rbbt-sources 3.2.6 → 3.2.8

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 7098a343781a0f54e5bfad4428d7eabfc76b90f3ee3371682fa991908a2f3d66
-  data.tar.gz: 434ad969f7d7d31e875d7630e445f7892851c08b7848d158d587340f76bdf5cd
+  metadata.gz: b2e299974b06bf148322f149fd93262e720aab0caf06b7453bcab256b02d0b86
+  data.tar.gz: aef0cda5c7c6fdefeaa9e56a3bc7e712306b11f5f6b0a24f4c4f30e3f5723465
 SHA512:
-  metadata.gz: f618f9daa4887a1b6d603b35b806aed82e27f7a659b9a6c2a5561f5fdf184d1e6e07fd80dd81afcf1659533b0aeea75887c02b26ee422fcf6f3513598060dc04
-  data.tar.gz: 81a49c2c0d20fe8134682362b4bc7695bfd4bcb816d741dce72ff105695a077d612c52e76607f72b8e4783aebb5acd2e758f3894a84a7c389e4567c05df06722
+  metadata.gz: 78e97abb657e2a611ff8095e14be35a4cb5a6f0cb57cd2f145dd1d4ab5ee7ba810541d7fcefe8e3b7eef11d6c2f19fe52e85d39733036e526a8819f47dd3a482
+  data.tar.gz: f938a222fb60d963ec46c0786e17e8e05a459db362c92489cac60de3dc1bf169170593fa20b1df3e7c19ee6982ecf95284cd67f617280dd758267604065f3204

data/lib/rbbt/sources/organism.rb

@@ -68,7 +68,10 @@ module Organism
     module_eval "#{ organism } = with_key '#{organism}'"
   end
 
-  Rbbt.claim Rbbt.software.opt.bin.liftOver, :url, "http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/liftOver"
+  Rbbt.claim Rbbt.software.opt.bin.liftOver, :proc do |file|
+    url = "http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/liftOver"
+    CMD.cmd_log("wget '#{url}' -O '#{file}' && chmod +rx #{file}")
+  end
 
   def self.hg_build(organism)
     require 'rbbt/sources/ensembl_ftp'

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-sources
 version: !ruby/object:Gem::Version
-  version: 3.2.6
+  version: 3.2.8
 platform: ruby
 authors:
 - Miguel Vazquez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2023-03-07 00:00:00.000000000 Z
+date: 2023-03-17 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rbbt-util
@@ -178,24 +178,24 @@ required_rubygems_version: !ruby/object:Gem::Requirement
     - !ruby/object:Gem::Version
       version: '0'
 requirements: []
-rubygems_version: 3.1.4
+rubygems_version: 3.4.8
 signing_key: 
 specification_version: 4
 summary: Data sources for the Ruby Bioinformatics Toolkit (rbbt)
 test_files:
+- test/rbbt/sources/test_HPRD.rb
+- test/rbbt/sources/test_biomart.rb
+- test/rbbt/sources/test_entrez.rb
 - test/rbbt/sources/test_go.rb
-- test/rbbt/sources/test_pubmed.rb
-- test/rbbt/sources/test_pina.rb
-- test/rbbt/sources/test_pharmagkb.rb
+- test/rbbt/sources/test_gscholar.rb
+- test/rbbt/sources/test_kegg.rb
+- test/rbbt/sources/test_matador.rb
 - test/rbbt/sources/test_organism.rb
-- test/rbbt/sources/test_synapse.rb
-- test/rbbt/sources/test_entrez.rb
+- test/rbbt/sources/test_pharmagkb.rb
+- test/rbbt/sources/test_pina.rb
+- test/rbbt/sources/test_pubmed.rb
 - test/rbbt/sources/test_stitch.rb
-- test/rbbt/sources/test_biomart.rb
-- test/rbbt/sources/test_HPRD.rb
 - test/rbbt/sources/test_string.rb
-- test/rbbt/sources/test_kegg.rb
+- test/rbbt/sources/test_synapse.rb
 - test/rbbt/sources/test_tfacts.rb
-- test/rbbt/sources/test_matador.rb
-- test/rbbt/sources/test_gscholar.rb
 - test/test_helper.rb