Running DAQ Interface » History » Version 98

John Freeman, 12/09/2014 02:40 PM

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!DAQ_communication_diagram - New Page.png!
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h1. Getting help
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If, after reading this document (in particular, the "Troubleshooting and FAQ" section) you run into issues, or have questions, please contact:
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* DAQInterface
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** John Freeman -
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* RunControl
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** Erik Blaufuss -
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* Configuration Manager
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** Jon Paley -
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h1. Starting DAQInterface and Run Control
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The DAQ software, consisting of RunControl, the configuration manager and DAQInterface (as well as the artdaq processes it controls) is designed to be run on, using the lbnedaq account. If you need access to the account, please contact one of us.
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Primarily of developer (as opposed to user) interest, DAQInterface and RunControl software can also be run on the lbnedaqtest01 VM machine, please contact John Freeman at, for more details.
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The installed code is located at To get started, login and first setup the environment:
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cd /data/lbnedaq/daqarea
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source fireup
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This will take you into the /data/lbnedaq/daqarea/lbnerc directory. It's a good idea to check whether lbnecontrol (the RunControl application), DAQInterface (the component which intermediates between RunControl, the configuration manager, and the artdaq processes) and the configuration manager are already running; if they are, the instructions below won't work. Also worth noting is that as of 11/21/14, attempts to use multiple DAQs (implying multiple instances of RunControl, DAQInterface, etc.) has not been attempted and likely will not work. To check for RunControl and DAQInterface, you can try:
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lbnecmd check
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This will display the current state of DAQInterface and RunControl. The example below shows that both RunControl and DAQInterface are running, but the DAQ run is in the stopped state:
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(env)[lbnedaq@lbne35t-gateway01 lbnerc]$ lbnecmd check
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lbnecontrol: running
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daqint@localhost:5770 (synchronous): stopped
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If RunControl is running, and at some point DAQInterface was running but has since been killed:
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lbnecontrol: running
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daqint@localhost:5770 (synchronous): missing
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(In this case, just restart DAQInterface -- how to do this is described shortly).
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If RunControl is not running, you'll see something like:
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(env)[lbnedaq@lbne35t-gateway01 lbnerc]$ lbnecmd check
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check failed: '[Errno 111] Connection refused'.  Is lbnecontrol running?
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To check whether the configuration manager is running, you can simply use Linux commands:
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ps aux | grep -v grep | grep CfgMgrApp
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This will either return info on CfgMgrApp (the actual name of the configuration manager process), or print nothing if it's not running. In fact, it's possible to use Linux commands to check the status of all three programs:
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ps aux | grep -v grep | egrep -e lbnecontrol -e daqinterface -e CfgMgrApp
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h3. Starting RunControl
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To start RunControl (after loading environment as above):
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rm /tmp/  # (This should only be necessary if RunControl software wasn't stopped cleanly)
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lbnecmd launch
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h3. Starting DAQInterface
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To start DAQInterface (after loading environment as above), the basic command is:
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daqinterface -n daqint -r 5570 -c localhost -H localhost -f <daqinterface file> &
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Here, the "daqint" argument is arbitrary, and is the name you'll give the DAQInterface process in RunControl; the "5570" argument is the port off of which DAQInterface will run. The "-f <daqinterface file>" is optional; if left out, the lbnerc/docs/config.txt file will be used to configure DAQInterface, otherwise <daqinterface file> will be used. The DAQInterface configuration is not to be confused with run configurations handled by the configuration manager; see the section "Configuring DAQInterface" for more. 
