bio-polyploid-tools 0.8.7 → 0.8.8

checksums.yaml

@@ -1,7 +1,7 @@
 ---
-SHA256:
-  metadata.gz: 4d9b4a477900c5cc8e587dbc3257daa7d8db50cf0e3e22ed10d6ca9ad76fec25
-  data.tar.gz: 4a3bd8793e963890086f9a6394bb83adf19669ad9f89f8be24c89a6b0bdbd27b
+SHA1:
+  metadata.gz: b98553fa53cce305003462d095b3327d5fe6a4e8
+  data.tar.gz: 54a35758a75bfdda5b273263a9ea83b59e22f0e6
 SHA512:
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-  data.tar.gz: 2a8bf17cb57e117f35642f3447191744768cf2210e5f75ce0f6d82b855b18e6d7434e89179d654d6a6eaccee025e8741b3c8d088a605e52b6e36c78c6fbd9646
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+  data.tar.gz: 37f133ee490484fb946f759a4fd6b3bce3967f36d56c1cece5a530d15261d2ff204933fce9d6b114c24688f308e09b7c1ea031fc8832fb49a40f16ab21044d2b

data/VERSION

@@ -1 +1 @@
-0.8.7
+0.8.8

data/bio-polyploid-tools.gemspec

@@ -2,16 +2,16 @@
 # DO NOT EDIT THIS FILE DIRECTLY
 # Instead, edit Juwelier::Tasks in Rakefile, and run 'rake gemspec'
 # -*- encoding: utf-8 -*-
-# stub: bio-polyploid-tools 0.8.7 ruby lib
+# stub: bio-polyploid-tools 0.8.8 ruby lib
 
 Gem::Specification.new do |s|
   s.name = "bio-polyploid-tools".freeze
-  s.version = "0.8.7"
+  s.version = "0.8.8"
 
   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 = "2018-08-07"
+  s.date = "2018-08-10"
   s.description = "Repository of tools developed at Crop Genetics in JIC to work with polyploid wheat".freeze
   s.email = "ricardo.ramirez-gonzalez@jic.ac.uk".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, "find_homoeologue_variations.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, "markers_in_region.rb".freeze, "mask_triads.rb".freeze, "polymarker.rb".freeze, "polymarker_capillary.rb".freeze, "snp_position_to_polymarker.rb".freeze, "snps_between_bams.rb".freeze, "tag_stats.rb".freeze, "vcfLineToTable.rb".freeze]
@@ -153,6 +153,7 @@ Gem::Specification.new do |s|
     "test/data/bfr_out_test.csv",
     "test/data/chr1A_G540414846C/chr1A_G540414846C.csv",
     "test/data/chr1A_G540414846C/chr1A_G540414846C.fa",
+    "test/data/chr1A_T517634750C/chr1A_T517634750C.csv",
     "test/data/chr4D_C14473543T/chr4D_C14473543T.csv",
     "test/data/chr4D_C14473543T/chr4D_C14473543T.fa",
     "test/data/headerMergeed.txt",
@@ -179,7 +180,7 @@ Gem::Specification.new do |s|
   ]
   s.homepage = "http://github.com/tgac/bioruby-polyploid-tools".freeze
   s.licenses = ["MIT".freeze]
-  s.rubygems_version = "2.7.4".freeze
+  s.rubygems_version = "2.6.14".freeze
   s.summary = "Tool to work with polyploids, NGS and molecular biology".freeze
 
   if s.respond_to? :specification_version then

data/test/data/chr1A_T517634750C/chr1A_T517634750C.csv

@@ -0,0 +1 @@
+chr1A_T517634750C,1A,aaaacggacaacggggaaaatgctcgaatgcatgagacgaacacgtatgcaatgcacatgatgacatgatatgagatgcatggcaacgacaacaacacat[T/C]gagacaaaaacccgaacccgagaaaataaaataacttaacgccgaaaacggcaagagttagattacatattagataaatcatatccggggtgttacaccc

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: bio-polyploid-tools
 version: !ruby/object:Gem::Version
-  version: 0.8.7
+  version: 0.8.8
 platform: ruby
 authors:
 - Ricardo H.  Ramirez-Gonzalez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2018-08-07 00:00:00.000000000 Z
+date: 2018-08-10 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bio
@@ -273,6 +273,7 @@ files:
 - test/data/bfr_out_test.csv
 - test/data/chr1A_G540414846C/chr1A_G540414846C.csv
 - test/data/chr1A_G540414846C/chr1A_G540414846C.fa
+- test/data/chr1A_T517634750C/chr1A_T517634750C.csv
 - test/data/chr4D_C14473543T/chr4D_C14473543T.csv
 - test/data/chr4D_C14473543T/chr4D_C14473543T.fa
 - test/data/headerMergeed.txt
@@ -316,7 +317,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 2.7.4
+rubygems_version: 2.6.14
 signing_key: 
 specification_version: 4
 summary: Tool to work with polyploids, NGS and molecular biology