full_lengther_next 1.0.4 → 1.0.6
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- checksums.yaml +4 -4
- data/bin/download_fln_dbs.rb +2 -2
- data/full_lengther_next.gemspec +1 -1
- data/lib/full_lengther_next/version.rb +1 -1
- metadata +6 -6
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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|
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1
1
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---
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2
2
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SHA256:
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3
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-
metadata.gz:
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|
4
|
-
data.tar.gz:
|
|
3
|
+
metadata.gz: 980bd75a5169048f8a2da0b6998828c4440bad75bef6fcee2dca8d6e5b6f8b82
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|
4
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+
data.tar.gz: 884febcb934cde31645467ba03374df37ad4ddb40a657248f51b7cd2e6c74fff
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|
5
5
|
SHA512:
|
|
6
|
-
metadata.gz:
|
|
7
|
-
data.tar.gz:
|
|
6
|
+
metadata.gz: 02435101dbbde310ecce144a3739e901ace8035aa89f007f651da6ae316e487077a85771b50e832f3751770c8225d6fe4695684d6572615794690932e0a167d0
|
|
7
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+
data.tar.gz: 173b8c3c637f80ac54e67ba54e870607e97a34045bec0fb5a757cd51f1af09f5c46446a6d4e23fbcc830cf66d3f8ff83c116103334601d937222e2068498d95c
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data/bin/download_fln_dbs.rb
CHANGED
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@@ -10,7 +10,7 @@ require 'scbi_zcat'
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|
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10
10
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require 'optparse'
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11
11
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require 'cdhit'
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|
12
12
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require 'handle_db'
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|
13
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-
require 'bio_patch'
|
|
13
|
+
#require 'bio_patch'
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|
14
14
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|
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15
15
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##############################################################################################
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16
16
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## METHODS
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@@ -376,7 +376,7 @@ Dir.mkdir(formatted_db_path) if !File.exists?(formatted_db_path)
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|
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376
376
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ENV['BLASTDB'] = formatted_db_path
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|
377
377
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puts "Databases will be downloaded at: #{ENV['BLASTDB']}"
|
|
378
378
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puts "\nTo set the path for storing databases, execute next line in your terminal or add it to your .bash_profile:\n\n\texport BLASTDB=/my_path/\n\n"
|
|
379
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-
puts "Patched? #{Bio::UniProtKB.patched?}"
|
|
379
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+
#puts "Patched? #{Bio::UniProtKB.patched?}"
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380
380
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download_ncrna(formatted_db_path, options[:no_download]) if !options[:no_ncrna]
|
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381
381
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382
382
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if !options[:no_download]
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data/full_lengther_next.gemspec
CHANGED
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@@ -32,7 +32,7 @@ Gem::Specification.new do |spec|
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|
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32
32
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spec.add_runtime_dependency 'scbi_blast'
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|
33
33
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spec.add_runtime_dependency 'scbi_mapreduce'
|
|
34
34
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spec.add_runtime_dependency 'scbi_zcat'
|
|
35
|
-
spec.add_runtime_dependency 'bio'
|
|
35
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+
spec.add_runtime_dependency 'bio', "~> 2.0.4"
|
|
36
36
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#spec.add_runtime_dependency 'bio-cd-hit-report' # Removed due to conflicts with bio-ruby2. This gem depends on bio ruby 1.4.3. cdhit options disabled
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37
37
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spec.add_runtime_dependency 'report_html'
|
|
38
38
|
|
metadata
CHANGED
|
@@ -1,7 +1,7 @@
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|
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1
1
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--- !ruby/object:Gem::Specification
|
|
2
2
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name: full_lengther_next
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|
3
3
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version: !ruby/object:Gem::Version
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|
4
|
-
version: 1.0.
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|
4
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+
version: 1.0.6
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|
5
5
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platform: ruby
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|
6
6
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authors:
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|
7
7
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- Pedro Seoane
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@@ -10,7 +10,7 @@ authors:
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|
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10
10
|
autorequire:
|
|
11
11
|
bindir: bin
|
|
12
12
|
cert_chain: []
|
|
13
|
-
date:
|
|
13
|
+
date: 2024-02-22 00:00:00.000000000 Z
|
|
14
14
|
dependencies:
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|
15
15
|
- !ruby/object:Gem::Dependency
|
|
16
16
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name: xml-simple
|
|
@@ -86,16 +86,16 @@ dependencies:
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|
|
86
86
|
name: bio
|
|
87
87
|
requirement: !ruby/object:Gem::Requirement
|
|
88
88
|
requirements:
|
|
89
|
-
- - "
|
|
89
|
+
- - "~>"
|
|
90
90
|
- !ruby/object:Gem::Version
|
|
91
|
-
version:
|
|
91
|
+
version: 2.0.4
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|
92
92
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type: :runtime
|
|
93
93
|
prerelease: false
|
|
94
94
|
version_requirements: !ruby/object:Gem::Requirement
|
|
95
95
|
requirements:
|
|
96
|
-
- - "
|
|
96
|
+
- - "~>"
|
|
97
97
|
- !ruby/object:Gem::Version
|
|
98
|
-
version:
|
|
98
|
+
version: 2.0.4
|
|
99
99
|
- !ruby/object:Gem::Dependency
|
|
100
100
|
name: report_html
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|
101
101
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requirement: !ruby/object:Gem::Requirement
|