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If multiple users with different terminals wish to check the DAQ output, it is recommended to try:
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stdbuf -oL daqinterface -n daqint -r 5570 -c localhost -H localhost -f <daqinterface file> >>~/DI.log 2>&1 &
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This will launch daqinterface in the background, with all messages being appended to the bottom of the file ~/DI.log  (The stdbuf -oL prevents buffering of output to the file, so the file should update in real time)
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h3. Starting the configuration manager
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Please see the "Starting up the CfgMgrApp on lbne35t-gateway01" section of Jon Paley's documentation here:
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h3. Forcing cleanup: performing a hard reset of RunControl, DAQInterface and the configuration manager
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If needed, you can track down the process names and kill them explicitly to get a clean reset, using the same Linux command shown above to get process info:
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ps aux | grep -v grep | egrep -e lbnecontrol -e daqinterface -e CfgMgrApp
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Keep in mind that if these processes are running, it might mean that someone else is using the DAQ, or that someone else who's done using it forgot to clean up. As the 9th and 10th fields of the row of variables "ps aux" returns concern how long the program has been running, you can use these values as well as your best judgement, then, before deciding these processes are not in active use and killing them.   To kill them, keeping in mind that the second field returned from "ps aux" is the process id (PID), use:
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kill <PID>
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If daqinterface is killed externally, then if it was in any state other than "stopped" at the time (and it likely was, otherwise a hard reset would likely have been avoidable), it's quite possible that it's left "orphaned" artdaq processes. If this is the case, you'll want to clean these up before trying to run the DAQ again, as they'll block the ports if they remain alive as "zombie" processes. Check the DAQInterface configuration file (defaults to lbnerc/docs/config.txt unless an alternate was supplied via the "-f" option to DAQInterface) to see which node the PMT (Process Management Tool) was running on, and check for it with
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ps aux | grep -v grep | grep pmt.rb
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Use this to get the process ID to kill it. Of course, also be aware that if artdaq processes were in communication with hardware when the orphaning occurred, killing them off might result in issues for the hardware, but the specifics of any hardware issues that may arise go beyond the scope of this document.
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h1. Configuring and starting Runs
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Now, you can take the DAQ system through the standard transitions to start a DAQ run.  At all stages, you can use the "lbnecmd check" command to see what state DAQInterface is in; note that you'll want to wait for a transition to complete before issuing another one, otherwise you'll receive a warning and the transition request will be ignored. DAQInterface will also report to its log file when transitions are complete:
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Initialize transition complete; if running DAQInterface in the background, can press <enter> to return to shell prompt
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Note that if a high "debug level" has been set (see below for more on this), this message can get buried in a set of output messages; in this case "lbnecmd check" may be the easiest way to determine what state the system is in. 
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h2.  Selecting a run configuration and DAQ components
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*Before initializing or starting a DAQ run*, a configuration and set of DAQComponents must be selected.  This is done via RunControl.
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h3. List and select a configuration:
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To see the list of available configurations (queried from the configuration manager):
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lbnecmd listconfigs
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Will return a list of configs:
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Available configs (Name : description)
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demo : Pithy description
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tmp1 : Pithy description
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Current selected config: No Config
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This lists all available configs, as well as the current selected config (Note, default config is "No Config").  You can then select a configuration:
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lbnecmd setconfig demo
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This will return "OK" if successful; "lbnecmd listconfigs" will then show this as the current config.  If the specified configuration is not known, an error is returned. Instructions on how to add a configuration are given later in this document.
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h3. List and select DAQ components.
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You can select which portions of the LBNE DAQ setup you want to use in the upcoming run.  These are mapped generally to the ArtDAQ BoardReaderMain processes
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that read them out.   As an operator, you need to ensure that there are configuration files available in the configuration manager for the DAQ Components that you select here, or DAQInterface will return an error.
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To see the list of available DAQ components:
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lbnecmd listdaqcomps
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Will return a list of components available and selected (*Default* is ALL available components), e.g.:
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{'available': {'component02': ['lbnedaq2', '5206'], 'component01': ['lbnedaq2', '5205']}}
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{'selected': {'component02': ['lbnedaq2', '5206'], 'component01': ['lbnedaq2', '5205']}}
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Shown are the available components by name, along with the requested host/port to run the BoardReaderMain process on. You can then select a list of DAQ components to use in the run:
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lbnecmd setdaqcomps component01 component02
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This will return "OK" if successful ("lbnecmd listdaqcomps" will show this in the "selected" row of components).  If the specified compnents are not known, an error is returned.
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To change the list of available components, see below.
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h2. Initializing, starting, stopping and terminating a Run
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For each of these transitions, please recall that while "lbnecmd <cmd>" returns very quickly, the actual issued command can take several seconds or minutes to complete.  Before issuing another command, be sure that the transition is complete by using the check command:
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lbnecmd check
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For example, before issuing the "start" transition, you can use this command to ensure that the DAQ is in the "ready" state and not still in the "initializing" stage.
