rbbt-sources 3.1.35 → 3.1.36

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: ff1cc882305d8bc0a5e81407d78870177f500537
-  data.tar.gz: 260dcaa7cb7e84de2aaf0293027fecb59712c2ba
+  metadata.gz: '04958a2fe4b32e75a513a2e74d97397d55a4c13f'
+  data.tar.gz: 746c8317ab47bc9537732ea79d539243216dafaa
 SHA512:
-  metadata.gz: e63dd46454833e824492e6116b732df01166d87a89d49536d15bda6ce9bf826ef5712ed1a04a3f673a4aad1fc233089071c074fcd3cbbca5fafcf99c08c5f7e7
-  data.tar.gz: c57c92936d4a2afce719d488ad1d5a8e800c13e1d64e01085ca2835f288a2d208ca2e2cbc8badf432b338e38b8fdc8f25dc9b2d1d700a944a21b187950cc3bfd
+  metadata.gz: 809fb8d4cfbbcb439ea5754a491c9ec5b135ac039e384c95df8c63fc582efe7cdb8fdf4dac087507932ccd4133f273236c3ae22d17cf260ec46c88e4405bea07
+  data.tar.gz: fa7ee7e513a7543a66c88c30360431defecefb8f8031a864291dc2ff98d049686d15128898aabbb84370e8e5a7ad1670e5d690000cbab882ada0090a20e2a90b

data/share/install/Organism/organism_helpers.rb

@@ -797,3 +797,16 @@ file 'gene_set' do |t|
   CMD.cmd("wget '#{url}' -O #{t.name}.gz")
   nil
 end
+
+file 'cdna_fasta' do |t|
+  path = File.expand_path(t.name)
+  dirname = File.dirname(path)
+  organism = File.basename(dirname)
+
+  release = Ensembl.org2release(organism)
+  num = release.split("-").last
+  build_code = num.to_i > 75 ? "GRCh38" : "GRCh37" 
+  url = "ftp://ftp.ensembl.org/pub/release-#{num}/fasta/homo_sapiens/cdna/Homo_sapiens.#{build_code}.cdna.all.fa.gz"
+  CMD.cmd("wget '#{url}' -O #{t.name}.gz")
+  nil
+end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: rbbt-sources
 version: !ruby/object:Gem::Version
-  version: 3.1.35
+  version: 3.1.36
 platform: ruby
 authors:
 - Miguel Vazquez
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2019-03-28 00:00:00.000000000 Z
+date: 2019-04-08 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rbbt-util