miga-base 1.3.8.0 → 1.3.8.1
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- checksums.yaml +4 -4
- data/lib/miga/version.rb +1 -1
- data/utils/subclades.R +3 -2
- metadata +1 -1
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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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:
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4
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-
data.tar.gz:
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3
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+
metadata.gz: 415756b71662dd191b51679aa75a4a4c75bb5ec00d6aacfa7fa6436cdd983819
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4
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+
data.tar.gz: a4f441f9d6ff7bb06f2a5fe5534c1d52cea5ead3b82737d3799cb65f46bf81b0
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5
5
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SHA512:
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6
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-
metadata.gz:
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|
7
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-
data.tar.gz:
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6
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+
metadata.gz: f44c2506cb04763e21a9ffa81060214ca8f9d3772107b4a55820320838e08de20eac3e2d27805b62a7399b9aead3fd54eeb306a522f8886c3323bfc2149116b4
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|
7
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+
data.tar.gz: '00439963a16f86a3b8539fe0e212b63b7b62ac3eaedc8adebb88f8baae0a688a41a9518e6bbc69fc8db0b58e5551edf44b4c1764e64564aca372f358a6853d78'
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data/lib/miga/version.rb
CHANGED
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@@ -12,7 +12,7 @@ module MiGA
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12
12
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# - String indicating release status:
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13
13
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# - rc* release candidate, not released as gem
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14
14
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# - [0-9]+ stable release, released as gem
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15
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-
VERSION = [1.3, 8,
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|
15
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+
VERSION = [1.3, 8, 1].freeze
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16
16
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17
17
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##
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18
18
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# Nickname for the current major.minor version.
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data/utils/subclades.R
CHANGED
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@@ -127,11 +127,12 @@ subclade_clustering <- function (out_base, thr, ani.d, dist_rds) {
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|
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127
127
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say("- Launch parallel jobs")
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128
128
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s <- parSapply(
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|
129
129
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cl, k,
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|
130
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-
function(x) {
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|
130
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+
function(x, ani.d) {
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|
131
131
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library(cluster)
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|
132
132
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s <- pam(ani.d, x, do.swap = FALSE, variant = "faster")$silinfo
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|
133
133
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c(s$avg.width, -sum(ifelse(s$widths[, 3] > 0, 0, s$widths[, 3])))
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|
134
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-
}
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|
134
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+
},
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|
135
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+
ani.d = ani.d
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|
135
136
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)
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|
136
137
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say("- Stop cluster")
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|
137
138
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stopCluster(cl)
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