Permalink
Browse files

SSL is default for redmine connection

  • Loading branch information...
1 parent 99c7dec commit 3394bb6c660a42b7626861dbfdd84076bce8e47d @hyphaltip hyphaltip committed Mar 27, 2011
Showing with 301 additions and 301 deletions.
  1. +2 −2 BUGS
  2. +1 −1 Bio/Align/AlignI.pm
  3. +1 −1 Bio/Align/DNAStatistics.pm
  4. +1 −1 Bio/Align/PairwiseStatistics.pm
  5. +1 −1 Bio/Align/ProteinStatistics.pm
  6. +1 −1 Bio/Align/StatisticsI.pm
  7. +1 −1 Bio/Align/Utilities.pm
  8. +1 −1 Bio/AlignIO.pm
  9. +1 −1 Bio/AlignIO/Handler/GenericAlignHandler.pm
  10. +1 −1 Bio/AlignIO/arp.pm
  11. +1 −1 Bio/AlignIO/bl2seq.pm
  12. +1 −1 Bio/AlignIO/clustalw.pm
  13. +1 −1 Bio/AlignIO/emboss.pm
  14. +1 −1 Bio/AlignIO/fasta.pm
  15. +1 −1 Bio/AlignIO/largemultifasta.pm
  16. +1 −1 Bio/AlignIO/maf.pm
  17. +1 −1 Bio/AlignIO/mase.pm
  18. +1 −1 Bio/AlignIO/mega.pm
  19. +1 −1 Bio/AlignIO/meme.pm
  20. +1 −1 Bio/AlignIO/metafasta.pm
  21. +1 −1 Bio/AlignIO/msf.pm
  22. +1 −1 Bio/AlignIO/nexml.pm
  23. +1 −1 Bio/AlignIO/nexus.pm
  24. +1 −1 Bio/AlignIO/pfam.pm
  25. +1 −1 Bio/AlignIO/phylip.pm
  26. +1 −1 Bio/AlignIO/po.pm
  27. +1 −1 Bio/AlignIO/proda.pm
  28. +1 −1 Bio/AlignIO/prodom.pm
  29. +1 −1 Bio/AlignIO/psi.pm
  30. +1 −1 Bio/AlignIO/selex.pm
  31. +1 −1 Bio/AlignIO/stockholm.pm
  32. +1 −1 Bio/AlignIO/xmfa.pm
  33. +1 −1 Bio/AnalysisI.pm
  34. +1 −1 Bio/AnalysisParserI.pm
  35. +1 −1 Bio/AnalysisResultI.pm
  36. +1 −1 Bio/AnnotatableI.pm
  37. +1 −1 Bio/Annotation/AnnotationFactory.pm
  38. +1 −1 Bio/Annotation/Collection.pm
  39. +1 −1 Bio/Annotation/OntologyTerm.pm
  40. +1 −1 Bio/Annotation/Relation.pm
  41. +1 −1 Bio/Annotation/SimpleValue.pm
  42. +1 −1 Bio/Annotation/StructuredValue.pm
  43. +1 −1 Bio/Annotation/TagTree.pm
  44. +1 −1 Bio/Annotation/TypeManager.pm
  45. +1 −1 Bio/AnnotationCollectionI.pm
  46. +1 −1 Bio/AnnotationI.pm
  47. +1 −1 Bio/Assembly/Contig.pm
  48. +1 −1 Bio/Assembly/ContigAnalysis.pm
  49. +1 −1 Bio/Assembly/IO.pm
  50. +1 −1 Bio/Assembly/IO/ace.pm
  51. +1 −1 Bio/Assembly/IO/bowtie.pm
  52. +1 −1 Bio/Assembly/IO/maq.pm
  53. +1 −1 Bio/Assembly/IO/phrap.pm
  54. +1 −1 Bio/Assembly/IO/sam.pm
  55. +1 −1 Bio/Assembly/IO/tigr.pm
  56. +1 −1 Bio/Assembly/Scaffold.pm
  57. +1 −1 Bio/Assembly/ScaffoldI.pm