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First, take DAQInterface from the "stopped" to the "ready" state; this will create the artdaq processes on the hosts you selected (DAQ components), and initialize them with the FHiCL documents:
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lbnecmd init daq
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Take DAQInterface from the "ready" to the "running" state, in order to begin taking data:
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lbnecmd start daq
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Note: the current run number is displayed when DAQ is in the running state using the "lbnecmd check" command:
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lbnecmd check
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lbnecontrol: running
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Run number: 207
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Run configuration: demo
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daqint@localhost:5570 (synchronous): running
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Pause the running of the DAQ, putting DAQInterface into the "paused" state.  This will cause the current open output file to be closed and given a name reflecting the current run number:
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lbnecmd pause daq
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Resume the running of the DAQ, putting returning to the "running" state.  This will restart data taking to a new output file:
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lbnecmd resume daq
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Halt the running of the DAQ, returning DAQInterface to the "ready" state from the "running" state:
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lbnecmd stop daq
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From the ready state, you can start a new run with the same configuration and DAQ components you originally selected. 
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*NOTE* To select a new configuration or DAQ component set, you must kill all ArtDAQ processes and return DAQInterface to its "stopped" state with the "terminate" command:
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lbnecmd terminate daq
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If you want to stop all RunControl processes (known as "lbnecontrol"):
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lbnecmd kill
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After this, you will need to relaunch RunControl as above.
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h2. After your DAQ run.
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Once you've completed your run, there are a few things you can look at. 
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h3. The DAQ log
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A record of the DAQ's output will be saved in the subdirectory pmt/ relative to where you specified the output logfiles; thus given the "log directory" setting in the example DAQInterface configuration file below, you'd find the output in /data/lbnedaq/daqlogs/pmt/. 
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h3. The run record
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Also, a record of the FHiCL documents sent to the artdaq processes, the configuration file used to control DAQInterface, and some further information will have been saved; as of this writing (12/3/14) the directory in which this can be found defaults to /data/lbnedaq/run_records/<run number>. 
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** PLEASE NOTE that there may be slight differences between the saved FHiCL documents and the FHiCL documents specified in the DAQInterface configuration file (those that control the EventBuilderMain processes) and the run configuration (those that control the BoardReaderMain and AggregatorMain processes). The saved FHiCL document name is standardized to <processtype>_<host>_<port>_r<run number>.fcl, so, e.g, "EventBuilder_lbnedaq2_5235_r286.fcl" would be the saved name of /data/lbnedaq/fcl/EventBuilder_demo1.fcl, listed in the example DAQInterface configuration file above, assuming datataking was performed in run 286. 
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** More importantly, the FHiCL document actually sent to the artdaq process may be slightly different than the FHiCL document provided for DAQInterface; this is because DAQInterface performs some bookkeeping on FHiCL variables which account for things such as the number of processes of a given type (note that it makes no changes which would affect the physics). It is this post-bookkeeping FHiCL document which actually gets sent to the processes which gets saved to the output directory. 
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** The "further information" mentioned above is stored in a file of the form "metadata_r<run number>.txt"; it includes the configuration chosen for the run, the components used, as well as the commit hashes for the lbne-artdaq, lbnerc, and configuration directory used. E.g.,
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Config name: demo
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Component #0: component01
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Component #1: component02
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lbne-artdaq commit: 13b523181a6f8ff6e78ede590d6372ed6193c79c
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lbnerc commit: 288001cf015e1a763dbba482923fc7ac8f379ae6
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/data/lbnedaq/config commit: 877e43fe3ad96991adf5d57dbfbdefb6300fde25
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h3. Output of the Art modules
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Various Art modules may create various types of output. In particular, it's standard for one of the two AggregatorMains running in an artdaq-based DAQ to use Art's RootOutput module, which will save the assembled raw event in an Art-readable *.root file. The location of this output can be found in the FHiCL code used to control RootOutput. The other AggregatorMain typically will run other RootOutput modules designed to create plots, diagnostic printouts, etc.; the nature of the output here is too varied to neatly summarize, but checking the FHiCL code used to control these Art modules should reveal their output location.
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To take a quick look at the Art-readable *.root file, with a version of lbne-artdaq newer than 11/25/14, you can do the following:
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cd <lbne-artdaq basedir>
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source setupLBNEARTDAQ
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rawEventDump -s <rootfile> -n <max events>
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where here, <lbne-artdaq basedir> is the parent directory of the lbne-artdaq package, <rootfile> is the Art-readable *.root file produced in a given run, and <max events> is the max events whose info you wish to look at. The output of this command will look something like the following:
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%MSG-i MF_INIT_OK:  art 01-Dec-2014 16:13:59 CST JobSetup 
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Messagelogger initialization complete.
