bio-old-biofetch-emulator 0.0.0 → 1.0.0
Sign up to get free protection for your applications and to get access to all the features.
- checksums.yaml +4 -4
- data/Gemfile +1 -0
- data/README.md +11 -5
- data/VERSION +1 -1
- data/lib/bio-old-biofetch-emulator/emulator.rb +1 -1
- metadata +17 -5
- data/README.rdoc +0 -48
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
|
|
1
1
|
---
|
2
2
|
SHA1:
|
3
|
-
metadata.gz:
|
4
|
-
data.tar.gz:
|
3
|
+
metadata.gz: 6063359e7cc574c81fadc4f05d94c9b51f04a637
|
4
|
+
data.tar.gz: 26c964f546b085e77b3bd8e19c17281d55109d89
|
5
5
|
SHA512:
|
6
|
-
metadata.gz:
|
7
|
-
data.tar.gz:
|
6
|
+
metadata.gz: f83818bc07b70c7c405cdc802d706fa68da4e1c5707f7ec476d1df3fd3304b390378b94c1bf31e94cc099bef86ec77f60fecb5d505f1f5da183f1178fd9b33f2
|
7
|
+
data.tar.gz: e6c09a645323c5c1733441174680bfd8efa866292e251d3a6fcee23854d01e882307e81c041ac2cf81ab6f931a7ca857c1f7b1b06b4584b18f494761eaa422a6
|
data/Gemfile
CHANGED
data/README.md
CHANGED
@@ -2,9 +2,14 @@
|
|
2
2
|
|
3
3
|
[![Build Status](https://secure.travis-ci.org/ngoto/bioruby-old-biofetch-emulator.png)](http://travis-ci.org/ngoto/bioruby-old-biofetch-emulator)
|
4
4
|
|
5
|
-
|
5
|
+
Emulator that emulates Bio::Fetch object in BioRuby as if discontinued
|
6
|
+
BioRuby BioFetch server were still alive. It overrides methods and objects
|
7
|
+
in Bio::Fetch, and if the old BioRuby BioFetch server's URL is given,
|
8
|
+
it intercepts all requests and converts them into existing web services
|
9
|
+
such as TogoWS, KEGG REST API, NCBI E-Utilities, and GenomeNet(genome.jp).
|
6
10
|
|
7
|
-
Note: this software
|
11
|
+
Note: this software may fail to work depending on the status of the above
|
12
|
+
servers.
|
8
13
|
|
9
14
|
## Installation
|
10
15
|
|
@@ -18,9 +23,12 @@ gem install bio-old-biofetch-emulator
|
|
18
23
|
require 'bio-old-biofetch-emulator'
|
19
24
|
```
|
20
25
|
|
26
|
+
In general, to run existing software using the BioRuby BioFetch server, no
|
27
|
+
additional code is needed other than `require 'bio-old-biofetch-emulator'`.
|
28
|
+
|
21
29
|
The API doc is online. For more code examples see the test files in
|
22
30
|
the source tree.
|
23
|
-
|
31
|
+
|
24
32
|
## Project home page
|
25
33
|
|
26
34
|
Information on the source tree, documentation, examples, issues and
|
@@ -28,8 +36,6 @@ how to contribute, see
|
|
28
36
|
|
29
37
|
http://github.com/ngoto/bioruby-old-biofetch-emulator
|
30
38
|
|
31
|
-
The BioRuby community is on IRC server: irc.freenode.org, channel: #bioruby.
