miga-base 1.3.7.2 → 1.3.7.3
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/lib/miga/cli/action/rm.rb +1 -1
- data/lib/miga/version.rb +2 -2
- data/utils/subclades.R +3 -3
- metadata +2 -2
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
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---
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SHA256:
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metadata.gz:
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data.tar.gz:
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metadata.gz: da6f90e73e7f3f740623ad77e09886b1c7618de2f484ba412e53d329fb771c12
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4
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data.tar.gz: 662eda2643f1695285e02ef18076aa3c3bed86bfbbd2d0fc9c91481fbe6fb384
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 268833ab588449626fd9ee1c8374daea22482fe85d73570c6c9bec58dd1b00c8385e53f8c9d26f0903cf88451f715194c2ddd5bb330eff0a5695ffb9f0bcb51f
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7
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data.tar.gz: 1dabe6af4158fbb26c760aa2c4673d1cdba45b832a54eb01995418bf11a8cb7c02708e99c54a1862d9bf501101f0fc55afc6f9b44d487c37d7d35cd61a1ff688
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data/lib/miga/cli/action/rm.rb
CHANGED
data/lib/miga/version.rb
CHANGED
@@ -12,7 +12,7 @@ module MiGA
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# - String indicating release status:
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# - rc* release candidate, not released as gem
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# - [0-9]+ stable release, released as gem
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-
VERSION = [1.3, 7,
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VERSION = [1.3, 7, 3].freeze
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##
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# Nickname for the current major.minor version.
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@@ -20,7 +20,7 @@ module MiGA
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##
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# Date of the current gem relese.
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-
VERSION_DATE = Date.new(2023, 6,
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VERSION_DATE = Date.new(2023, 6, 29)
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##
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# References of MiGA
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data/utils/subclades.R
CHANGED
@@ -311,7 +311,7 @@ ani_distance <- function (ani_file, sel) {
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sim <- read.table(gzfile(ani_file), sep = "\t", header = TRUE, as.is = TRUE)
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}
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# If there is
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# If there is no data, end process
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if (nrow(sim) == 0) return(NULL)
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# Apply filter (if requested)
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@@ -319,7 +319,7 @@ ani_distance <- function (ani_file, sel) {
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if (!is.na(sel) && file.exists(sel)) {
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say("Filter selection")
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ids <- read.table(sel, sep = "\t", head = FALSE, as.is = TRUE)[,1]
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-
sim <- sim[sim$a %in% ids & sim$b %in% ids, ]
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sim <- sim[which(sim$a %in% ids & sim$b %in% ids), ]
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} else {
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ids <- with(sim, unique(c(a, b)))
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}
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@@ -329,7 +329,7 @@ ani_distance <- function (ani_file, sel) {
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sim$d <- 1 - (sim$value / 100)
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return(as.dist(with(sim, {
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out <- matrix(
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max(d) * 1.2, nrow = length(ids), ncol = length(ids),
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min(max(d) * 1.2, 1.0), nrow = length(ids), ncol = length(ids),
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dimnames = list(ids, ids)
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)
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out[cbind(ids, ids)] <- 0
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metadata
CHANGED
@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: miga-base
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version: !ruby/object:Gem::Version
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version: 1.3.7.
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version: 1.3.7.3
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platform: ruby
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authors:
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- Luis M. Rodriguez-R
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2023-06-
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date: 2023-06-29 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: daemons
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