finishm 0.0.4 → 0.0.5
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/VERSION +1 -1
- data/finishm.gemspec +3 -3
- data/lib/finishm/roundup.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: bce8ed121a1616212425ca92cee7529b7beba70b
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data.tar.gz: cb79976079b563c129779f06d2b0bf94ebf2d093
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 57b3a51e694974c24ff4f37005d8c111bfabd81421c16e35a0db57ccfc187e7752bd1214d457e356e88b98122e28b4f2f3cfc2c24ddf8253119b1d3e53f242d2
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7
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data.tar.gz: 508d9fb04d255a3d5fc597abdd8a86a42ca4b0298c16c8fcf5eaeaa8f5391c2210735bb7bd20e082ce1c08db73216fa52099983147bd06ee11c772de2bc8aed0
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data/VERSION
CHANGED
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@@ -1 +1 @@
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1
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0.0.
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0.0.5
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data/finishm.gemspec
CHANGED
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@@ -2,17 +2,17 @@
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# DO NOT EDIT THIS FILE DIRECTLY
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# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
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# -*- encoding: utf-8 -*-
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# stub: finishm 0.0.
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# stub: finishm 0.0.5 ruby lib
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# stub: ext/mkrf_conf.rb
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Gem::Specification.new do |s|
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s.name = "finishm"
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s.version = "0.0.
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s.version = "0.0.5"
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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s.require_paths = ["lib"]
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s.authors = ["Ben J. Woodcroft"]
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s.date = "2015-08-
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s.date = "2015-08-31"
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s.description = "De-novo assemblies generally only provide draft genomes. FinishM is aimed at improving these draft assemblies."
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s.email = "donttrustben near gmail.com"
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s.executables = ["finishm"]
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data/lib/finishm/roundup.rb
CHANGED
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@@ -326,7 +326,7 @@ the finishm_roundup_results directory in FASTA format. The procedure is then rep
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return gapfilled_sequence, num_gapfills, all_variants
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end
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def piece_together_gapfill(printer, master_graph, first_sequence, aconn, second_sequence, gap_length, max_gapfill_paths, options)
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def piece_together_gapfill(printer, master_graph, first_sequence, aconn, second_sequence, gap_length, max_gapfill_paths, options={})
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scaffold_sequence = nil
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gapfilled = -1
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if aconn.paths.length == 0 or aconn.paths.length > max_gapfill_paths
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metadata
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@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: finishm
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version: !ruby/object:Gem::Version
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version: 0.0.
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version: 0.0.5
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platform: ruby
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authors:
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- Ben J. Woodcroft
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2015-08-
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date: 2015-08-31 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bio-ipcress
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