  58. +1 −1 Bio/Assembly/Singlet.pm
  59. +1 −1 Bio/Assembly/Tools/ContigSpectrum.pm
  60. +1 −1 Bio/Biblio.pm
  61. +1 −1 Bio/Biblio/Article.pm
  62. +1 −1 Bio/Biblio/BiblioBase.pm
  63. +1 −1 Bio/Biblio/Book.pm
  64. +1 −1 Bio/Biblio/BookArticle.pm
  65. +1 −1 Bio/Biblio/IO.pm
  66. +1 −1 Bio/Biblio/IO/medline2ref.pm
  67. +1 −1 Bio/Biblio/IO/medlinexml.pm
  68. +1 −1 Bio/Biblio/IO/pubmed2ref.pm
  69. +1 −1 Bio/Biblio/IO/pubmedxml.pm
  70. +1 −1 Bio/Biblio/Journal.pm
  71. +1 −1 Bio/Biblio/JournalArticle.pm
  72. +1 −1 Bio/Biblio/MedlineArticle.pm
  73. +1 −1 Bio/Biblio/MedlineBook.pm
  74. +1 −1 Bio/Biblio/MedlineBookArticle.pm
  75. +1 −1 Bio/Biblio/MedlineJournal.pm
  76. +1 −1 Bio/Biblio/MedlineJournalArticle.pm
  77. +1 −1 Bio/Biblio/Organisation.pm
  78. +1 −1 Bio/Biblio/Patent.pm
  79. +1 −1 Bio/Biblio/Person.pm
  80. +1 −1 Bio/Biblio/Proceeding.pm
  81. +1 −1 Bio/Biblio/Provider.pm
  82. +1 −1 Bio/Biblio/PubmedArticle.pm
  83. +1 −1 Bio/Biblio/PubmedBookArticle.pm
  84. +1 −1 Bio/Biblio/PubmedJournalArticle.pm
  85. +1 −1 Bio/Biblio/Ref.pm
  86. +1 −1 Bio/Biblio/Service.pm
  87. +1 −1 Bio/Biblio/TechReport.pm
  88. +1 −1 Bio/Biblio/Thesis.pm
  89. +1 −1 Bio/Biblio/WebResource.pm
  90. +1 −1 Bio/Cluster/ClusterFactory.pm
  91. +1 −1 Bio/Cluster/FamilyI.pm
  92. +1 −1 Bio/Cluster/SequenceFamily.pm
  93. +1 −1 Bio/Cluster/UniGene.pm
  94. +1 −1 Bio/Cluster/UniGeneI.pm
  95. +1 −1 Bio/ClusterI.pm
  96. +1 −1 Bio/ClusterIO.pm
  97. +1 −1 Bio/ClusterIO/dbsnp.pm
  98. +1 −1 Bio/ClusterIO/unigene.pm
  99. +1 −1 Bio/CodonUsage/IO.pm
  100. +1 −1 Bio/CodonUsage/Table.pm
  101. +1 −1 Bio/Coordinate/Chain.pm
  102. +1 −1 Bio/Coordinate/Collection.pm
  103. +1 −1 Bio/Coordinate/ExtrapolatingPair.pm
  104. +1 −1 Bio/Coordinate/GeneMapper.pm
  105. +1 −1 Bio/Coordinate/Graph.pm
  106. +1 −1 Bio/Coordinate/MapperI.pm
  107. +1 −1 Bio/Coordinate/Pair.pm
  108. +1 −1 Bio/Coordinate/Result.pm
  109. +1 −1 Bio/Coordinate/Result/Gap.pm
  110. +1 −1 Bio/Coordinate/Result/Match.pm
  111. +1 −1 Bio/Coordinate/ResultI.pm
  112. +1 −1 Bio/Coordinate/Utils.pm
  113. +1 −1 Bio/DB/Ace.pm
  114. +1 −1 Bio/DB/Biblio/biofetch.pm
  115. +1 −1 Bio/DB/Biblio/eutils.pm
  116. +1 −1 Bio/DB/Biblio/soap.pm
  117. +1 −1 Bio/DB/BiblioI.pm
