bio-polyploid-tools 0.9.3 → 0.9.4
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- checksums.yaml +4 -4
- data/VERSION +1 -1
- data/bio-polyploid-tools.gemspec +3 -3
- data/lib/bio/PolyploidTools/ExonContainer.rb +1 -1
- metadata +2 -2
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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---
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SHA1:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: c6a6502df70f6feb906abd127375fbe9013e0c34
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data.tar.gz: a9d11c92673566e4ea176964e7f55325f5341078
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SHA512:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: 1e1f166693dbd52376b7ddd8f7b60cf1972b3c5501e1b649fc49a202b2ec014966bae7c6b2541b6599329ed63d80b05858417116d80aa765d2330b306e40f535
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7
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+
data.tar.gz: 1b8a082347091ad50c8f932c341f7b5457a8d041930fc92e979f4c724cf1f83bce9c6313635b57b46d1f1458f595ad978346cae3aad4e160bd345e7455d13efe
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data/VERSION
CHANGED
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@@ -1 +1 @@
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1
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-
0.9.
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1
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+
0.9.4
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data/bio-polyploid-tools.gemspec
CHANGED
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@@ -2,16 +2,16 @@
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2
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# DO NOT EDIT THIS FILE DIRECTLY
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# Instead, edit Juwelier::Tasks in Rakefile, and run 'rake gemspec'
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# -*- encoding: utf-8 -*-
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5
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-
# stub: bio-polyploid-tools 0.9.
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# stub: bio-polyploid-tools 0.9.4 ruby lib
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6
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Gem::Specification.new do |s|
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8
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s.name = "bio-polyploid-tools".freeze
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9
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-
s.version = "0.9.
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9
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+
s.version = "0.9.4"
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s.required_rubygems_version = Gem::Requirement.new(">= 0".freeze) if s.respond_to? :required_rubygems_version=
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s.require_paths = ["lib".freeze]
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s.authors = ["Ricardo H. Ramirez-Gonzalez".freeze]
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-
s.date = "2018-08-
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s.date = "2018-08-19"
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s.description = "Repository of tools developed at Crop Genetics in JIC to work with polyploid wheat".freeze
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s.email = "ricardo.ramirez-gonzalez@jic.ac.uk".freeze
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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]
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@@ -218,7 +218,7 @@ module Bio::PolyploidTools
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218
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def remove_alignments_over_max_hits
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@snp_map.each_pair do | gene, snp_array|
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snp_array.each do |snp|
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-
total_hits = snp.exon_list.map { |e| e.size }.
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221
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total_hits = snp.exon_list.map { |e| e.size }.reduce(0,:+)
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snp.hit_count = total_hits
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if total_hits > max_hits
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snp.exon_list = {}
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metadata
CHANGED
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@@ -1,14 +1,14 @@
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1
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--- !ruby/object:Gem::Specification
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name: bio-polyploid-tools
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version: !ruby/object:Gem::Version
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-
version: 0.9.
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version: 0.9.4
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platform: ruby
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authors:
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- Ricardo H. Ramirez-Gonzalez
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autorequire:
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bindir: bin
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cert_chain: []
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-
date: 2018-08-
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date: 2018-08-19 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bio
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