coutinho_assembly 0.2.1 → 0.3.0
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/Gemfile.lock +1 -1
- data/exe/coutinho_assembly +5 -3
- data/lib/coutinho_assembly.rb +1 -0
- data/lib/coutinho_assembly/version.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: 0737d043994ed8d143c569ef64692a4b148153ad
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data.tar.gz: 3447d5e8893f66cc56338570eee469b61bd43eab
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 54b6503d44c32030e05db35a9c02a440265c272d70198bf056cf8bcf75d1d3fba6d81c7e4f9e4bbb1da8f725260898b5b56a9e2c1e96bb59ae74f3af02471700
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data.tar.gz: f29a6375289ed65acd9cb9e553e1cd1541daa58360fcb75202b7d78627f7f5075e5fe3d2e5b4ae757ca168c5b2b5b5a011752b5936a0fa8d54558349721643fa
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data/Gemfile.lock
CHANGED
data/exe/coutinho_assembly
CHANGED
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@@ -33,6 +33,8 @@ opts = Optimist.options do
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--sampling-percentage and --num-subsamples go together. So, --sampling-percentage 1 5 10 --num-subsamples 50 35 25 would mean 50 1% subsamples, 35 5% subsamples, and 25 10% subsamples.
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--megahit-presets See the megahit --help file for more information about these. The "new" ones are fast which uses only kmer 21 assembly, and default, which uses whatever megahit has for the defaults.
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For the binary program options, either provide the path to the binary or the name of the program if the program is already on your path.
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Options:
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@@ -79,8 +81,8 @@ opts = Optimist.options do
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# Megahit options
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opt(:megahit_presets,
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"meta-sensitive, meta-large, or
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default: "
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"meta-sensitive, meta-large, fast, or default",
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default: "default")
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# External programs I depend on
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opt(:megahit_binary,
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@@ -143,7 +145,7 @@ Rya::AbortIf.abort_if num_threads < 1,
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Rya::AbortIf.abort_if max_attempts < 1,
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"--max-attempts must be at least 1"
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GOOD_PRESETS = %w[meta-sensitive meta-large fast]
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GOOD_PRESETS = %w[meta-sensitive meta-large fast default]
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megahit_preset = opts[:megahit_presets]
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Rya::AbortIf.abort_unless megahit_preset.nil? || GOOD_PRESETS.include?(megahit_preset),
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"--megahit-presets must be one of #{GOOD_PRESETS.join(", ")}. Got #{megahit_preset}"
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data/lib/coutinho_assembly.rb
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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: coutinho_assembly
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version: !ruby/object:Gem::Version
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version: 0.
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version: 0.3.0
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platform: ruby
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authors:
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- Ryan Moore
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autorequire:
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bindir: exe
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cert_chain: []
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date: 2019-04-
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date: 2019-04-30 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bundler
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