gene-matcher 0.1.2 → 0.1.4
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/lib/alignment.rb +12 -12
- data/lib/gene-matcher.rb +2 -1
- metadata +2 -2
checksums.yaml
CHANGED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
---
|
|
2
2
|
SHA256:
|
|
3
|
-
metadata.gz:
|
|
4
|
-
data.tar.gz:
|
|
3
|
+
metadata.gz: 3d31a639b4faa8f8c6b0625564377d8e43e2acd18e5aba9de696e04dd2c6de60
|
|
4
|
+
data.tar.gz: cea3e517c62db70b871dca04869622a3a5d89abaf618e0d3b36851a57ecb82fd
|
|
5
5
|
SHA512:
|
|
6
|
-
metadata.gz:
|
|
7
|
-
data.tar.gz:
|
|
6
|
+
metadata.gz: ad793ca6d4bb5e5b01bbf019e47d0835dbdbb02327683ffa68d82e10101bfb0b0b3c8202a8d0050b56cce0d9d209e03b5d045ec218b57e12fcc222f716697665
|
|
7
|
+
data.tar.gz: 87c261393441dbe6ac39ff701b2c73201beddddad184c6e0379a53aa9d25ee05609ec95a03ca7576b4c03aaf66ca0e282fedb34d5bb4a8478b1e615d9c91a128
|
data/lib/alignment.rb
CHANGED
|
@@ -21,22 +21,22 @@ class Alignment
|
|
|
21
21
|
@reversed = false
|
|
22
22
|
# 逆の鎖
|
|
23
23
|
@aside = false
|
|
24
|
-
#
|
|
25
|
-
@source =
|
|
24
|
+
# アライメント対象配列の取得先情報(任意)。例えば、データベースのテーブル名やIDなど。
|
|
25
|
+
@source = {}
|
|
26
26
|
end
|
|
27
27
|
|
|
28
28
|
def init_from_hash(h)
|
|
29
29
|
# 引数のハッシュから初期化
|
|
30
|
-
@score = h[
|
|
31
|
-
@alignmentI = h[
|
|
32
|
-
@alignmentJ = h[
|
|
33
|
-
@startI = h[
|
|
34
|
-
@startJ = h[
|
|
35
|
-
@endI = h[
|
|
36
|
-
@endJ = h[
|
|
37
|
-
@reversed = h[
|
|
38
|
-
@aside = h[
|
|
39
|
-
@source = h[
|
|
30
|
+
@score = h["score"]
|
|
31
|
+
@alignmentI = h["alignmentI"]
|
|
32
|
+
@alignmentJ = h["alignmentJ"]
|
|
33
|
+
@startI = h["startI"]
|
|
34
|
+
@startJ = h["startJ"]
|
|
35
|
+
@endI = h["endI"]
|
|
36
|
+
@endJ = h["endJ"]
|
|
37
|
+
@reversed = h["reversed"]
|
|
38
|
+
@aside = h["aside"]
|
|
39
|
+
@source = h["source"]
|
|
40
40
|
end
|
|
41
41
|
|
|
42
42
|
# 二つの配列の一致部分と不一致部分を表した文字列を返す。
|
data/lib/gene-matcher.rb
CHANGED
|
@@ -11,9 +11,10 @@ class Matcher
|
|
|
11
11
|
@alignments = []
|
|
12
12
|
end
|
|
13
13
|
|
|
14
|
-
def scan(target_sequence)
|
|
14
|
+
def scan(target_sequence,source = {})
|
|
15
15
|
sw = SmithWaterman.instance
|
|
16
16
|
a = sw.alignment(target_sequence, @input_sequence)
|
|
17
|
+
a.source = source
|
|
17
18
|
@alignments += [a] if a.score >= @limit
|
|
18
19
|
end
|
|
19
20
|
end
|
metadata
CHANGED
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: gene-matcher
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 0.1.
|
|
4
|
+
version: 0.1.4
|
|
5
5
|
platform: ruby
|
|
6
6
|
authors:
|
|
7
7
|
- ITO Yosei
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date: 2023-08-
|
|
11
|
+
date: 2023-08-31 00:00:00.000000000 Z
|
|
12
12
|
dependencies: []
|
|
13
13
|
description: Algorithm for determining similar regions between nucleic acid sequences.
|
|
14
14
|
email: y-itou@lumber-mill.co.jp
|