full_lengther_next 0.9.9 → 1.0.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/bin/download_fln_dbs.rb +5 -5
- data/lib/full_lengther_next/version.rb +1 -1
- metadata +1 -1
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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1
1
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---
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2
2
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SHA1:
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3
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metadata.gz:
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4
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data.tar.gz:
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3
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+
metadata.gz: 7800e4b0a50889d7b627ea4a01dc87629e30338e
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4
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data.tar.gz: 1dc9f576f8ebbc28e0e53ed822183ca40db94b6a
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5
5
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SHA512:
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6
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-
metadata.gz:
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7
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data.tar.gz:
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6
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+
metadata.gz: c0898c6a4e46d5ac7d35baf1484e6aa45420f5b77412b3070a46fceded8803a49fc39b92a2dec94135a0dfa7d2060d34b3ea44da768a41849c9bd8734b3f3f1a
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7
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data.tar.gz: 0b11a85a7e6fb17647cffadbfbc0b6e8d9ba4105adb4edb624663dda47a13d983efa2932aa73abc08e024511b643d44b1e7bf38913cedca2778825f76e69ae84
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data/bin/download_fln_dbs.rb
CHANGED
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@@ -79,7 +79,7 @@ def compare_list(string, list)
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return res
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end
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-
def conecta_uniprot(my_array, formatted_db_path)
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def conecta_uniprot(my_array, formatted_db_path, no_trembl)
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Dir.mkdir(formatted_db_path) if !File.exists?(formatted_db_path)
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varsplic_out=File.join(formatted_db_path,'uniprot_sprot_varsplic.fasta.gz')
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@@ -91,7 +91,7 @@ def conecta_uniprot(my_array, formatted_db_path)
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puts "connected to UniProt"
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my_array.each do |db_group|
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puts "Downloading #{db_group}"
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download_uniprot(db_group, formatted_db_path)
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download_uniprot(db_group, formatted_db_path, no_trembl)
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end
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#archivo de variantes de splicing. POR QUE?
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@@ -102,13 +102,13 @@ def conecta_uniprot(my_array, formatted_db_path)
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puts "isoform files downloaded"
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end
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-
def download_uniprot(uniprot_group, formatted_db_path)
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def download_uniprot(uniprot_group, formatted_db_path, no_trembl)
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sp_out=File.join(formatted_db_path,"uniprot_sprot_#{uniprot_group}.dat.gz")
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tr_out=File.join(formatted_db_path,"uniprot_trembl_#{uniprot_group}.dat.gz")
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$ftp.chdir("/pub/databases/uniprot/current_release/knowledgebase/taxonomic_divisions")
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$ftp.getbinaryfile("uniprot_sprot_#{uniprot_group}.dat.gz", sp_out)
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$ftp.getbinaryfile("uniprot_trembl_#{uniprot_group}.dat.gz", tr_out)
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$ftp.getbinaryfile("uniprot_trembl_#{uniprot_group}.dat.gz", tr_out) if !no_trembl
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puts "#{uniprot_group} files downloaded"
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@@ -375,7 +375,7 @@ puts "\nTo set the path for storing databases, execute next line in your termina
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download_ncrna(formatted_db_path, options[:no_download]) if !options[:no_ncrna]
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if !options[:no_download]
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-
conecta_uniprot(options[:uniprot_div], formatted_db_path)
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conecta_uniprot(options[:uniprot_div], formatted_db_path, options[:no_trembl])
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end
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if !options[:no_uniprot]
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