bio-polyploid-tools.gemspec in bio-polyploid-tools-1.1.2 vs bio-polyploid-tools.gemspec in bio-polyploid-tools-1.2.0

@@ -1,19 +1,19 @@
 # Generated by juwelier
 # DO NOT EDIT THIS FILE DIRECTLY
 # Instead, edit Juwelier::Tasks in Rakefile, and run 'rake gemspec'
 # -*- encoding: utf-8 -*-
-# stub: bio-polyploid-tools 1.1.2 ruby lib
+# stub: bio-polyploid-tools 1.2.0 ruby lib
 
 Gem::Specification.new do |s|
   s.name = "bio-polyploid-tools".freeze
-  s.version = "1.1.2"
+  s.version = "1.2.0"
 
   s.required_rubygems_version = Gem::Requirement.new(">= 0".freeze) if s.respond_to? :required_rubygems_version=
   s.require_paths = ["lib".freeze]
   s.authors = ["Ricardo H.  Ramirez-Gonzalez".freeze]
-  s.date = "2020-03-18"
+  s.date = "2020-10-28"
   s.description = "Repository of tools developed at Crop Genetics in JIC to work with polyploid wheat".freeze
   s.email = "[e-mail]".freeze
   s.executables = ["bfr.rb".freeze, "blast_triads.rb".freeze, "blast_triads_promoters.rb".freeze, "count_variations.rb".freeze, "filter_blat_by_target_coverage.rb".freeze, "filter_exonerate_by_identity.rb".freeze, "find_best_blat_hit.rb".freeze, "find_best_exonerate.rb".freeze, "get_longest_hsp_blastx_triads.rb".freeze, "hexaploid_primers.rb".freeze, "homokaryot_primers.rb".freeze, "mafft_triads.rb".freeze, "mafft_triads_promoters.rb".freeze, "map_markers_to_contigs.rb".freeze, "marker_to_vcf.rb".freeze, "markers_in_region.rb".freeze, "mask_triads.rb".freeze, "polymarker.rb".freeze, "polymarker_capillary.rb".freeze, "polymarker_deletions.rb".freeze, "snp_position_to_polymarker.rb".freeze, "snps_between_bams.rb".freeze, "tag_stats.rb".freeze, "vcfLineToTable.rb".freeze, "vcfToPolyMarker.rb".freeze]
   s.extra_rdoc_files = [
     "README.md"
@@ -99,10 +99,21 @@
     "lib/bio/PolyploidTools/SNPSequence.rb",
     "lib/bio/db/blast.rb",
     "lib/bio/db/exonerate.rb",
     "lib/bio/db/primer3.rb",
     "lib/bioruby-polyploid-tools.rb",
+    "test/data/7B_amplicon_test.fa",
+    "test/data/7B_amplicon_test.fa.fai",
+    "test/data/7B_amplicon_test_reference.fa",
+    "test/data/7B_amplicon_test_reference.fa.fai",
+    "test/data/7B_amplicon_test_reference.fa.ndb",
+    "test/data/7B_amplicon_test_reference.fa.nhr",
+    "test/data/7B_amplicon_test_reference.fa.nin",
+    "test/data/7B_amplicon_test_reference.fa.not",
+    "test/data/7B_amplicon_test_reference.fa.nsq",
+    "test/data/7B_amplicon_test_reference.fa.ntf",
+    "test/data/7B_amplicon_test_reference.fa.nto",
     "test/data/BS00068396_51.fa",
     "test/data/BS00068396_51_blast.tab",
     "test/data/BS00068396_51_contigs.aln",
     "test/data/BS00068396_51_contigs.dnd",
     "test/data/BS00068396_51_contigs.fa",
@@ -182,32 +193,24 @@
     "test/test_snp_parsing.rb",
     "test/test_wrong_selection.sh"
   ]
   s.homepage = "http://github.com/tgac/bioruby-polyploid-tools".freeze
   s.licenses = ["MIT".freeze]
-  s.rubygems_version = "3.0.8".freeze
+  s.rubygems_version = "3.1.2".freeze
   s.summary = "Tool to work with polyploids, NGS and molecular biology".freeze
 
   if s.respond_to? :specification_version then
     s.specification_version = 4
+  end
 
-    if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
-      s.add_runtime_dependency(%q<bio>.freeze, [">= 1.5.1"])
-      s.add_runtime_dependency(%q<bio-samtools>.freeze, [">= 2.6.2"])
-      s.add_runtime_dependency(%q<descriptive_statistics>.freeze, [">= 0"])
-      s.add_runtime_dependency(%q<systemu>.freeze, [">= 2.5.2"])
-      s.add_development_dependency(%q<shoulda>.freeze, [">= 2.10"])
-      s.add_development_dependency(%q<test-unit>.freeze, [">= 0"])
-      s.add_development_dependency(%q<juwelier>.freeze, [">= 0"])
-    else
-      s.add_dependency(%q<bio>.freeze, [">= 1.5.1"])
-      s.add_dependency(%q<bio-samtools>.freeze, [">= 2.6.2"])
-      s.add_dependency(%q<descriptive_statistics>.freeze, [">= 0"])
-      s.add_dependency(%q<systemu>.freeze, [">= 2.5.2"])
-      s.add_dependency(%q<shoulda>.freeze, [">= 2.10"])
-      s.add_dependency(%q<test-unit>.freeze, [">= 0"])
-      s.add_dependency(%q<juwelier>.freeze, [">= 0"])
-    end
+  if s.respond_to? :add_runtime_dependency then
+    s.add_runtime_dependency(%q<bio>.freeze, [">= 1.5.1"])
+    s.add_runtime_dependency(%q<bio-samtools>.freeze, [">= 2.6.2"])
+    s.add_runtime_dependency(%q<descriptive_statistics>.freeze, [">= 0"])
+    s.add_runtime_dependency(%q<systemu>.freeze, [">= 2.5.2"])
+    s.add_development_dependency(%q<shoulda>.freeze, [">= 2.10"])
+    s.add_development_dependency(%q<test-unit>.freeze, [">= 0"])
+    s.add_development_dependency(%q<juwelier>.freeze, [">= 0"])
   else
     s.add_dependency(%q<bio>.freeze, [">= 1.5.1"])
     s.add_dependency(%q<bio-samtools>.freeze, [">= 2.6.2"])
     s.add_dependency(%q<descriptive_statistics>.freeze, [">= 0"])
     s.add_dependency(%q<systemu>.freeze, [">= 2.5.2"])