workflow_manager 0.1.2 → 0.1.7
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@@ -26,7 +26,7 @@ module WorkflowManager
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26
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end
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def job_ends?(log_file)
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28
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end
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29
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-
def copy_commands(org_dir, dest_parent_dir)
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29
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+
def copy_commands(org_dir, dest_parent_dir, now=nil)
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end
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def kill_command(job_id)
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end
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@@ -67,7 +67,7 @@ module WorkflowManager
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result = `#{command}`
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result.to_s.empty? ? false : true
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end
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70
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-
def copy_commands(org_dir, dest_parent_dir)
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+
def copy_commands(org_dir, dest_parent_dir, now=nil)
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commands = []
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commands << "mkdir -p #{dest_parent_dir}"
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commands << "cp -r #{org_dir} #{dest_parent_dir}"
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@@ -108,7 +108,7 @@ module WorkflowManager
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end
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def job_ends?(log_file)
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log_flag = false
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111
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-
IO.popen("tail -n 10 #{log_file}") do |io|
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+
IO.popen("tail -n 10 #{log_file} 2> /dev/null") do |io|
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while line=io.gets
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if line =~ /__SCRIPT END__/
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log_flag = true
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@@ -118,8 +118,12 @@ module WorkflowManager
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end
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log_flag
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end
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121
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-
def copy_commands(org_dir, dest_parent_dir)
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-
commands =
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121
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+
def copy_commands(org_dir, dest_parent_dir, now=nil)
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+
commands = if now
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123
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+
["g-req copynow #{org_dir} #{dest_parent_dir}"]
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else
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["g-req -w copy #{org_dir} #{dest_parent_dir}"]
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+
end
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end
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def kill_command(job_id)
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command = "qdel #{job_id}"
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@@ -130,7 +134,7 @@ module WorkflowManager
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end
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135
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class FGCZCourseCluster < FGCZCluster
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-
def copy_commands(org_dir, dest_parent_dir)
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+
def copy_commands(org_dir, dest_parent_dir, now=nil)
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commands = ["cp -r #{org_dir} #{dest_parent_dir}"]
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end
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def delete_command(target)
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@@ -107,8 +107,8 @@ module WorkflowManager
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def hello
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'hello, '+ @cluster.name
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end
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110
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-
def copy_commands(org_dir, dest_parent_dir)
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-
@cluster.copy_commands(org_dir, dest_parent_dir)
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110
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+
def copy_commands(org_dir, dest_parent_dir, now=nil)
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+
@cluster.copy_commands(org_dir, dest_parent_dir, now)
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end
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def kill_job(job_id)
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status(job_id, 'fail')
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@@ -251,7 +251,7 @@ module WorkflowManager
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end
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#@statuses.close
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end
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254
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-
s.
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254
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+
s.sort_by{|key, value| value.split(',')[2]}.reverse.map{|v| v.join(',')}.join("\n")
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end
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def get_log(job_id, with_err=false)
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log_file = nil
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metadata
CHANGED
@@ -1,7 +1,7 @@
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1
1
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--- !ruby/object:Gem::Specification
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2
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name: workflow_manager
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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: 0.1.
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4
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+
version: 0.1.7
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5
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prerelease:
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6
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platform: ruby
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7
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authors:
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@@ -9,7 +9,7 @@ authors:
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9
9
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autorequire:
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10
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bindir: bin
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11
11
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cert_chain: []
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12
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-
date: 2014-
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12
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+
date: 2014-12-12 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bundler
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