miga-base 1.2.4.0 → 1.2.4.1
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- checksums.yaml +4 -4
- data/lib/miga/cli/action/get.rb +3 -1
- data/lib/miga/cli/action/run.rb +1 -1
- data/lib/miga/version.rb +2 -2
- data/utils/distance/commands.rb +6 -5
- metadata +2 -2
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
|
|
1
1
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---
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2
2
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SHA256:
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3
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-
metadata.gz:
|
4
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-
data.tar.gz:
|
3
|
+
metadata.gz: 6fbc57d93921f48449936b8af3a44de4cb2cfddd14becca1f1fcf434dd8eb9ef
|
4
|
+
data.tar.gz: b4486a1cc7fee96070321b1d59c444f2a784daa50f536998e890d059767dc56a
|
5
5
|
SHA512:
|
6
|
-
metadata.gz:
|
7
|
-
data.tar.gz:
|
6
|
+
metadata.gz: 7520ddd688f9767cf0baed5c53f5ba2b948d56f0bb847a2826e17fae823f2b3e34141c645196544c3269165aba0bbb83959c62d2187ad3d8151c1b180fb885b7
|
7
|
+
data.tar.gz: 643f3ddc30c470977089dc8fa812a69dd8d549e00bd1cd5afde928eb5ec4f457d2ababf6d5d1533c5835f2bd3f9df4228e12ef712b31767ae501084180d0291c
|
data/lib/miga/cli/action/get.rb
CHANGED
@@ -128,7 +128,9 @@ class MiGA::Cli::Action::Get < MiGA::Cli::Action
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|
128
128
|
end
|
129
129
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|
130
130
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sub_cli.say 'Locating remote dataset'
|
131
|
-
RemoteDataset.new(
|
131
|
+
RemoteDataset.new(
|
132
|
+
sub_cli[:ids].chomp, sub_cli[:db].chomp, sub_cli[:universe].chomp
|
133
|
+
)
|
132
134
|
end
|
133
135
|
|
134
136
|
def update_metadata(sub_cli, p, rd)
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data/lib/miga/cli/action/run.rb
CHANGED
data/lib/miga/version.rb
CHANGED
@@ -12,7 +12,7 @@ module MiGA
|
|
12
12
|
# - String indicating release status:
|
13
13
|
# - rc* release candidate, not released as gem
|
14
14
|
# - [0-9]+ stable release, released as gem
|
15
|
-
VERSION = [1.2, 4,
|
15
|
+
VERSION = [1.2, 4, 1].freeze
|
16
16
|
|
17
17
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##
|
18
18
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# Nickname for the current major.minor version.
|
@@ -20,7 +20,7 @@ module MiGA
|
|
20
20
|
|
21
21
|
##
|
22
22
|
# Date of the current gem relese.
|
23
|
-
VERSION_DATE = Date.new(2022,
|
23
|
+
VERSION_DATE = Date.new(2022, 4, 27)
|
24
24
|
|
25
25
|
##
|
26
26
|
# References of MiGA
|
data/utils/distance/commands.rb
CHANGED
@@ -216,11 +216,12 @@ module MiGA::DistanceRunner::Commands
|
|
216
216
|
next unless target_ess
|
217
217
|
|
218
218
|
# hAAI
|
219
|
-
|
220
|
-
|
221
|
-
|
222
|
-
|
223
|
-
|
219
|
+
aairb_cmd(
|
220
|
+
tmp_file('ess_genes.fa'), target_ess,
|
221
|
+
dataset.name, target.name, tmp_dbs[:haai],
|
222
|
+
aai_save_rbm: false, aai_p: opts[:haai_p], checkpoint: :haai
|
223
|
+
)
|
224
|
+
h = value_from_db(dataset.name, target.name, tmp_dbs[:haai], :haai)
|
224
225
|
next if h.nil? || h.zero? || h > 90.0
|
225
226
|
|
226
227
|
# Estimated AAI
|
metadata
CHANGED
@@ -1,14 +1,14 @@
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
2
2
|
name: miga-base
|
3
3
|
version: !ruby/object:Gem::Version
|
4
|
-
version: 1.2.4.
|
4
|
+
version: 1.2.4.1
|
5
5
|
platform: ruby
|
6
6
|
authors:
|
7
7
|
- Luis M. Rodriguez-R
|
8
8
|
autorequire:
|
9
9
|
bindir: bin
|
10
10
|
cert_chain: []
|
11
|
-
date: 2022-
|
11
|
+
date: 2022-04-27 00:00:00.000000000 Z
|
12
12
|
dependencies:
|
13
13
|
- !ruby/object:Gem::Dependency
|
14
14
|
name: daemons
|