  118. +1 −1 Bio/DB/BioFetch.pm
  119. +1 −1 Bio/DB/CUTG.pm
  120. +1 −1 Bio/DB/DBFetch.pm
  121. +1 −1 Bio/DB/EMBL.pm
  122. +1 −1 Bio/DB/EUtilities.pm
  123. +1 −1 Bio/DB/EntrezGene.pm
  124. +1 −1 Bio/DB/Expression.pm
  125. +1 −1 Bio/DB/Expression/geo.pm
  126. +1 −1 Bio/DB/Failover.pm
  127. +1 −1 Bio/DB/FileCache.pm
  128. +1 −1 Bio/DB/Flat.pm
  129. +1 −1 Bio/DB/Flat/BDB.pm
  130. +1 −1 Bio/DB/Flat/BDB/embl.pm
  131. +1 −1 Bio/DB/Flat/BDB/fasta.pm
  132. +1 −1 Bio/DB/Flat/BDB/genbank.pm
  133. +1 −1 Bio/DB/Flat/BDB/swiss.pm
  134. +1 −1 Bio/DB/Flat/BinarySearch.pm
  135. +1 −1 Bio/DB/GenBank.pm
  136. +1 −1 Bio/DB/GenPept.pm
  137. +1 −1 Bio/DB/GenericWebAgent.pm
  138. +1 −1 Bio/DB/HIV.pm
  139. +1 −1 Bio/DB/HIV/HIVAnnotProcessor.pm
  140. +1 −1 Bio/DB/HIV/HIVQueryHelper.pm
  141. +1 −1 Bio/DB/InMemoryCache.pm
  142. +1 −1 Bio/DB/LocationI.pm
  143. +1 −1 Bio/DB/MeSH.pm
  144. +1 −1 Bio/DB/NCBIHelper.pm
  145. +1 −1 Bio/DB/Query/GenBank.pm
  146. +1 −1 Bio/DB/Query/HIVQuery.pm
  147. +1 −1 Bio/DB/Query/WebQuery.pm
  148. +1 −1 Bio/DB/QueryI.pm
  149. +1 −1 Bio/DB/RandomAccessI.pm
  150. +1 −1 Bio/DB/RefSeq.pm
  151. +1 −1 Bio/DB/ReferenceI.pm
  152. +1 −1 Bio/DB/Registry.pm
  153. +1 −1 Bio/DB/SeqI.pm
  154. +1 −1 Bio/DB/SeqVersion.pm
  155. +1 −1 Bio/DB/SeqVersion/gi.pm
  156. +1 −1 Bio/DB/SwissProt.pm
  157. +1 −1 Bio/DB/TFBS.pm
  158. +1 −1 Bio/DB/TFBS/transfac_pro.pm
  159. +1 −1 Bio/DB/Taxonomy.pm
  160. +1 −1 Bio/DB/Taxonomy/entrez.pm
  161. +1 −1 Bio/DB/Taxonomy/flatfile.pm
  162. +1 −1 Bio/DB/Taxonomy/list.pm
  163. +1 −1 Bio/DB/Universal.pm
  164. +1 −1 Bio/DB/UpdateableSeqI.pm
  165. +1 −1 Bio/DB/WebDBSeqI.pm
  166. +1 −1 Bio/DBLinkContainerI.pm
  167. +1 −1 Bio/Das/FeatureTypeI.pm
  168. +1 −1 Bio/Das/SegmentI.pm
  169. +1 −1 Bio/DasI.pm
  170. +1 −1 Bio/DescribableI.pm
  171. +1 −1 Bio/Draw/Pictogram.pm
  172. +1 −1 Bio/Event/EventGeneratorI.pm
  173. +1 −1 Bio/Event/EventHandlerI.pm
  174. +1 −1 Bio/Factory/AnalysisI.pm
  175. +1 −1 Bio/Factory/ApplicationFactoryI.pm
  176. +1 −1 Bio/Factory/DriverFactory.pm
  177. +1 −1 Bio/Factory/FTLocationFactory.pm
  178. +1 −1 Bio/Factory/LocationFactoryI.pm
  179. +1 −1 Bio/Factory/MapFactoryI.pm
  180. +1 −1 Bio/Factory/ObjectBuilderI.pm
  181. +1 −1 Bio/Factory/ObjectFactory.pm