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%MSG-i PathConfiguration:  art 01-Dec-2014 16:14:00 CST JobSetup 
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Multiple end paths have been combined into one end path,
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"end_path" since order is irrelevant.
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01-Dec-2014 16:14:00 CST  Initiating request to open file /tmp/lbne35t_r000270_sr01_20141201T221127.root
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01-Dec-2014 16:14:00 CST  Successfully opened file /tmp/lbne35t_r000270_sr01_20141201T221127.root
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Package             |Version             |Timestamp           
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artdaq-core         |v1_04_06            |01-Dec-2014 21:59:51 UTC
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artdaq              |v1_12_04            |01-Dec-2014 22:01:57 UTC
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lbne-artdaq         |v0_00_08            |01-Dec-2014 22:00:18 UTC
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lbne-artdaq         |v0_07_00            |01-Dec-2014 22:02:57 UTC
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Begin processing the 1st record. run: 270 subRun: 1 event: 1 at 01-Dec-2014 16:14:00 CST
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DAQ......... | daq........... | TOY1................. | std::vector<artdaq::Fragment> | artdaq::Fragments.... | ...2
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DAQAG....... | TriggerResults | ..................... | art::TriggerResults.......... | art::TriggerResults.. | ...-
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Total products (present, not present): 8 (2, 6).
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DAQAG....... | BuildInfo... | LbneArtdaq........... | std::vector<artdaq::PackageBuildInfo> | artdaq::PackageBuildInfos | ...4
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Total products (present, not present): 1 (1, 0).
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01-Dec-2014 16:14:00 CST  Closed file /tmp/lbne35t_r000270_sr01_20141201T221127.root
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TrigReport ---------- Event  Summary ------------
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TrigReport Events total = 1 passed = 1 failed = 0
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TrigReport ------ Modules in End-Path: end_path ------------
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TrigReport  Trig Bit#    Visited     Passed     Failed      Error Name
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TrigReport     0    0          1          1          0          0 printBuildInfo
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TrigReport     0    0          1          1          0          0 out1
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TimeReport ---------- Time  Summary ---[sec]----
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TimeReport CPU = 0.003361 Real = 0.003000
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Art has completed and will exit with status 0.
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The first thing you see here is the version and build time of the lbne-artdaq package and some of the main packages on which it depends. Then you see a listing of products in the root file, here including two fragments of type TOY1, produced by the ToySimulator fragment generator. Finally, a listing of passed events; the output here is the result of running with "-n 1" as an option, so as we'd expect there's only one event.
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h1. Configuring DAQInterface: the DAQInterface configuration file
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DAQInterface has some key information stored in a local configuration file, NOT to be confused with the run configuration described elsewhere on this wiki. Examples of this information are  location and ports for artdaq processes, location of lbne-artdaq software, debug (log) level, etc). These can be changed before the DAQInterface process is started. It's expected that for normal operations, these should not need to changed too often, and alterations will be primarily of developer or expert interest. If you ARE a developer/expert or are simply curious, take a look at the default DAQInterface configuration file, found in docs/config.txt (relative to /data/lbnedaq/daqarea/lbnerc); it should look something like the following:
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lbne-artdaq: /data/lbnedaq/daqarea/lbne-artdaq-base/lbne-artdaq
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PMT host: lbnedaq3
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pause before initialization: 5
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# debug level can range from 0 to 3 (increasing order of verbosity)
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debug level: 1
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log directory:   /data/lbnedaq/daqlogs
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record directory: /data/lbnedaq/run_records
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EventBuilder host: lbnedaq2
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EventBuilder port: 5235
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EventBuilder fhicl: /data/lbnedaq/fcl/EventBuilder_demo1.fcl
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EventBuilder host: lbnedaq2
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EventBuilder port: 5236
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EventBuilder fhicl: /data/lbnedaq/fcl/EventBuilder_demo2.fcl
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Aggregator host: lbnedaq2
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Aggregator port: 5265
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Aggregator host: lbnedaq2
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Aggregator port: 5266
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The meaning of these parameters is as follows:
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* *lbne-artdaq* : the directory in which the desired build of lbne-artdaq to use is located
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* *PMT host* : the host on which artdaq's process management tool script (pmt.rb, used by DAQInterface to launch and kill the artdaq processes) will run
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* *pause before initialization* : the time in seconds between when the artdaq processes have been created and when they're initialized via FHiCL documents; empirically a pause of 5 seconds seems to be sufficient (less than this an errors can occur; see below in the "Troubleshooting" section for more
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* *debug level* : allows the user to set the verbosity level of the output to the screen; setting it to higher values creates greater verbosity, and as a practical matter, the range of settings is currently 0-3. Loosely speaking, "0" means minimal output (not much beyond simply announcing a transition is complete), "1" includes announcements of progress during transitions, "2" includes these announcements plus the values of certain variables as well as lbne-artdaq output, and "3" is primarily of developer interest. 
