full_lengther_next 1.0.0 → 1.0.1

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
-  metadata.gz: 7800e4b0a50889d7b627ea4a01dc87629e30338e
-  data.tar.gz: 1dc9f576f8ebbc28e0e53ed822183ca40db94b6a
+  metadata.gz: b6c6ce15a48dc8c8cc6e90b45e20bb1089e9da41
+  data.tar.gz: 89cb0aa3462686a99567e974b20ae9725bea5c81
 SHA512:
-  metadata.gz: c0898c6a4e46d5ac7d35baf1484e6aa45420f5b77412b3070a46fceded8803a49fc39b92a2dec94135a0dfa7d2060d34b3ea44da768a41849c9bd8734b3f3f1a
-  data.tar.gz: 0b11a85a7e6fb17647cffadbfbc0b6e8d9ba4105adb4edb624663dda47a13d983efa2932aa73abc08e024511b643d44b1e7bf38913cedca2778825f76e69ae84
+  metadata.gz: e70ec49d6f970affab8e61a1e7caede3b218ab0c88765f867c2ca400ae5df614ecee0910f7c0faa668369c7b685c5dc3fcf99aaa682c3ef65e8f014d94f6b42e
+  data.tar.gz: cd1a6bc5892128100d1e015b1e9d2e2ae48fa0f5c466782a33553bc35e36c2c3ca44b1eed60ce842c11f29501523944d83856bef5b2a5590150f1b1c732c2952

data/bin/download_fln_dbs.rb

@@ -79,12 +79,13 @@ def compare_list(string, list)
     return res
 end
 
-def conecta_uniprot(my_array, formatted_db_path, no_trembl)
+def conecta_uniprot(my_array, formatted_db_path, no_trembl, passive_ftp)
 	
 	Dir.mkdir(formatted_db_path) if !File.exists?(formatted_db_path)
 	varsplic_out=File.join(formatted_db_path,'uniprot_sprot_varsplic.fasta.gz')
 
 	$ftp = Net::FTP.new()
+	$ftp.passive = true if passive_ftp
 	$ftp.connect('ftp.ebi.ac.uk')
 	$ftp.login
 	
@@ -339,6 +340,10 @@ optparse = OptionParser.new do |opts|
 		options[:no_uniprot] = TRUE
   end
 
+  options[:passive_ftp] = FALSE
+  opts.on( '-P', '--passive_ftp', 'Use pasive ftp') do
+                options[:passive_ftp] = TRUE
+  end
 
   # Set a banner, displayed at the top of the help screen.
   opts.banner = "Usage: #{File.basename(__FILE__)} [options]  \n\n"
@@ -375,7 +380,7 @@ puts "\nTo set the path for storing databases, execute next line in your termina
 download_ncrna(formatted_db_path, options[:no_download]) if !options[:no_ncrna]
 
 if !options[:no_download]
-	conecta_uniprot(options[:uniprot_div], formatted_db_path, options[:no_trembl]) 
+	conecta_uniprot(options[:uniprot_div], formatted_db_path, options[:no_trembl], options[:passive_ftp]) 
 end
 
 if !options[:no_uniprot]

data/lib/full_lengther_next/version.rb

@@ -1,3 +1,3 @@
 module FullLengtherNext
-  VERSION = '1.0.0'
+  VERSION = '1.0.1'
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: full_lengther_next
 version: !ruby/object:Gem::Version
-  version: 1.0.0
+  version: 1.0.1
 platform: ruby
 authors:
 - Pedro Seoane