miga-base 1.2.6.4 → 1.2.8.2

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 53a62214ac4d3bb9979bcf56b73d62d2b6ab6f65d5c94743fc852cfc69ed549b
-  data.tar.gz: f030600fca0d47e1351e19c045862583de772e7b80e85879500c89f87422d2f7
+  metadata.gz: 6605edc35cd0b2aec6d095653ff1d9604df81d6a57e341a290cbd213bb18fee3
+  data.tar.gz: 2f811051db25da424bdf9f9c89390a4e0cac33fb3c6330e255b369d171e8a4b9
 SHA512:
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-  data.tar.gz: 692bcc8971b39d073009a5e525acf7c299ae3a89efdb1c515d4f769285d2141f4f2410ee5a270d17b98d8b937b1256cdd5d65dfa1bd6da91456c8aaaa7f2a3ba
+  metadata.gz: 252fe9abe5ce14ebe86c5250716b9ce541f1faf510bd36ae2d33f4f15f964f3ec735a66db9fa11503b74fb82f16d6a2a5c43d6df3a71b67dacec65462425d759
+  data.tar.gz: ef734003e57818b155347ce591e9683420ecfa00cd5b4398c0ed1485fc23108a74d9bd91980d6a2bb4c2481c3d1027805b9083fb9add802b5a30f140926c996d

data/lib/miga/cli/action/classify_wf.rb

@@ -56,7 +56,7 @@ class MiGA::Cli::Action::ClassifyWf < MiGA::Cli::Action
     p = create_project(
       :assembly,
       p_metadata,
-      run_ssu: false, run_mytaxa_scan: false, run_distances: false
+      run_mytaxa_scan: false, run_distances: false
     )
     p.set_option(:ref_project, ref_db.path)
     p.set_option(:tax_pvalue, cli[:pvalue])

data/lib/miga/cli/action/init/daemon_helper.rb

@@ -152,7 +152,7 @@ module MiGA::Cli::Action::Init::DaemonHelper
         "#{v[:type]} -q '#{queue}' -v '{{vars}}' -pe openmp {{cpus}} " \
           "-j y -o '{{log}}' -N '{{task_name_simple}}' -l h_vmem=9g " \
           "-l h_rt=12:00:00 '{{script}}' | grep . " \
-          "| perl -pe 's/^Your job (\S+) .*/$1/'"
+          "| perl -pe 's/^Your job (\\S+) .*/$1/'"
       )
     else
       v[:cmd] = cli.ask_user(

data/lib/miga/cli/action/touch.rb

@@ -0,0 +1,16 @@
+# @package MiGA
+# @license Artistic-2.0
+
+require 'miga/cli/action'
+
+class MiGA::Cli::Action::Touch < MiGA::Cli::Action
+  def parse_cli
+    cli.parse do |opt|
+      cli.opt_object(opt, [:project, :dataset_opt])
+    end
+  end
+
+  def perform
+    cli.load_project_or_dataset.save!
+  end
+end

data/lib/miga/cli/base.rb

@@ -34,6 +34,7 @@ module MiGA::Cli::Base
     # Objects (Datasets or Projects)
     edit: 'Edit the metadata of a dataset or project',
     option: 'Get or set options of a dataset or project',
+    touch: 'Change the "last modified" time to now without changes',
     # System
     init: 'Initialize MiGA to process new projects',
     daemon: 'Control the daemon of a MiGA project',

data/lib/miga/dataset.rb

@@ -84,6 +84,11 @@ class MiGA::Dataset < MiGA::MiGA
     pull_hook :on_save
   end
 
+  ##
+  # Currently +save!+ is simply an alias of +save+, for compatibility with the
+  # +Project+ interface
+  alias :save! :save
+
   ##
   # Get the type of dataset as Symbol
   def type

data/lib/miga/version.rb

@@ -12,7 +12,7 @@ module MiGA
   # - String indicating release status:
   #   - rc* release candidate, not released as gem
   #   - [0-9]+ stable release, released as gem
-  VERSION = [1.2, 6, 4].freeze
+  VERSION = [1.2, 8, 2].freeze
 
   ##
   # Nickname for the current major.minor version.
@@ -20,7 +20,7 @@ module MiGA
 
   ##
   # Date of the current gem relese.
-  VERSION_DATE = Date.new(2022, 6, 24)
+  VERSION_DATE = Date.new(2022, 8, 14)
 
   ##
   # References of MiGA

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: miga-base
 version: !ruby/object:Gem::Version
-  version: 1.2.6.4
+  version: 1.2.8.2
 platform: ruby
 authors:
 - Luis M. Rodriguez-R
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2022-06-24 00:00:00.000000000 Z
+date: 2022-08-14 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: daemons
@@ -170,6 +170,7 @@ files:
 - lib/miga/cli/action/tax_index.rb
 - lib/miga/cli/action/tax_set.rb
 - lib/miga/cli/action/tax_test.rb
+- lib/miga/cli/action/touch.rb
 - lib/miga/cli/action/wf.rb
 - lib/miga/cli/base.rb
 - lib/miga/cli/objects_helper.rb