  182. +1 −1 Bio/Factory/ObjectFactoryI.pm
  183. +1 −1 Bio/Factory/SeqAnalysisParserFactory.pm
  184. +1 −1 Bio/Factory/SeqAnalysisParserFactoryI.pm
  185. +1 −1 Bio/Factory/SequenceFactoryI.pm
  186. +1 −1 Bio/Factory/SequenceProcessorI.pm
  187. +1 −1 Bio/Factory/SequenceStreamI.pm
  188. +1 −1 Bio/Factory/TreeFactoryI.pm
  189. +1 −1 Bio/FeatureHolderI.pm
  190. +1 −1 Bio/FeatureIO.pm
  191. +1 −1 Bio/FeatureIO/bed.pm
  192. +1 −1 Bio/FeatureIO/gff.pm
  193. +1 −1 Bio/FeatureIO/gtf.pm
  194. +1 −1 Bio/FeatureIO/interpro.pm
  195. +1 −1 Bio/FeatureIO/ptt.pm
  196. +1 −1 Bio/FeatureIO/vecscreen_simple.pm
  197. +1 −1 Bio/HandlerBaseI.pm
  198. +1 −1 Bio/IdCollectionI.pm
  199. +1 −1 Bio/IdentifiableI.pm
  200. +1 −1 Bio/Index/Abstract.pm
  201. +1 −1 Bio/Index/AbstractSeq.pm
  202. +1 −1 Bio/Index/Blast.pm
  203. +1 −1 Bio/Index/BlastTable.pm
  204. +1 −1 Bio/Index/EMBL.pm
  205. +1 −1 Bio/Index/Fasta.pm
  206. +1 −1 Bio/Index/Fastq.pm
  207. +1 −1 Bio/Index/GenBank.pm
  208. +1 −1 Bio/Index/Hmmer.pm
  209. +1 −1 Bio/Index/Qual.pm
  210. +1 −1 Bio/Index/Stockholm.pm
  211. +1 −1 Bio/Index/SwissPfam.pm
  212. +1 −1 Bio/Index/Swissprot.pm
  213. +1 −1 Bio/LiveSeq/ChainI.pm
  214. +1 −1 Bio/LiveSeq/Mutation.pm
  215. +1 −1 Bio/LiveSeq/Mutator.pm
  216. +1 −1 Bio/LiveSeq/SeqI.pm
  217. +1 −1 Bio/LocatableSeq.pm
  218. +1 −1 Bio/Location/Atomic.pm
  219. +1 −1 Bio/Location/AvWithinCoordPolicy.pm
  220. +1 −1 Bio/Location/CoordinatePolicyI.pm
  221. +1 −1 Bio/Location/Fuzzy.pm
  222. +1 −1 Bio/Location/FuzzyLocationI.pm
  223. +1 −1 Bio/Location/NarrowestCoordPolicy.pm
  224. +1 −1 Bio/Location/Simple.pm
  225. +1 −1 Bio/Location/Split.pm
  226. +1 −1 Bio/Location/SplitLocationI.pm
  227. +1 −1 Bio/Location/WidestCoordPolicy.pm
  228. +1 −1 Bio/LocationI.pm
  229. +1 −1 Bio/Map/Clone.pm
  230. +1 −1 Bio/Map/Contig.pm
  231. +1 −1 Bio/Map/CytoMap.pm
  232. +1 −1 Bio/Map/CytoMarker.pm
  233. +1 −1 Bio/Map/CytoPosition.pm
  234. +1 −1 Bio/Map/EntityI.pm
  235. +1 −1 Bio/Map/FPCMarker.pm
  236. +1 −1 Bio/Map/Gene.pm
  237. +1 −1 Bio/Map/GeneMap.pm
  238. +1 −1 Bio/Map/GenePosition.pm
  239. +1 −1 Bio/Map/GeneRelative.pm
  240. +1 −1 Bio/Map/LinkageMap.pm
  241. +1 −1 Bio/Map/LinkagePosition.pm
  242. +1 −1 Bio/Map/MapI.pm
