miga-base 1.3.14.6 → 1.3.15.0
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- checksums.yaml +4 -4
- data/lib/miga/cli/action/download/seqcode.rb +2 -2
- data/lib/miga/remote_dataset/base.rb +1 -1
- data/lib/miga/version.rb +2 -2
- data/scripts/ani_distances.bash +1 -1
- metadata +2 -2
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
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-
data.tar.gz:
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|
3
|
+
metadata.gz: c98ad5733d0f008f1aa18156c20f0fe59c7b30f1c2a7fadb213840c46bdd91fc
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4
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+
data.tar.gz: 794e59380b68c9dc2f62e3f5241e7fb0aa7436f7837693dea90da56c4d4b371c
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5
5
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SHA512:
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|
6
|
-
metadata.gz:
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|
7
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-
data.tar.gz:
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6
|
+
metadata.gz: e44d171e1ab9313d67f2fd3782335c3467ec9b61f425483539fd1c9691c572ecaee229a10529faac5cfd9314b350d54d427dd94c19496d1d71c81a554e7c6687
|
|
7
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+
data.tar.gz: 8b7f5b9ad54e08c3ad0ebdc2a6b24022a275259bddc6c579a1313f113d54a31a35f4fc761059491ec79e50d29fc3dd85687c53cd63479c8a1938f492a4bac9fa
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@@ -32,8 +32,8 @@ module MiGA::Cli::Action::Download::Seqcode
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|
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32
32
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:seqcode, :'type-genomes', nil, :json, nil, page: current_page
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|
33
33
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)
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|
34
34
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doc = MiGA::Json.parse(json, contents: true)
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|
35
|
-
current_page = doc
|
|
36
|
-
total_pages = doc
|
|
35
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+
current_page = doc.dig(:response, :current_page) + 1
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|
36
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+
total_pages = doc.dig(:response, :total_pages)
|
|
37
37
|
|
|
38
38
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doc[:values].each do |name|
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|
39
39
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next unless name[:type_material]
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@@ -22,7 +22,7 @@ module MiGA::RemoteDataset::Base
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22
22
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@@_EUTILS = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/'
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|
23
23
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@@_EBI_API = 'https://www.ebi.ac.uk/Tools/'
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|
24
24
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@@_GTDB_API = 'https://gtdb-api.ecogenomic.org/'
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|
25
|
-
@@_SEQCODE_API = 'https://
|
|
25
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+
@@_SEQCODE_API = 'https://api.seqco.de/v1/'
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|
26
26
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@@_EUTILS_BUILD = lambda { |service, q|
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|
27
27
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q[:api_key] = ENV['NCBI_API_KEY'] if ENV['NCBI_API_KEY']
|
|
28
28
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uri_safe_join(@@_EUTILS, "#{service}.fcgi")
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data/lib/miga/version.rb
CHANGED
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@@ -12,7 +12,7 @@ module MiGA
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|
|
12
12
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# - String indicating release status:
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13
13
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# - rc* release candidate, not released as gem
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|
14
14
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# - [0-9]+ stable release, released as gem
|
|
15
|
-
VERSION = [1.3,
|
|
15
|
+
VERSION = [1.3, 15, 0].freeze
|
|
16
16
|
|
|
17
17
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##
|
|
18
18
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# Nickname for the current major.minor version.
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@@ -20,7 +20,7 @@ module MiGA
|
|
|
20
20
|
|
|
21
21
|
##
|
|
22
22
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# Date of the current gem relese.
|
|
23
|
-
VERSION_DATE = Date.new(2024,
|
|
23
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+
VERSION_DATE = Date.new(2024, 5, 2)
|
|
24
24
|
|
|
25
25
|
##
|
|
26
26
|
# References of MiGA
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data/scripts/ani_distances.bash
CHANGED
|
@@ -34,7 +34,7 @@ rm "miga-project.txt.lno"
|
|
|
34
34
|
# R-ify
|
|
35
35
|
cat <<R | R --vanilla
|
|
36
36
|
file <- gzfile("miga-project.txt.gz")
|
|
37
|
-
text <- readLines(file, n = $LNO + 1, ok = FALSE)
|
|
37
|
+
text <- readLines(file, n = $LNO + 1, ok = FALSE)[-1]
|
|
38
38
|
a <- vector("character", $LNO)
|
|
39
39
|
b <- vector("character", $LNO)
|
|
40
40
|
d <- vector("numeric", $LNO)
|
metadata
CHANGED
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: miga-base
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 1.3.
|
|
4
|
+
version: 1.3.15.0
|
|
5
5
|
platform: ruby
|
|
6
6
|
authors:
|
|
7
7
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- Luis M. Rodriguez-R
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date: 2024-
|
|
11
|
+
date: 2024-05-02 00:00:00.000000000 Z
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|
12
12
|
dependencies:
|
|
13
13
|
- !ruby/object:Gem::Dependency
|
|
14
14
|
name: daemons
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