miga-base 1.2.6.3 → 1.2.7.0
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- checksums.yaml +4 -4
- data/lib/miga/cli/action/classify_wf.rb +1 -1
- data/lib/miga/cli/action/init/daemon_helper.rb +3 -3
- data/lib/miga/version.rb +2 -2
- metadata +2 -2
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
|
|
1
1
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---
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2
2
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SHA256:
|
3
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-
metadata.gz:
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4
|
-
data.tar.gz:
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3
|
+
metadata.gz: ac1ddd7bd328cd888aa6ba2fba707ad9e0a78f207734584f17639d38b5a505cc
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4
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+
data.tar.gz: 931d56ffbbbb27e8cec80d583b44e740f499e39dd353d7178c28b44d71d962c5
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5
5
|
SHA512:
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6
|
-
metadata.gz:
|
7
|
-
data.tar.gz:
|
6
|
+
metadata.gz: 5521179a1818bf88d0647556ed75445fc7bd7ceaefd1dabf9e84b2d1a8598fcac813dee1243ae7f5381caffa37e278744009ff32a383d0b3d756dd2c63c760a1
|
7
|
+
data.tar.gz: 985939d0897ccdb1318999cae4a469e20fa58f4a59eac5ee67e9486dec37980c52cad68c215622f78da007b100a9bf6918602bbb713130c31ac32a6e9d745f8e
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@@ -56,7 +56,7 @@ class MiGA::Cli::Action::ClassifyWf < MiGA::Cli::Action
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56
56
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p = create_project(
|
57
57
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:assembly,
|
58
58
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p_metadata,
|
59
|
-
|
59
|
+
run_mytaxa_scan: false, run_distances: false
|
60
60
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)
|
61
61
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p.set_option(:ref_project, ref_db.path)
|
62
62
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p.set_option(:tax_pvalue, cli[:pvalue])
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@@ -136,9 +136,9 @@ module MiGA::Cli::Action::Init::DaemonHelper
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|
136
136
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end
|
137
137
|
|
138
138
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def configure_qsub_msub_daemon(v)
|
139
|
-
queue = cli.ask_user('What queue should I use?', nil, nil, true)
|
140
139
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flavor = v[:type] == 'msub' ? 'msub' :
|
141
140
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cli.ask_user('Select qsub flavor', 'torque', %w[torque sge])
|
141
|
+
queue = cli.ask_user('What queue should I use?', nil, nil, true)
|
142
142
|
v[:latency] = cli.ask_user('How long should I sleep? (in secs)', '150').to_i
|
143
143
|
v[:maxjobs] = cli.ask_user('How many jobs can I launch at once?', '300').to_i
|
144
144
|
v[:ppn] = cli.ask_user('How many CPUs can I use per job?', '2').to_i
|
@@ -151,8 +151,8 @@ module MiGA::Cli::Action::Init::DaemonHelper
|
|
151
151
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" {{variables}}: script, vars, cpus, log, task_name, task_name_simple\n ",
|
152
152
|
"#{v[:type]} -q '#{queue}' -v '{{vars}}' -pe openmp {{cpus}} " \
|
153
153
|
"-j y -o '{{log}}' -N '{{task_name_simple}}' -l h_vmem=9g " \
|
154
|
-
"-l h_rt=
|
155
|
-
"| perl -pe 's/^Your job (
|
154
|
+
"-l h_rt=12:00:00 '{{script}}' | grep . " \
|
155
|
+
"| perl -pe 's/^Your job (\\S+) .*/$1/'"
|
156
156
|
)
|
157
157
|
else
|
158
158
|
v[:cmd] = cli.ask_user(
|
data/lib/miga/version.rb
CHANGED
@@ -12,7 +12,7 @@ module MiGA
|
|
12
12
|
# - String indicating release status:
|
13
13
|
# - rc* release candidate, not released as gem
|
14
14
|
# - [0-9]+ stable release, released as gem
|
15
|
-
VERSION = [1.2,
|
15
|
+
VERSION = [1.2, 7, 0].freeze
|
16
16
|
|
17
17
|
##
|
18
18
|
# Nickname for the current major.minor version.
|
@@ -20,7 +20,7 @@ module MiGA
|
|
20
20
|
|
21
21
|
##
|
22
22
|
# Date of the current gem relese.
|
23
|
-
VERSION_DATE = Date.new(2022, 6,
|
23
|
+
VERSION_DATE = Date.new(2022, 6, 26)
|
24
24
|
|
25
25
|
##
|
26
26
|
# References of MiGA
|
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: 1.2.
|
4
|
+
version: 1.2.7.0
|
5
5
|
platform: ruby
|
6
6
|
authors:
|
7
7
|
- Luis M. Rodriguez-R
|
8
8
|
autorequire:
|
9
9
|
bindir: bin
|
10
10
|
cert_chain: []
|
11
|
-
date: 2022-06-
|
11
|
+
date: 2022-06-26 00:00:00.000000000 Z
|
12
12
|
dependencies:
|
13
13
|
- !ruby/object:Gem::Dependency
|
14
14
|
name: daemons
|