miga-base 1.2.6.3 → 1.2.7.0

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 424c00c37c64745ef9bf6441793fa8ec030756c5f1c248b6195cb95cd057729d
-  data.tar.gz: f29892c2dfe4d28258e5dc31b93d15f8ce3026eafd8159940faa00681e820ece
+  metadata.gz: ac1ddd7bd328cd888aa6ba2fba707ad9e0a78f207734584f17639d38b5a505cc
+  data.tar.gz: 931d56ffbbbb27e8cec80d583b44e740f499e39dd353d7178c28b44d71d962c5
 SHA512:
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-  data.tar.gz: a2d323f7f013d1e042f5d68a323585e646b671f68a6fa6dd980584d4352fe32138db049466b335c07c174d110225e55003c02a6564975ba0bb109465118858d4
+  metadata.gz: 5521179a1818bf88d0647556ed75445fc7bd7ceaefd1dabf9e84b2d1a8598fcac813dee1243ae7f5381caffa37e278744009ff32a383d0b3d756dd2c63c760a1
+  data.tar.gz: 985939d0897ccdb1318999cae4a469e20fa58f4a59eac5ee67e9486dec37980c52cad68c215622f78da007b100a9bf6918602bbb713130c31ac32a6e9d745f8e

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

@@ -136,9 +136,9 @@ module MiGA::Cli::Action::Init::DaemonHelper
   end
 
   def configure_qsub_msub_daemon(v)
-    queue       = cli.ask_user('What queue should I use?', nil, nil, true)
     flavor      = v[:type] == 'msub' ? 'msub' :
                   cli.ask_user('Select qsub flavor', 'torque', %w[torque sge])
+    queue       = cli.ask_user('What queue should I use?', nil, nil, true)
     v[:latency] = cli.ask_user('How long should I sleep? (in secs)', '150').to_i
     v[:maxjobs] = cli.ask_user('How many jobs can I launch at once?', '300').to_i
     v[:ppn]     = cli.ask_user('How many CPUs can I use per job?', '2').to_i
@@ -151,8 +151,8 @@ module MiGA::Cli::Action::Init::DaemonHelper
           "  {{variables}}: script, vars, cpus, log, task_name, task_name_simple\n ",
         "#{v[:type]} -q '#{queue}' -v '{{vars}}' -pe openmp {{cpus}} " \
           "-j y -o '{{log}}' -N '{{task_name_simple}}' -l h_vmem=9g " \
-          "-l h_rt=walltime=12:00:00 '{{script}}' | grep . " \
-          "| perl -pe 's/^Your job (\S+) .*/$1/'"
+          "-l h_rt=12:00:00 '{{script}}' | grep . " \
+          "| perl -pe 's/^Your job (\\S+) .*/$1/'"
       )
     else
       v[:cmd] = cli.ask_user(

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, 3].freeze
+  VERSION = [1.2, 7, 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(2022, 6, 24)
+  VERSION_DATE = Date.new(2022, 6, 26)
 
   ##
   # References of MiGA

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: miga-base
 version: !ruby/object:Gem::Version
-  version: 1.2.6.3
+  version: 1.2.7.0
 platform: ruby
 authors:
 - Luis M. Rodriguez-R
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2022-06-24 00:00:00.000000000 Z
+date: 2022-06-26 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: daemons