rbbt-util 5.28.12 → 5.29.4
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- checksums.yaml +4 -4
- data/lib/rbbt/hpc.rb +1 -549
- data/lib/rbbt/hpc/orchestrate.rb +111 -0
- data/lib/rbbt/hpc/slurm.rb +592 -0
- data/lib/rbbt/persist.rb +4 -0
- data/lib/rbbt/tsv/attach.rb +7 -4
- data/lib/rbbt/tsv/parallel.rb +0 -3
- data/lib/rbbt/util/misc/inspect.rb +13 -3
- data/lib/rbbt/workflow.rb +2 -1
- data/lib/rbbt/workflow/accessor.rb +7 -1
- data/lib/rbbt/workflow/definition.rb +1 -0
- data/lib/rbbt/workflow/examples.rb +2 -2
- data/lib/rbbt/workflow/step.rb +8 -5
- data/lib/rbbt/workflow/step/accessor.rb +25 -15
- data/lib/rbbt/workflow/step/dependencies.rb +1 -2
- data/lib/rbbt/workflow/step/run.rb +0 -1
- data/lib/rbbt/workflow/util/orchestrator.rb +14 -9
- data/lib/rbbt/workflow/util/provenance.rb +5 -2
- data/share/rbbt_commands/slurm/clean +165 -0
- data/share/rbbt_commands/slurm/list +165 -0
- data/share/rbbt_commands/slurm/orchestrate +47 -0
- data/share/rbbt_commands/{workflow/slurm → slurm/task} +10 -3
- data/share/rbbt_commands/workflow/task +9 -6
- data/test/rbbt/test_workflow.rb +7 -7
- data/test/rbbt/tsv/test_attach.rb +86 -6
- metadata +8 -3
metadata
CHANGED
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@@ -1,14 +1,14 @@
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1
1
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--- !ruby/object:Gem::Specification
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2
2
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name: rbbt-util
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3
3
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version: !ruby/object:Gem::Version
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4
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-
version: 5.
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4
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+
version: 5.29.4
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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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- Miguel Vazquez
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8
8
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autorequire:
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|
9
9
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bindir: bin
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|
10
10
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cert_chain: []
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11
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-
date:
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11
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+
date: 2021-01-28 00:00:00.000000000 Z
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12
12
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dependencies:
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13
13
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- !ruby/object:Gem::Dependency
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14
14
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name: rake
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@@ -211,6 +211,8 @@ files:
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211
211
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- lib/rbbt/entity/identifiers.rb
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212
212
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- lib/rbbt/fix_width_table.rb
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213
213
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- lib/rbbt/hpc.rb
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214
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+
- lib/rbbt/hpc/orchestrate.rb
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|
215
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+
- lib/rbbt/hpc/slurm.rb
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|
214
216
|
- lib/rbbt/knowledge_base.rb
|
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215
217
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- lib/rbbt/knowledge_base/enrichment.rb
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|
216
218
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- lib/rbbt/knowledge_base/entity.rb
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@@ -376,6 +378,10 @@ files:
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376
378
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- share/rbbt_commands/resource/produce
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|
377
379
|
- share/rbbt_commands/resource/read
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|
378
380
|
- share/rbbt_commands/rsync
|
|
381
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+
- share/rbbt_commands/slurm/clean
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|
382
|
+
- share/rbbt_commands/slurm/list
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|
383
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+
- share/rbbt_commands/slurm/orchestrate
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|
384
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+
- share/rbbt_commands/slurm/task
|
|
379
385
|
- share/rbbt_commands/stat/abs
|
|
380
386
|
- share/rbbt_commands/stat/boxplot
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|
381
387
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- share/rbbt_commands/stat/compare_lists
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@@ -430,7 +436,6 @@ files:
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|
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430
436
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- share/rbbt_commands/workflow/remote/list
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431
437
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- share/rbbt_commands/workflow/remote/remove
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432
438
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- share/rbbt_commands/workflow/server
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|
433
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-
- share/rbbt_commands/workflow/slurm
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|
434
439
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- share/rbbt_commands/workflow/task
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|
435
440
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- share/rbbt_commands/workflow/trace
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436
441
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- share/unicorn.rb
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