: update tests for format_json.py
.json elements are sorted now by keys.
parent
cb1106a3
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algo/tests/stanford-data.should_get
algo/tests/stanford-data.should_get
+3
-3
algo/tests/stanford-fuse.should_get
algo/tests/stanford-fuse.should_get
+2
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algo/tests/stanford-data.should_get
View file @
83a82c10
!LAUNCH: ../../vidjil -G ../../germline/IGH -r 5 -b data ../../data/Stanford_S22.fasta ; cat out/data.vidjil | python ../../tools/format_json.py
!LAUNCH: ../../vidjil -G ../../germline/IGH -r 5 -b data ../../data/Stanford_S22.fasta ; cat out/data.vidjil | python ../../tools/format_json.py
-1
$ Number of reads
e1:"total": [13153]
,
e1:"total": [13153]
$ Number of segmented reads
e1:"segmented": [13139]
$ Most abundant window
e1:"id": "CCACCTATTACTGTACCCGGGAGGAACAATATAGCAGCTGGTACTTTGACTTCTGGGGCC", "reads": [8
]
1:"id": "CCACCTATTACTGTACCCGGGAGGAACAATATAGCAGCTGGTACTTTGACTTCTGGGGCC".*"reads": \\[8\\
]
algo/tests/stanford-fuse.should_get
View file @
83a82c10
!LAUNCH: ../../vidjil -G ../../germline/IGH ../../data/Stanford_S22.fasta ; python ../../tools/fuse.py out/Stanford_S22.vidjil out/Stanford_S22.vidjil -o out/fused.data ; cat out/fused.data | python ../../tools/format_json.py
!LAUNCH: ../../vidjil -G ../../germline/IGH ../../data/Stanford_S22.fasta ; python ../../tools/fuse.py out/Stanford_S22.vidjil out/Stanford_S22.vidjil -o out/fused.data ; cat out/fused.data | python ../../tools/format_json.py
-1
$ Points list
e1:"original_names": ["../../data/Stanford_S22.fasta", "../../data/Stanford_S22.fasta"]
$ Most abundant window, twice, fused
1:"
reads": \\[8, 8\\].*"id": "CCACCTATTACTGTACCCGGGAGGAACAATATAGCAGCTGGTACTTTGACTTCTGGGGCC"},
.*"top": 2
1:"
id": "CCACCTATTACTGTACCCGGGAGGAACAATATAGCAGCTGGTACTTTGACTTCTGGGGCC".*"reads": \\[8, 8\\]
.*"top": 2
# Fails since 49046ca6b97, no more 'others'
$ Windows that are not in the top 50
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