class Step attr_reader :stream, :dupped, :saved_stream STREAM_CACHE = {} STREAM_CACHE_MUTEX = Mutex.new def self.dup_stream(stream) case stream when IO, File return stream if stream.closed? STREAM_CACHE_MUTEX.synchronize do case current = STREAM_CACHE[stream] when nil Log.medium "Not duplicating stream #{ Misc.fingerprint(stream) }" STREAM_CACHE[stream] = stream when File if Open.exists? current.path Log.medium "Reopening file #{ Misc.fingerprint(current) }" Open.open(current.path) else Log.medium "Duplicating file #{ Misc.fingerprint(current) } #{current.inspect}" Misc.dup_stream(current) end else Log.medium "Duplicating stream #{ Misc.fingerprint(stream) }" Misc.dup_stream(current) end end when TSV::Dumper#, TSV::Parser stream = stream.stream return stream if stream.closed? STREAM_CACHE_MUTEX.synchronize do if STREAM_CACHE[stream].nil? Log.high "Not duplicating dumper #{ stream.inspect }" STREAM_CACHE[stream] = stream else new = Misc.dup_stream(STREAM_CACHE[stream]) Log.high "Duplicating dumper #{ stream.inspect } into #{new.inspect}" new end end else stream end end def self.purge_stream_cache return STREAM_CACHE_MUTEX.synchronize do STREAM_CACHE.collect{|k,s| Thread.new do Misc.consume_stream s end } STREAM_CACHE.clear end end def get_stream @mutex.synchronize do begin return nil if @saved_stream if IO === @result @saved_stream = @result else nil end end end end def dup_inputs return if @dupped or ENV["RBBT_NO_STREAM"] == 'true' @inputs = @inputs.collect do |input| Step.dup_stream input end @dupped = true end def _exec @exec = true if @exec.nil? @task.exec_in((bindings ? bindings : self), *@inputs) end def exec(no_load=false) dup_inputs dependencies.each{|dependency| dependency.exec(no_load) } @mutex.synchronize do @result = self._exec @result = @result.stream if TSV::Dumper === @result end (no_load or ENV["RBBT_NO_STREAM"]) ? @result : prepare_result(@result, @task.result_description) end def checks rec_dependencies.collect{|dependency| (defined? WorkflowRESTClient and WorkflowRESTClient::RemoteStep === dependency) ? nil : dependency.path }.compact.uniq end def kill_children begin children_pids = info[:children_pids] if children_pids and children_pids.any? Log.medium("Killing children: #{ children_pids * ", " }") children_pids.each do |pid| Log.medium("Killing child #{ pid }") begin Process.kill "INT", pid rescue Exception Log.medium("Exception killing child #{ pid }: #{$!.message}") end end end rescue Log.medium("Exception finding children") end end def run_dependencies @seen ||= [] seen_paths ||= Set.new dependencies.uniq.each do |dependency| dependency_path = dependency.path next if seen_paths.include? dependency_path @seen.concat dependency.rec_dependencies seen_paths.union(dependency.rec_dependencies.collect{|d| d.path}) @seen << dependency seen_paths << dependency_path end @seen.uniq! @seen.delete self return if @seen.empty? log :dependencies, "#{Log.color :magenta, "Dependencies"} #{Log.color :yellow, task.name.to_s || ""}" dupping = [] @seen.each do |dependency| next if (dependency.done? and not dependency.dirty?) or (dependency.streaming? and dependency.running?) or (defined? WorkflowRESTClient and WorkflowRESTClient::RemoteStep === dependency and not (dependency.error? or dependency.aborted?)) dependency.clean if dependency.started? and dependency dupping << dependency unless dependencies.include? dependency end dupping.each{|dep| dep.dup_inputs} @seen.each do |dependency| next unless dependencies.include? dependency Log.info "#{Log.color :cyan, "dependency"} #{Log.color :yellow, task.name.to_s || ""} => #{Log.color :yellow, dependency.task_name.to_s || ""} -- #{Log.color :blue, dependency.path}" begin dependency.run(true) unless dependency.done? or dependency.started? rescue Aborted Log.error "Aborted dep. #{Log.color :red, dependency.task.name.to_s}" raise $! rescue Interrupt Log.error "Interrupted while in dep. #{Log.color :red, dependency.task.name.to_s}" raise $! rescue Exception Log.error "Exception in dep. #{ Log.color :red, dependency.task.name.to_s }" raise $! end end end def run(no_load = false) result = nil begin @mutex.synchronize do no_load = no_load ? :stream : false result = Persist.persist "Job", @task.result_type, :file => path, :check => checks, :no_load => no_load do |lockfile| if Step === Step.log_relay_step and not self == Step.log_relay_step relay_log(Step.log_relay_step) unless self.respond_to? :relay_step and self.relay_step end @exec = false Open.rm info_file if Open.exists? info_file log :setup, "#{Log.color :green, "Setup"} #{Log.color :yellow, task.name.to_s || ""}" merge_info({ :pid => Process.pid, :issued => (issue_time = Time.now), :name => name, :clean_name => clean_name, :dependencies => dependencies.collect{|dep| [dep.task_name, dep.name, dep.path]}, }) dup_inputs begin run_dependencies rescue Exception stop_dependencies raise $! end set_info :inputs, Misc.remove_long_items(Misc.zip2hash(task.inputs, @inputs)) unless task.inputs.nil? set_info :started, (start_time = Time.now) log :started, "#{Log.color :magenta, "Starting"} #{Log.color :yellow, task.name.to_s || ""}" begin result = _exec rescue Aborted stop_dependencies log(:aborted, "Aborted") raise $! rescue Exception backtrace = $!.backtrace # HACK: This fixes an strange behaviour in 1.9.3 where some # backtrace strings are coded in ASCII-8BIT set_info :backtrace, backtrace log(:error, "#{$!.class}: #{$!.message}") backtrace.each{|l| l.force_encoding("UTF-8")} if String.instance_methods.include? :force_encoding stop_dependencies raise $! end if not no_load or ENV["RBBT_NO_STREAM"] == "true" result = prepare_result result, @task.description, info if IO === result result = prepare_result result.stream, @task.description, info if TSV::Dumper === result end stream = case result when IO result when TSV::Dumper result.stream end if stream log :streaming, "#{Log.color :magenta, "Streaming"} #{Log.color :yellow, task.name.to_s || ""}" ConcurrentStream.setup stream do begin if status != :done Misc.insist do set_info :done, (done_time = Time.now) set_info :total_time_elapsed, (total_time_elapsed = done_time - issue_time) set_info :time_elapsed, (time_elapsed = done_time - start_time) log :done, "#{Log.color :magenta, "Completed"} #{Log.color :yellow, task.name.to_s || ""} in #{time_elapsed.to_i}+#{(total_time_elapsed - time_elapsed).to_i} sec." end end rescue Log.exception $! ensure join end end stream.abort_callback = Proc.new do begin log :aborted, "#{Log.color :red, "Aborted"} #{Log.color :yellow, task.name.to_s || ""}" if status == :streaming rescue Log.exception $! end end else set_info :done, (done_time = Time.now) set_info :total_time_elapsed, (total_time_elapsed = done_time - issue_time) set_info :time_elapsed, (time_elapsed = done_time - start_time) log :done, "#{Log.color :magenta, "Completed"} #{Log.color :yellow, task.name.to_s || ""} in #{time_elapsed.to_i}+#{(total_time_elapsed - time_elapsed).to_i} sec." end result end if no_load @result ||= result self else @result = prepare_result result, @task.result_description end end rescue Exception exception $! raise $! end end def produce(force=true) return self if done? and not dirty? if error? or aborted? if force clean else raise "Error in job: #{status}" end end clean if dirty? run(true) unless started? join unless done? self end def fork(semaphore = nil) raise "Can not fork: Step is waiting for proces #{@pid} to finish" if not @pid.nil? and not Process.pid == @pid and Misc.pid_exists?