miga-base 1.3.21.2 → 1.3.21.4

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 8cdfd44decfe646a4acbda6c5f4569189d1d647c396a39688a9bf2468766fd30
-  data.tar.gz: 5a61d4f447a4695f90028d4b55604ff36585afa156cb7cd6910e2d23a6488efc
+  metadata.gz: 9107e63583b16372524e7ed0198bd263795d5cbbbcdd3b37470cfd2dce5db2a9
+  data.tar.gz: 168cd9a078459088db54aded997cf4a262b6c47c644aad33a4b0b0e418b8b4dd
 SHA512:
-  metadata.gz: c7faf6742be1fe0bed5606e2c0ef28c96e98a2b31ade5a613e6b2f2feac3d224b0b6ae40664c82963750d26e8287b98a3220d5ada50d5e396b88c4a51554ccab
-  data.tar.gz: 88055ad7f63d14f525cbd079a125de9a6f3373bb7ab3bb1e51a81248db1bc88272807b87706aafe5aeca27222a48cf9e6794037cbba631cd5747bee644b1b7a8
+  metadata.gz: b9b4d98879f48f7540a106148fc677536c1fc59776236d36522dea0b2747b999b26ee77f6785aec76aa653a24c83c31f98d7195694ed13d2442fb86c7f2f1436
+  data.tar.gz: 67ec41f81a78f163b21c619f6ab600f5d252d0502439f51b3694dfc559b30c4ade40e688de4970fa8608c22df4132a5c355857b40b2544939026822b7fe900ab

data/lib/miga/common/format.rb

@@ -51,7 +51,7 @@ module MiGA::Common::Format
           end
           next_seq = [">#{id.gsub(/[^A-Za-z0-9_\|\.]/, '_')}#{df}", '']
         else
-          next_seq[1] += ln.gsub(/[^A-Za-z\.\-]/, '')
+          next_seq[1] += ln.gsub(/[^A-Za-z]/, '')
         end
       end
       if next_seq[1].length >= min_len

data/lib/miga/daemon/base.rb

@@ -59,7 +59,7 @@ module MiGA::Daemon::Base
 
   ##
   # Returns the running option +opt+ in jobs for +what+. +what+ can be
-  # +:dataset+ or +:projects+
+  # +:dataset+ or +:project+
   def runopts_for(opt, what)
     runopts(:"#{opt}_#{what}") || runopts(opt)
   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 = [1.3, 21, 2].freeze
+  VERSION = [1.3, 21, 4].freeze
 
   ##
   # Nickname for the current major.minor version.
@@ -20,7 +20,7 @@ module MiGA
 
   ##
   # Date of the current gem relese.
-  VERSION_DATE = Date.new(2024, 9, 28)
+  VERSION_DATE = Date.new(2024, 12, 23)
 
   ##
   # References of MiGA

data/scripts/ssu.bash

@@ -78,8 +78,10 @@ $(
     bedtools --version 2>&1 | perl -pe 's/^bedtools //'
     echo "=> Enveomics Collection"
     echo "version unknown"
-    echo "=> RDP Naive Bayes Classifier"
-    gzip -cd "${DATASET}.rdp.tsv.gz" | tail -n 1 | perl -pe 's/.*: //'
+    if [[ -e "${DATASET}.rdp.tsv.gz" ]] ; then
+      echo "=> RDP Naive Bayes Classifier"
+      gzip -cd "${DATASET}.rdp.tsv.gz" | tail -n 1 | perl -pe 's/.*: //'
+    fi
     echo "=> tRNAscan-SE"
     tRNAscan-SE -h 2>&1 | head -n 2 | tail -n 1 | perl -pe 's/^tRNAscan-SE //'
   fi

data/test/format_test.rb

@@ -11,7 +11,7 @@ class FormatTest < Test::Unit::TestCase
 
   def test_clean_fasta
     c = ">MyFa|not-good\nACTG123ACTG-XXNN*\n>GoodOne + spaces!\n\nA C T G .\n"
-    cc = ">MyFa|not_good\nACTGACTG-XXNN\n>GoodOne + spaces!\nACTG.\n"
+    cc = ">MyFa|not_good\nACTGACTGXXNN\n>GoodOne + spaces!\nACTG\n"
     f = helper_write_file(c)
     assert_equal(c, File.read(f))
     MiGA::MiGA.clean_fasta_file(f)

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: miga-base
 version: !ruby/object:Gem::Version
-  version: 1.3.21.2
+  version: 1.3.21.4
 platform: ruby
 authors:
 - Luis M. Rodriguez-R
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2024-09-28 00:00:00.000000000 Z
+date: 2024-12-23 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: daemons