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* *log directory* : the directory relative to which lbne-artdaq's pmt/*.log output (a record of what it sent to stdout) will be placed
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* *record directory* : the directory to which metadata about the run (FHiCL documents used, DAQInterface configuration file used, etc.) gets sent
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After these individual parameters, one defines the EventBuilderMain and AggregatorMain artdaq processes. Specifically, an EventBuilderMain is defined in three lines, where each line should contain "EventBuilder", and define the host and port on which the EventBuilderMain will run (to run an artdaq process on the same host as you're on, use "localhost") as well as the FHiCL document used to initialize the EventBuilderMain. AggregatorMain is defined similarly, using the token "Aggregator", but without the FHiCL document supplied, as this is supplied by the choice of configuration in the configuration manager. Best practice is to place the EventBuilderMain's FHiCL documents in the /data/lbnedaq/fcl directory. Please note that the order of processes matters, and that they should be listed front-end to back-end, i.e., EventBuilders should appear before Aggregators.
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h1. Adding new configurations to RunControl
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Adding a new configuration selectable from RunControl involves two steps: creating a directory with the desired name of the configuration which contains the desired FHiCL documents, and then committing that directory to the git repository. 
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As of 11/20/14, the FHiCL documents associated with a given configuration are edited within the directory
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where "named_configuration" would be the name of the configuration, in this example. Within this directory, the following files are expected:
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* Aggregator1.fcl and Aggregator2.fcl, used to initialize the two AggregatorMain processes in the DAQ system
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* <named_component>_hw_cfg.fcl, used to initialize the BoardReaderMain process running the fragment generator associated with detector component "named_component". Note that there can be any number of such files associated with a configuration, as long as a given component is registered to RunControl (see below, "Adding new DAQ Components to RunControl")
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There are existing examples of configurations currently within /data/lbnedaq/config which can be studied (and even copied) for further guidance; however, please disregard the "tmp1" and "tmp2" configurations. Note that the FHiCL documents in these directories contain some variables which are set to "PLACEHOLDER", e.g.
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 event_builder_count: PLACEHOLDER
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Note that this is not legal FHiCL, but that DAQInterface will substitute in the appropriate value before using the FHiCL document to initialize an artdaq process; here, for example, it would replace "PLACEHOLDER" with the actual number of EventBuilderMain processes being run.
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Once you've added a new configuration to /data/lbnedaq/config, you'll need to perform a git commit. Essentially,  /data/lbnedaq/config is not merely a collection of directories naming configurations, but also a git repository. In fact, if you run
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git log
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you'll see a history of the commits made to the repository. In order to commit the directory, a couple of steps need to be taken:
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* From /data/lbnedaq/config/, run <pre>git add <named_configuration></pre>. This will "stage" the directory to be committed. Running <pre>git status</pre> should show you something like the following:
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# On branch master
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# Changes to be committed:
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#   (use "git reset HEAD <file>..." to unstage)
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#	new file:   helloworld/Aggregator1.fcl
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#	new file:   helloworld/Aggregator2.fcl
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#	new file:   helloworld/component01_hw_cfg.fcl
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#	new file:   helloworld/component02_hw_cfg.fcl
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* Next, run <pre>git commit -m "<commit message>"</pre>. The commit message should be your three initials followed by a colon, the name of the configuration followed by a colon, and then a brief description of the new configuration, including its name, e.g.:
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git commit -m "JCF: helloworld: This configuration does not exist in the actual repo, it's simply used for documentation purposes"
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Be aware of rules governing strings delimited by double quotes in bash -- i.e., don't try double quoting a word or phrase inside of your commit description. 
