miga-base 1.1.3.3 → 1.1.4.0

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 683a93a244b106eb24f94cff47695b28cc051701ecd4ea83b289a6650fdf3985
-  data.tar.gz: 6ce192df7a66502535a5c24406d9d3f1d0a1d51c11f3fb6e08f353547661c053
+  metadata.gz: bb03f8cf2e7a3ebd138b0a4b4fcb393093ee18317a89d168f27c1e2f4ac687cd
+  data.tar.gz: ca50166c33ae2a93e32e5f44f570e1d3b3cacd0ce7361d4e58b9ba9cefbc0dfa
 SHA512:
-  metadata.gz: cd07ba5ea8d3088ba9e7752c13bcdc07a0cf73175687c021e93c6df9361abd6dab361ffaed562f421f551999deee3de4f32d388f96f050ff45750d22bbe3eaf3
-  data.tar.gz: 18ba878127bc0abb7aed7b63398091cc2ed0fbee0d8629850a25d26ab9690f4489a8aca4fa8a3e2f2a8d4e80bdf1fd065511c23774327e988fac9ff0df645041
+  metadata.gz: f95b279c12c9e4735a7507795698fed578c28b904cb867caadebcd9f3ea0ba4592ef7d8763425cf0d6d1806f6afc1801ffa2b0db8341498c5e4c8d1ca2689214
+  data.tar.gz: f54a2e738c2ae885bda629d216f45d9b139bd64d68e99b95f02ea328a1f0c26138314a621ef63a836391559be703b24b78d2f83dadf496c94bc5f61a78e1abe7

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

@@ -38,9 +38,13 @@ class MiGA::Cli::Action::Daemon < MiGA::Cli::Action
         'Path to the list of execution hostnames'
       ) { |v| cli[:nodelist] = v }
       opt.on(
-        '--ppn INT',
+        '--ppn INT', Integer,
         'Maximum number of cores to use in a single job'
-      ) { |v| cli[:ppn] = v.to_i }
+      ) { |v| cli[:ppn] = v }
+      opt.on(
+        '--ppn-project INT', Integer,
+        'Maximum number of cores to use in project-wide tasks'
+      ) { |v| cli[:ppn_project] = v }
       opt.on(
         '--json PATH',
         'Path to a custom daemon definition in json format'
@@ -81,7 +85,7 @@ class MiGA::Cli::Action::Daemon < MiGA::Cli::Action
     # Configure and run daemon
     p = cli.load_project
     d = MiGA::Daemon.new(p, cli[:json])
-    dopts = %i[latency maxjobs nodelist ppn shutdown_when_done]
+    dopts = %i[latency maxjobs nodelist ppn ppn_project shutdown_when_done]
     dopts.each { |k| d.runopts(k, cli[k]) }
     d.show_log! if cli[:show_log]
     d.daemon(cli.operation, cli[:daemon_opts])

data/lib/miga/project.rb

@@ -121,4 +121,11 @@ class MiGA::Project < MiGA::MiGA
   def active?
     true
   end
+
+  ##
+  # Load or recover the project's daemon
+  def daemon
+    require 'miga/daemon'
+    @daemon ||= MiGA::Daemon.new(self)
+  end
 end

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 = [1.1, 3, 3].freeze
+  VERSION = [1.1, 4, 0].freeze
 
   ##
   # Nickname for the current major.minor version.
@@ -20,7 +20,7 @@ module MiGA
 
   ##
   # Date of the current gem relese.
-  VERSION_DATE = Date.new(2021, 11, 29)
+  VERSION_DATE = Date.new(2021, 12, 7)
 
   ##
   # References of MiGA

data/utils/FastAAI/FastAAI

@@ -2954,10 +2954,12 @@ def merge_db(recipient, donors, donor_file, verbose, threads):
 					pass
 	except:
 		#Error
-		shutil.rmtree(temp_dir)
+		if os.path.exists(temp_dir):
+			shutil.rmtree(temp_dir)
 	finally:
 		#Success
-		shutil.rmtree(temp_dir)
+		if os.path.exists(temp_dir):
+			shutil.rmtree(temp_dir)
 		
 	print("\nDatabases merged!")
 	

data/utils/distance/commands.rb

@@ -155,7 +155,7 @@ module MiGA::DistanceRunner::Commands
     # Build target database
     f1 = tmp_file
     if donors.size == 1
-      File.copy(donors.first, f1)
+      FileUtils.cp(donors.first, f1)
     else
       File.open(f0 = tmp_file, 'w') { |fh| donors.each { |i| fh.puts i } }
       run_cmd(

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: miga-base
 version: !ruby/object:Gem::Version
-  version: 1.1.3.3
+  version: 1.1.4.0
 platform: ruby
 authors:
 - Luis M. Rodriguez-R
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2021-11-29 00:00:00.000000000 Z
+date: 2021-12-07 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: daemons