sequenceserver 1.0.0.pre.3 → 1.0.0.pre.4

Sign up to get free protection for your applications and to get access to all the features.

Potentially problematic release.

This version of sequenceserver might be problematic. Click here for more details.

Files changed (26) hide show
  1. checksums.yaml +4 -4
  2. data/README.md +47 -4
  3. data/lib/sequenceserver.rb +3 -177
  4. data/lib/sequenceserver/blast.rb +4 -59
  5. data/lib/sequenceserver/blast/constants.rb +34 -0
  6. data/lib/sequenceserver/blast/formatter.rb +69 -0
  7. data/lib/sequenceserver/blast/hit.rb +33 -12
  8. data/lib/sequenceserver/blast/hsp.rb +4 -6
  9. data/lib/sequenceserver/blast/query.rb +6 -8
  10. data/lib/sequenceserver/blast/report.rb +94 -77
  11. data/lib/sequenceserver/config.rb +1 -0
  12. data/lib/sequenceserver/exceptions.rb +1 -1
  13. data/lib/sequenceserver/links.rb +14 -21
  14. data/lib/sequenceserver/routes.rb +163 -0
  15. data/lib/sequenceserver/search.rb +19 -0
  16. data/lib/sequenceserver/sequence.rb +135 -30
  17. data/public/css/custom.css +17 -8
  18. data/public/dist/css/sequenceserver.min.css +1 -1
  19. data/public/dist/css/sequenceserver.min.css.gz +0 -0
  20. data/public/dist/js/sequenceserver.min.js +1 -1
  21. data/public/dist/js/sequenceserver.min.js.gz +0 -0
  22. data/public/js/sequenceserver.js +66 -32
  23. data/sequenceserver.gemspec +1 -1
  24. data/views/result.erb +8 -8
  25. data/views/search.erb +12 -3
  26. metadata +6 -2
data/views/search.erb CHANGED
@@ -41,6 +41,16 @@
41
41
  BLAST searching made easy!
42
42
  </small>
43
43
  </a>
44
+ <ul class="nav navbar-nav navbar-right hover-reset focus-reset">
45
+ <li>
46
+ <a
47
+ target="_blank"
48
+ href="http://www.sequenceserver.com/#support">
49
+ <i class="fa fa-comment-o"></i>
50
+ Help &amp; Support
51
+ </a>
52
+ </li>
53
+ </ul>
44
54
  </div>
45
55
  </div>
46
56
 
@@ -140,7 +150,7 @@
140
150
  rows="10"
141
151
  autofocus="true"
142
152
  spellcheck="false"
143
- placeholder="Paste query sequence(s) or drag file containing query sequence(s) here ..." ></textarea>
153
+ placeholder="Paste query sequence(s) or drag file containing query sequence(s) in FASTA format here ..." ></textarea>
144
154
  </div>
145
155
  </div>
146
156
  </div>
@@ -244,8 +254,7 @@
244
254
  class="btn-group btn-block" id="methods">
245
255
  <button
246
256
  type="submit"
247
- id="method" class="btn btn-primary col-md-12"
248
- title="Use Ctrl+Enter as shortcut.">
257
+ id="method" class="btn btn-primary col-md-12">
249
258
  blast
250
259
  </button>
251
260
  </div>
metadata CHANGED
@@ -1,7 +1,7 @@
1
1
  --- !ruby/object:Gem::Specification
2
2
  name: sequenceserver
3
3
  version: !ruby/object:Gem::Version
4
- version: 1.0.0.pre.3
4
+ version: 1.0.0.pre.4
5
5
  platform: ruby
6
6
  authors:
7
7
  - Anurag Priyam
@@ -11,7 +11,7 @@ authors:
11
11
  autorequire:
12
12
  bindir: bin
13
13
  cert_chain: []
14
- date: 2015-02-16 00:00:00.000000000 Z
14
+ date: 2015-02-20 00:00:00.000000000 Z
15
15
  dependencies:
16
16
  - !ruby/object:Gem::Dependency
17
17
  name: thin
@@ -246,7 +246,9 @@ files:
246
246
  - config.ru
247
247
  - lib/sequenceserver.rb
248
248
  - lib/sequenceserver/blast.rb
249
+ - lib/sequenceserver/blast/constants.rb
249
250
  - lib/sequenceserver/blast/exceptions.rb
251
+ - lib/sequenceserver/blast/formatter.rb
250
252
  - lib/sequenceserver/blast/hit.rb
251
253
  - lib/sequenceserver/blast/hsp.rb
252
254
  - lib/sequenceserver/blast/query.rb
@@ -256,6 +258,8 @@ files:
256
258
  - lib/sequenceserver/exceptions.rb
257
259
  - lib/sequenceserver/links.rb
258
260
  - lib/sequenceserver/logger.rb
261
+ - lib/sequenceserver/routes.rb
262
+ - lib/sequenceserver/search.rb
259
263
  - lib/sequenceserver/sequence.rb
260
264
  - public/css/bootstrap.min.css
261
265
  - public/css/custom.css