  243. +1 −1 Bio/Map/Mappable.pm
  244. +1 −1 Bio/Map/MappableI.pm
  245. +1 −1 Bio/Map/Marker.pm
  246. +1 −1 Bio/Map/MarkerI.pm
  247. +1 −1 Bio/Map/Microsatellite.pm
  248. +1 −1 Bio/Map/OrderedPosition.pm
  249. +1 −1 Bio/Map/OrderedPositionWithDistance.pm
  250. +1 −1 Bio/Map/Physical.pm
  251. +1 −1 Bio/Map/Position.pm
  252. +1 −1 Bio/Map/PositionHandler.pm
  253. +1 −1 Bio/Map/PositionHandlerI.pm
  254. +1 −1 Bio/Map/PositionI.pm
  255. +1 −1 Bio/Map/PositionWithSequence.pm
  256. +1 −1 Bio/Map/Prediction.pm
  257. +1 −1 Bio/Map/Relative.pm
  258. +1 −1 Bio/Map/RelativeI.pm
  259. +1 −1 Bio/Map/SimpleMap.pm
  260. +1 −1 Bio/Map/TranscriptionFactor.pm
  261. +1 −1 Bio/MapIO.pm
  262. +1 −1 Bio/MapIO/fpc.pm
  263. +1 −1 Bio/MapIO/mapmaker.pm
  264. +1 −1 Bio/Matrix/Generic.pm
  265. +1 −1 Bio/Matrix/IO.pm
  266. +1 −1 Bio/Matrix/IO/mlagan.pm
  267. +1 −1 Bio/Matrix/IO/phylip.pm
  268. +1 −1 Bio/Matrix/IO/scoring.pm
  269. +1 −1 Bio/Matrix/MatrixI.pm
  270. +1 −1 Bio/Matrix/Mlagan.pm
  271. +1 −1 Bio/Matrix/PSM/IO.pm
  272. +1 −1 Bio/Matrix/PSM/IO/mast.pm
  273. +1 −1 Bio/Matrix/PSM/IO/masta.pm
  274. +1 −1 Bio/Matrix/PSM/IO/meme.pm
  275. +1 −1 Bio/Matrix/PSM/IO/psiblast.pm
  276. +1 −1 Bio/Matrix/PSM/IO/transfac.pm
  277. +1 −1 Bio/Matrix/PSM/InstanceSite.pm
  278. +1 −1 Bio/Matrix/PSM/InstanceSiteI.pm
  279. +1 −1 Bio/Matrix/PSM/ProtMatrix.pm
  280. +1 −1 Bio/Matrix/PSM/ProtPsm.pm
  281. +1 −1 Bio/Matrix/PSM/Psm.pm
  282. +1 −1 Bio/Matrix/PSM/PsmHeader.pm
  283. +1 −1 Bio/Matrix/PSM/PsmHeaderI.pm
  284. +1 −1 Bio/Matrix/PSM/PsmI.pm
  285. +1 −1 Bio/Matrix/PSM/SiteMatrix.pm
  286. +1 −1 Bio/Matrix/PSM/SiteMatrixI.pm
  287. +1 −1 Bio/Matrix/PhylipDist.pm
  288. +1 −1 Bio/Matrix/Scoring.pm
  289. +1 −1 Bio/MolEvol/CodonModel.pm
  290. +1 −1 Bio/Nexml/Factory.pm
  291. +1 −1 Bio/NexmlIO.pm
  292. +1 −1 Bio/Ontology/DocumentRegistry.pm
  293. +1 −1 Bio/Ontology/GOterm.pm
  294. +1 −1 Bio/Ontology/InterProTerm.pm
  295. +1 −1 Bio/Ontology/OBOEngine.pm
  296. +1 −1 Bio/Ontology/OBOterm.pm
  297. +1 −1 Bio/Ontology/Ontology.pm
  298. +1 −1 Bio/Ontology/OntologyEngineI.pm
  299. +1 −1 Bio/Ontology/OntologyI.pm
  300. +1 −1 Bio/Ontology/OntologyStore.pm
Sorry, we could not display the entire diff because too many files (800) changed.