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Now, make sure that the commit took place correctly by running
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git diff HEAD
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If your commit is at the head of the master branch, you should see no output; additionally, if you run
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git log
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you should be able to see your commit at the top.
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* Finally, make sure to push your change to the central repository; to do this, simply execute
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git push origin
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and now, if you run 
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git diff origin/master
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you should again see no output. Pushing to the central repository is important as this is essentially the backup area for configurations; if a user accidentally overwrites something in /data/lbnedaq/config, as long as commits have been pushed to the central repository there will still be a saved record of configurations before the overwrites took place. In fact, as of this writing (12/3/14), if either (A) edits have been made to the /data/lbnedaq/config directory since its most recent commit, or (B) that commit hasn't been pushed to the central repository, DAQInterface will refuse to execute the initialize transition. 
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h1. Adding new DAQ Components to RunControl
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The list of available DAQComponents (maps to BoardReader processes) is maintained by RunControl in the file:
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Each entry (name: host port) defines:
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* name - name of the component, maps to a <name>_hw_cfg.fcl in CfgMgr's configuration directory
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* host - hostname where BoardReader process will be started
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* port - XMLRPC port to be used, must be unique and used by other processes.
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For example:
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component01: lbnedaq2 5205
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component02: lbnedaq2 5206
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Has two components (component01 and component02) both running on lbnedaq2 on ports 5205 and 5206.
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h1.  Troubleshooting and FAQ
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h2.  Common RunControl issues
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h3. How can I get a list of all RunControl commands?
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lbnecmd help
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will list all available commands for RunControl with some details for help.  
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h3.  No real configurations are listed by RunControl
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If you run "lbnecmd listconfigs" and see something like:
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Available configs (Name : description)
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dummy : Dummy description
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Instead of your expected configurations, RunControl is not able to connect to CfgMgr.  Please make sure it's running (
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h2.  Common DAQInterface issues
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h3.  *Error handling*
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As of this writing (11/14/14) certain potential problems have been anticipated and are handled within DAQInterface. These problems include:
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# An artdaq process returns an error state after a transition request, or an exception is thrown by the XML-RPC library during the request
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# During periodic checks, one or more artdaq processes expected to exist are not found
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In either case, an error is reported via 0MQ to RunControl, and the "Recover" transition is automatically triggered. This transition is a fairly blunt instrument: it will kill any remaining artdaq processes and return DAQInterface to its original state of "stopped" (i.e., one in which it requires the "init" transition before anything else is done). 
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h3. *Your change to the DAQInterface configuration file or the code doesn't seem to do anything*
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Make sure you kill the existing daqinterface process and restart it
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h3. *On the initial transition ("lbnecmd init daq"), you see "error: [Errno 111] Connection refused"*
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If a "Recover" is triggered and you can see via "lbnecmd check" that DAQInterface is in the "stopped" state, try initializing again. If that doesn't work, you can try increasing the value of the "pause before initialization" variable in the DAQInterface configuration file. Empirically, it appears there needs to be a pause of at least 5 seconds before the FHiCL documents can be successfully sent via XML-RPC to the processes; increasing this value may make it less likely that the "Connection refused" error occurs.
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h3. *On the initial transition, you see a regularly updating printout saying "Waiting for all processes to be launched"*
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Seeing one or two of these is fine. If, after several seconds, something like the following
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Waiting for all processes to be launched; if zombie pmt.rb is running on localhost please kill it and this program (PID 31820)
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keeps getting output to screen, it means there's a problem initializing. In this case, the current (11/12/14) course of action is to externally kill DAQInterface using the PID listed; also, it's possible that there may already be a pmt.rb executable running on the desired host, blocking the launch of a new one due to a port conflict, in which case you should log onto the host (assuming you're not already on it), and run 
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ps aux | grep -v grep | grep pmt.rb 
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to see if this is the case. If it's not and you can't think of what might be wrong (is the configuration manager running? have you double-checked the DAQInterface configuration file?), then try increasing the debug level in the DAQInterface configuration file for your next run-through, as this will likely shed light on the nature of the problem.
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h3. *Regardless of how high the debug level is set to, you don't see any output to screen when you issue transitions to DAQInterface*
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Chances are that DAQInterface was started in another terminal, and consequently, it's in that terminal where output will appear. This issue can be circumvented by redirecting DAQInterface output into a file; how this can be accomplished is described elsewhere in this document.