(@pid) and not done? and info[:forked] @pid = Process.fork do Misc.pre_fork begin RbbtSemaphore.wait_semaphore(semaphore) if semaphore FileUtils.mkdir_p File.dirname(path) unless File.exists? File.dirname(path) begin res = run true set_info :forked, true rescue Aborted Log.debug{"Forked process aborted: #{path}"} log :aborted, "Job aborted (#{Process.pid})" raise $! rescue Exception Log.debug("Exception '#{$!.message}' caught on forked process: #{path}") raise $! ensure join_stream end begin children_pids = info[:children_pids] if children_pids children_pids.each do |pid| if Misc.pid_exists? pid begin Process.waitpid pid rescue Errno::ECHILD Log.low "Waiting on #{ pid } failed: #{$!.message}" end end end set_info :children_done, Time.now end rescue Exception Log.debug("Exception waiting for children: #{$!.message}") RbbtSemaphore.post_semaphore(semaphore) if semaphore Kernel.exit! -1 end set_info :pid, nil ensure RbbtSemaphore.post_semaphore(semaphore) if semaphore Kernel.exit! 0 end end Process.detach(@pid) self end def stop_dependencies dependencies.each do |dep| dep.abort end kill_children end def abort_pid @pid ||= info[:pid] case @pid when nil Log.medium "Could not abort #{path}: no pid" false when Process.pid Log.medium "Could not abort #{path}: same process" false else Log.medium "Aborting #{path}: #{ @pid }" begin Process.kill("KILL", @pid) Process.waitpid @pid rescue Exception Log.debug("Aborted job #{@pid} was not killed: #{$!.message}") end true end end def abort_stream stream = get_stream if @result stream ||= @saved_stream @saved_stream = nil if stream and stream.respond_to? :abort and not stream.aborted? begin Log.medium "Aborting job stream #{stream.inspect} -- #{Log.color :blue, path}" stream.abort #stream.close unless stream.closed? rescue Aborted Log.medium "Aborting job stream #{stream.inspect} ABORTED RETRY -- #{Log.color :blue, path}" Log.exception $! retry end end end def _abort return if @aborted @aborted = true return if done? Log.medium{"#{Log.color :red, "Aborting"} #{Log.color :blue, path}"} begin stop_dependencies abort_stream abort_pid rescue Aborted Log.medium{"#{Log.color :red, "Aborting ABORTED RETRY"} #{Log.color :blue, path}"} retry rescue Exception retry ensure if Open.exists? path Log.warn "Aborted job had finished. Removing result -- #{ path }" begin Open.rm path rescue Exception Log.warn "Exception removing result of aborted job: #{$!.message}" end end end Log.medium{"#{Log.color :red, "Aborted"} #{Log.color :blue, path}"} end def abort _abort log(:aborted, "Job aborted") unless aborted? or error? end def join_stream stream = get_stream if @result @result = nil if stream begin Misc.consume_stream stream stream.join if stream.respond_to? :join rescue Exception stream.abort self._abort raise $! end end end def soft_grace until Open.exists? info_file sleep 1 end self end def grace until done? or result or error? or aborted? or streaming? sleep 1 end self end def join grace if streaming? join_stream end return self if not Open.exists? info_file return self if info[:joined] pid = @pid Misc.insist [0.1, 0.2, 0.5, 1] do pid ||= info[:pid] end begin if pid.nil? or Process.pid == pid dependencies.each{|dep| dep.join } else begin Log.debug{"Waiting for pid: #{pid}"} Process.waitpid pid rescue Errno::ECHILD Log.debug{"Process #{ pid } already finished: #{ path }"} end if Misc.pid_exists? pid pid = nil dependencies.each{|dep| dep.join } end sleep 1 until path.exists? self ensure set_info :joined, true end end end