rbbt-sources 3.1.8 → 3.1.9
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/rbbt/sources/corum.rb +8 -5
- metadata +3 -3
checksums.yaml
CHANGED
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
---
|
|
2
2
|
SHA1:
|
|
3
|
-
metadata.gz:
|
|
4
|
-
data.tar.gz:
|
|
3
|
+
metadata.gz: 4de6a2e2ce1b66916e6bfc8f0e336eca6b55e6a6
|
|
4
|
+
data.tar.gz: 5cae8b56631ed29ef195f22fc36c73015dce86eb
|
|
5
5
|
SHA512:
|
|
6
|
-
metadata.gz:
|
|
7
|
-
data.tar.gz:
|
|
6
|
+
metadata.gz: c99d530f44054a5e2ddbb8dde13f182c1581172f73455051115045debb1efb140be2d42cb3c40e6156bfaf44bb3dc91c59d05af64967485031d9b81360a5e412
|
|
7
|
+
data.tar.gz: e4a3100bb65cbb65ca6ca7dec42c5f666b500157891a130cf34d86310aa544feac3739aae05efc347c47abf2195d05cf9d801dc218efe758066517f33e06ffec
|
data/lib/rbbt/sources/corum.rb
CHANGED
|
@@ -1,5 +1,6 @@
|
|
|
1
1
|
require 'rbbt-util'
|
|
2
2
|
require 'rbbt/resource'
|
|
3
|
+
require 'rbbt/sources/organism'
|
|
3
4
|
|
|
4
5
|
module CORUM
|
|
5
6
|
extend Resource
|
|
@@ -10,17 +11,19 @@ module CORUM
|
|
|
10
11
|
end
|
|
11
12
|
|
|
12
13
|
CORUM.claim CORUM.complex_names, :proc do
|
|
13
|
-
url = "http://mips.helmholtz-muenchen.de/
|
|
14
|
-
tsv = TSV.open(url, :header_hash => "", :
|
|
14
|
+
url = "http://mips.helmholtz-muenchen.de/corum/download/allComplexes.txt"
|
|
15
|
+
tsv = TSV.open(url, :header_hash => "", :sep2 => ';', :fix => Proc.new{|l| "CORUM:" + l.gsub('"','')})
|
|
15
16
|
tsv.namespace = organism
|
|
16
17
|
tsv.fields = tsv.fields.collect{|f| f.gsub('"','')}
|
|
17
18
|
tsv.key_field = "CORUM Complex ID"
|
|
18
|
-
tsv.slice("
|
|
19
|
+
tsv = tsv.slice("ComplexName").to_single
|
|
20
|
+
tsv.fields = ["Complex name"]
|
|
21
|
+
tsv
|
|
19
22
|
end
|
|
20
23
|
|
|
21
24
|
CORUM.claim CORUM.complexes, :proc do
|
|
22
|
-
url = "http://mips.helmholtz-muenchen.de/
|
|
23
|
-
tsv = TSV.open(url, :header_hash => "", :
|
|
25
|
+
url = "http://mips.helmholtz-muenchen.de/corum/download/allComplexes.txt"
|
|
26
|
+
tsv = TSV.open(url, :header_hash => "", :sep2 => ';', :fix => Proc.new{|l| "CORUM:" + l.gsub('"','')})
|
|
24
27
|
tsv.namespace = organism
|
|
25
28
|
tsv.fields = tsv.fields.collect{|f| f.gsub('"','')}.collect{|f|
|
|
26
29
|
case f
|
metadata
CHANGED
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: rbbt-sources
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 3.1.
|
|
4
|
+
version: 3.1.9
|
|
5
5
|
platform: ruby
|
|
6
6
|
authors:
|
|
7
7
|
- Miguel Vazquez
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date:
|
|
11
|
+
date: 2017-01-30 00:00:00.000000000 Z
|
|
12
12
|
dependencies:
|
|
13
13
|
- !ruby/object:Gem::Dependency
|
|
14
14
|
name: rbbt-util
|
|
@@ -175,7 +175,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
|
|
|
175
175
|
version: '0'
|
|
176
176
|
requirements: []
|
|
177
177
|
rubyforge_project:
|
|
178
|
-
rubygems_version: 2.
|
|
178
|
+
rubygems_version: 2.6.6
|
|
179
179
|
signing_key:
|
|
180
180
|
specification_version: 4
|
|
181
181
|
summary: Data sources for the Ruby Bioinformatics Toolkit (rbbt)
|