miga-base 1.2.14.0 → 1.2.14.2
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- checksums.yaml +4 -4
- data/lib/miga/cli/action/download/base.rb +7 -7
- data/lib/miga/cli/action/gtdb_get.rb +2 -2
- data/lib/miga/cli/action/ncbi_get.rb +1 -1
- data/lib/miga/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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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
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+
metadata.gz: b8a1b62d1125f54550d8cf801c46924abb79085005b8fa4abe732e9347b1fa82
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4
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+
data.tar.gz: baa4a96d604fd649147f47aafeaea038310b8ec588edb8055f7d511842ba3f6b
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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: 1ab3bed5edbd0e9ef513c731c9d28999bdb483547376446746157b58bddc92a9ddde7e0cdfd7766351f11e69f1e11df8e2ccf94815ab95108842caa43f6fdd29
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7
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+
data.tar.gz: b3401886ca9139d3ed3a9c19188a1b171254c0d0c1c21d63beffb71b497713dac59ba5fb0176bf2340bc48595640dc6dadfba7881aa7c993cd82894b0679c8a6
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@@ -9,9 +9,9 @@ end
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9
9
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module MiGA::Cli::Action::Download::Base
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10
10
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def cli_filters(opt)
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11
11
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opt.on(
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12
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-
'--
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13
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-
'A file with dataset names to
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|
14
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-
) { |v| cli[:
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12
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+
'--exclude PATH',
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13
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+
'A file with dataset names to exclude'
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14
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+
) { |v| cli[:exclude] = v }
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15
15
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cli.opt_flag(opt, 'dry', 'Do not download or save the datasets')
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16
16
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opt.on(
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17
17
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'--ignore-until STRING',
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@@ -49,10 +49,10 @@ module MiGA::Cli::Action::Download::Base
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49
49
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) { |v| cli[:remote_list] = v }
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50
50
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end
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51
51
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52
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-
def
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53
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-
unless cli[:
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54
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-
cli.say "Discarding datasets in #{cli[:
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|
55
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-
File.readlines(cli[:
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52
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+
def discard_excluded(ds)
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53
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+
unless cli[:exclude].nil?
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54
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+
cli.say "Discarding datasets in #{cli[:exclude]}"
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55
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+
File.readlines(cli[:exclude])
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56
56
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.select { |i| i !~ /^#/ }
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57
57
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.map(&:chomp)
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58
58
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.each { |i| ds.delete i }
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@@ -32,7 +32,7 @@ class MiGA::Cli::Action::GtdbGet < MiGA::Cli::Action
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32
32
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cli_filters(opt)
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33
33
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cli_save_actions(opt)
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34
34
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opt.on(
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35
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-
'--api-key STRING',
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35
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+
'--ncbi-api-key STRING',
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36
36
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'NCBI API key'
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37
37
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) { |v| ENV['NCBI_API_KEY'] = v }
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|
38
38
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end
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@@ -42,7 +42,7 @@ class MiGA::Cli::Action::GtdbGet < MiGA::Cli::Action
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42
42
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sanitize_cli
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43
43
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p = cli.load_project
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|
44
44
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ds = remote_list
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|
45
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-
ds =
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|
45
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+
ds = discard_excluded(ds)
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46
46
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ds = impose_limit(ds)
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47
47
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d, downloaded = download_entries(ds, p)
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48
48
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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
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|
15
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-
VERSION = [1.2, 14,
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|
15
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+
VERSION = [1.2, 14, 2].freeze
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16
16
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17
17
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##
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|
18
18
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# Nickname for the current major.minor version.
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