|
32
|
-
|
33
39
|
## Cite
|
34
40
|
|
35
41
|
If you use this software, please cite one of
|
data/VERSION
CHANGED
@@ -1 +1 @@
|
|
1
|
-
|
1
|
+
1.0.0
|
metadata
CHANGED
@@ -1,14 +1,14 @@
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
2
2
|
name: bio-old-biofetch-emulator
|
3
3
|
version: !ruby/object:Gem::Version
|
4
|
-
version:
|
4
|
+
version: 1.0.0
|
5
5
|
platform: ruby
|
6
6
|
authors:
|
7
7
|
- Naohisa Goto
|
8
8
|
autorequire:
|
9
9
|
bindir: bin
|
10
10
|
cert_chain: []
|
11
|
-
date:
|
11
|
+
date: 2016-06-13 00:00:00.000000000 Z
|
12
12
|
dependencies:
|
13
13
|
- !ruby/object:Gem::Dependency
|
14
14
|
name: bio
|
@@ -80,6 +80,20 @@ dependencies:
|
|
80
80
|
- - ">="
|
81
81
|
- !ruby/object:Gem::Version
|
82
82
|
version: 1.0.21
|
83
|
+
- !ruby/object:Gem::Dependency
|
84
|
+
name: test-unit
|
85
|
+
requirement: !ruby/object:Gem::Requirement
|
86
|
+
requirements:
|
87
|
+
- - ">="
|
88
|
+
- !ruby/object:Gem::Version
|
89
|
+
version: '0'
|
90
|
+
type: :development
|
91
|
+
prerelease: false
|
92
|
+
version_requirements: !ruby/object:Gem::Requirement
|
93
|
+
requirements:
|
94
|
+
- - ">="
|
95
|
+
- !ruby/object:Gem::Version
|
96
|
+
version: '0'
|
83
97
|
description: Emulator that emulates Bio::Fetch object in BioRuby as if old BioRuby
|
84
98
|
BioFetch server were still alive. It overrides methods and objects in Bio::Fetch,
|
85
99
|
and if the old BioRuby BioFetch server's URL is given, it intercepts all requests
|
@@ -91,14 +105,12 @@ extensions: []
|
|
91
105
|
extra_rdoc_files:
|
92
106
|
- LICENSE.txt
|
93
107
|
- README.md
|
94
|
-
- README.rdoc
|
95
108
|
files:
|
96
109
|
- ".document"
|
97
110
|
- ".travis.yml"
|
98
111
|
- Gemfile
|
99
112
|
- LICENSE.txt
|
100
113
|
- README.md
|
101
|
-
- README.rdoc
|
102
114
|
- Rakefile
|
103
115
|
- VERSION
|
104
116
|
- lib/bio-old-biofetch-emulator.rb
|
@@ -125,7 +137,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
|
|
125
137
|
version: '0'
|
126
138
|
requirements: []
|
127
139
|
rubyforge_project:
|
128
|
-
rubygems_version: 2.
|
140
|
+
rubygems_version: 2.4.5.1
|
129
141
|
signing_key:
|
130
142
|
specification_version: 4
|
131
143
|
summary: Emulates as if old BioRuby BioFetch alives
|
data/README.rdoc
DELETED
@@ -1,48 +0,0 @@
|
|
1
|
-
= bio-old-biofetch-emulator
|
2
|
-
|
3
|
-
{<img
|
4
|
-
src="https://secure.travis-ci.org/ngoto/bioruby-old-biofetch-emulator.png"
|
5
|
-
/>}[http://travis-ci.org/#!/ngoto/bioruby-old-biofetch-emulator]
|
6
|
-
|
7
|
-
Full description goes here
|
8
|
-
|
9
|
-
Note: this software is under active development!
|
10
|
-
|
11
|
-
== Installation
|
12
|
-
|
13
|
-
gem install bio-old-biofetch-emulator
|
14
|
-
|
15
|
-
== Usage
|
16
|
-
|
17
|
-
== Developers
|
18
|
-
|
19
|
-
To use the library
|
20
|
-
|
21
|
-
require 'bio-old-biofetch-emulator'
|
22
|
-
|
23
|
-
The API doc is online. For more code examples see also the test files in
|
24
|
-
the source tree.
|
25
|
-
|
26
|
-
== Project home page
|
27
|
-
|
28
|
-
Information on the source tree, documentation, issues and how to contribute, see
|
29
|
-
|
30
|
-
http://github.com/ngoto/bioruby-old-biofetch-emulator
|
31
|
-
|
32
|
-
The BioRuby community is on IRC server: irc.freenode.org, channel: #bioruby.
|
33
|
-
|
34
|
-
== Cite
|
35
|
-
|
36
|
-
If you use this software, please cite one of
|
37
|
-
|
38
|
-
* [BioRuby: bioinformatics software for the Ruby programming language](http://dx.doi.org/10.1093/bioinformatics/btq475)
|
39
|
-
* [Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics](http://dx.doi.org/10.1093/bioinformatics/bts080)
|
40
|
-
|
41
|
-
== Biogems.info
|
42
|
-
|
43
|
-
This Biogem is published at http://biogems.info/index.html#bio-old-biofetch-emulator
|
44
|
-
|
45
|
-
== Copyright
|
46
|
-
|
47
|
-
Copyright (c) 2014 Naohisa Goto. See LICENSE.txt for further details.
|
48
|
-
|