View
4 BUGS
@@ -3,15 +3,15 @@
Known Bugs
Bugs are tracked at this URL:
-http://redmine.open-bio.org/projects/bioperl/
+https://redmine.open-bio.org/projects/bioperl/
Bioperl 1.6 series
=============
Though a stable release, some bugs and enhancements remain for this series
that will be addressed in future point releases. For a full list please see:
-http://redmine.open-bio.org/projects/bioperl/
+https://redmine.open-bio.org/projects/bioperl/
Bug Summary (additional info)
View
2 Bio/Align/AlignI.pm
@@ -70,7 +70,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/Align/DNAStatistics.pm
@@ -313,7 +313,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/Align/PairwiseStatistics.pm
@@ -58,7 +58,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/Align/ProteinStatistics.pm
@@ -68,7 +68,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/Align/StatisticsI.pm
@@ -51,7 +51,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/Align/Utilities.pm
@@ -74,7 +74,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/AlignIO.pm
@@ -254,7 +254,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Peter Schattner
View
2 Bio/AlignIO/Handler/GenericAlignHandler.pm
@@ -562,7 +562,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Chris Fields
View
2 Bio/AlignIO/arp.pm
@@ -77,7 +77,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/AlignIO/bl2seq.pm
@@ -87,7 +87,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Peter Schattner
View
2 Bio/AlignIO/clustalw.pm
@@ -54,7 +54,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/emboss.pm
@@ -59,7 +59,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/AlignIO/fasta.pm
@@ -41,7 +41,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/AlignIO/largemultifasta.pm
@@ -53,7 +53,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Albert Vilella, Heikki Lehvaslaiho
View
2 Bio/AlignIO/maf.pm
@@ -64,7 +64,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Allen Day
View
2 Bio/AlignIO/mase.pm
@@ -46,7 +46,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/mega.pm
@@ -59,7 +59,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/AlignIO/meme.pm
@@ -59,7 +59,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Benjamin Berman
View
2 Bio/AlignIO/metafasta.pm
@@ -58,7 +58,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Heikki Lehvaslaiho
View
2 Bio/AlignIO/msf.pm
@@ -45,7 +45,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/nexml.pm
@@ -38,7 +38,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/AlignIO/nexus.pm
@@ -49,7 +49,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Heikki Lehvaslaiho
View
2 Bio/AlignIO/pfam.pm
@@ -46,7 +46,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/phylip.pm
@@ -71,7 +71,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Heikki Lehvaslaiho and Jason Stajich
View
2 Bio/AlignIO/po.pm
@@ -46,7 +46,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Matthew Betts
View
2 Bio/AlignIO/proda.pm
@@ -56,7 +56,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Albert Vilella
View
2 Bio/AlignIO/prodom.pm
@@ -46,7 +46,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/psi.pm
@@ -51,7 +51,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Jason Stajich
View
2 Bio/AlignIO/selex.pm
@@ -55,7 +55,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Peter Schattner
View
2 Bio/AlignIO/stockholm.pm
@@ -198,7 +198,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Chris Fields, Peter Schattner
View
2 Bio/AlignIO/xmfa.pm
@@ -49,7 +49,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/AnalysisI.pm
@@ -55,7 +55,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/AnalysisParserI.pm
@@ -108,7 +108,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Steve Chervitz, Jason Stajich, Hilmar Lapp
View
2 Bio/AnalysisResultI.pm
@@ -68,7 +68,7 @@ with code and data examples if at all possible.
Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Steve Chervitz, Hilmar Lapp
View
2 Bio/AnnotatableI.pm
@@ -62,7 +62,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Annotation/AnnotationFactory.pm
@@ -72,7 +72,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Hilmar Lapp
View
2 Bio/Annotation/Collection.pm
@@ -66,7 +66,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Ewan Birney
View
2 Bio/Annotation/OntologyTerm.pm
@@ -85,7 +85,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Hilmar Lapp
View
2 Bio/Annotation/Relation.pm
@@ -57,7 +57,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Mira Han
View
2 Bio/Annotation/SimpleValue.pm
@@ -56,7 +56,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Ewan Birney
View
2 Bio/Annotation/StructuredValue.pm
@@ -65,7 +65,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
or the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Hilmar Lapp
View
2 Bio/Annotation/TagTree.pm
@@ -99,7 +99,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via
or the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Annotation/TypeManager.pm
@@ -60,7 +60,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution.
Bug reports can be submitted via the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Ewan Birney
View
2 Bio/AnnotationCollectionI.pm
@@ -112,7 +112,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Ewan Birney
View
2 Bio/AnnotationI.pm
@@ -100,7 +100,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Ewan Birney
View
2 Bio/Assembly/Contig.pm
@@ -201,7 +201,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/ContigAnalysis.pm
@@ -65,7 +65,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/IO.pm
@@ -69,7 +69,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Assembly/IO/ace.pm
@@ -136,7 +136,7 @@ with code and data examples if at all possible.
Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/IO/bowtie.pm
@@ -85,7 +85,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Dan Kortschak
View
2 Bio/Assembly/IO/maq.pm
@@ -117,7 +117,7 @@ the bugs and their resolution. Bug reports can be submitted via email
or the web:
bioperl-bugs@bio.perl.org
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Mark A. Jensen
View
2 Bio/Assembly/IO/phrap.pm
@@ -139,7 +139,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/IO/sam.pm
@@ -146,7 +146,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via
the web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Mark A. Jensen
View
2 Bio/Assembly/IO/tigr.pm
@@ -212,7 +212,7 @@ the bugs and their resolution. Bug reports can be submitted via email
or the web:
bioperl-bugs@bio.perl.org
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Florent E Angly
View
2 Bio/Assembly/Scaffold.pm
@@ -60,7 +60,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/ScaffoldI.pm
@@ -52,7 +52,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Robson Francisco de Souza
View
2 Bio/Assembly/Singlet.pm
@@ -70,7 +70,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Chad S. Matsalla
View
2 Bio/Assembly/Tools/ContigSpectrum.pm
@@ -185,7 +185,7 @@ the bugs and their resolution. Bug reports can be submitted via email
or the web:
bioperl-bugs@bio.perl.org
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Florent E Angly
View
2 Bio/Biblio.pm
@@ -151,7 +151,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/Article.pm
@@ -81,7 +81,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/BiblioBase.pm
@@ -72,7 +72,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/Book.pm
@@ -83,7 +83,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/BookArticle.pm
@@ -77,7 +77,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/IO.pm
@@ -192,7 +192,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/IO/medline2ref.pm
@@ -48,7 +48,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/IO/medlinexml.pm
@@ -54,7 +54,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/IO/pubmed2ref.pm
@@ -48,7 +48,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/IO/pubmedxml.pm
@@ -54,7 +54,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/Journal.pm
@@ -79,7 +79,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/JournalArticle.pm
@@ -80,7 +80,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/MedlineArticle.pm
@@ -121,7 +121,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/MedlineBook.pm
@@ -77,7 +77,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/MedlineBookArticle.pm
@@ -77,7 +77,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/MedlineJournal.pm
@@ -80,7 +80,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/MedlineJournalArticle.pm
@@ -80,7 +80,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Organisation.pm
@@ -74,7 +74,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Patent.pm
@@ -79,7 +79,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Person.pm
@@ -83,7 +83,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Proceeding.pm
@@ -74,7 +74,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Provider.pm
@@ -76,7 +76,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/PubmedArticle.pm
@@ -85,7 +85,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/PubmedBookArticle.pm
@@ -77,7 +77,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/PubmedJournalArticle.pm
@@ -90,7 +90,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/Biblio/Ref.pm
@@ -104,7 +104,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Service.pm
@@ -74,7 +74,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/TechReport.pm
@@ -75,7 +75,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/Thesis.pm
@@ -74,7 +74,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Biblio/WebResource.pm
@@ -79,7 +79,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted or the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Cluster/ClusterFactory.pm
@@ -71,7 +71,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Hilmar Lapp
View
2 Bio/Cluster/FamilyI.pm
@@ -59,7 +59,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Shawn Hoon
View
2 Bio/Cluster/SequenceFamily.pm
@@ -85,7 +85,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Shawn Hoon
View
2 Bio/Cluster/UniGene.pm
@@ -161,7 +161,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Andrew Macgregor
View
2 Bio/Cluster/UniGeneI.pm
@@ -67,7 +67,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Andrew Macgregor
View
2 Bio/ClusterI.pm
@@ -59,7 +59,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Shawn Hoon
View
2 Bio/ClusterIO.pm
@@ -124,7 +124,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Andrew Macgregor
View
2 Bio/ClusterIO/dbsnp.pm
@@ -47,7 +47,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR
View
2 Bio/ClusterIO/unigene.pm
@@ -57,7 +57,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS - Andrew Macgregor
View
2 Bio/CodonUsage/IO.pm
@@ -69,7 +69,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/CodonUsage/Table.pm
@@ -92,7 +92,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHORS
View
2 Bio/Coordinate/Chain.pm
@@ -81,7 +81,7 @@ Report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Heikki Lehvaslaiho
View
2 Bio/Coordinate/Collection.pm
@@ -82,7 +82,7 @@ report bugs to the Bioperl bug tracking system to help us keep track
the bugs and their resolution. Bug reports can be submitted via the
web:
- http://redmine.open-bio.org/projects/bioperl/
+ https://redmine.open-bio.org/projects/bioperl/
=head1 AUTHOR - Heikki Lehvaslaiho