Basic Grid Projects – Condor Part II

1. Basic Grid Projects – Condor Part II Sathish Vadhiyar Sources/Credits: Condor Project web pages

2. Checkpointing • Checkpointing is used to vacate job from one idle workstation to another • A Condor checkpoint library linked with the program’s code • Checkpoint library installs signal handler for handling SIGSTP signal. • Checkpoints either stored on local disk of submitting machine or on checkpoint servers • Stores unix process’ states including text, stack, data segments, files, pointers etc. • Condor also provides periodic checkpointing

3. Checkpointing Overview • When startd daemon detects policy violations, sends a signal to the process • The signal handler in the process is invoked, process state is checkpointed • Checkpoints sent to shadow process which stores it • When a new machine is chosen, the executable and checkpoint is sent to remote machine • When the job is started on the remote machine, it detects that it is a restart; reads the checkpoint; some manipulations done such that process state at the time of checkpoint is restored. • It appears to the user code that the process has just returned from the signal handler

4. Checkpointing Details (Refer to postscript file) • Preserving and restoring text area (same executable), data area (using sbrk(0)) and stack • Preserving stack state consists of storing and restoring 2 parts – stack context and stack space • Stack context stored by setjmp and restored by longjmp • Stack space replacement is tricky – performed by using a secure data region for stack • Open files • state saved by augmenting open calls • lseek performed during checkpointing to obtain offset information • Signals – sigaction, sigispending

5. Checkpoint summary • Checkpoint library installs signal handler called checkpoint() • Then calls main() • At the time of checkpoint, SIGSTP signal sent, checkpoint() invoked • checkpoint() • Write open files, signals, stack context to data area • Stores data and stack segments

6. Restart Summary • restore() • Overwrites data segment with that in checkpoint • Restores file and signal information • Switches to a temporary location in data segment, replaces its stack space • Performs longjmp() pointing to checkpoint() signal handler • Checkpoint routine returns and restores CPU registers

7. Limitations • Cannot checkpoint fork()/exec() or multi-process • Can checkpoint only on homogeneous systems • Cannot checkpoint communicating multi-processes

8. Condor Universes • Universe specified during job submission • Types: • Standard • System calls transferred to submit machines • Provides for checkpointing and migration • Relink program with condor_compile • Vanilla • For programs that cannot be relinked • Does not provide for checkpointing and migration – WHY? • For accessing to files, use Condor File Transfer mechanism • Scheduler • For job that should act as metascheduler • Mpi, pvm, java,globus

9. Condor Commands • condor_compile • Relinks source or object files with condor libraries • Condor library provides checkpointing, migration, remote system calls • condor_submit - Takes as input submit description file and produces a job classAd for further processing by central manager • condor_status – to view about various machines in the Condor pool • condor_q – for viewing job status

10. DAGMan • Meta scheduler for Condor • Manages dependencies between jobs at a higher level • Sits on top of Condor • Input of one program depends on the other • condor_ submit_dagDAGInputFileName • DAG within a DAG is supported

11. Example input file for DAGMan # Filename: diamond.dag # Job A A.condor Job B B.condor Job C C.condor Job D D.condor PARENT A CHILD B C PARENT B C CHILD D Retry C 3

12. Condor File System and File Transfer Mechanism • Applicable for only vanilla jobs • By default a shared file system is assumed between submitting machine and executing machine • Machine classAd attributes – FileSystemDomain and UidDomain • To bypass default: say something like: Requirements = UidDomain == ``cs.wisc.edu'' && \ FileSystemDomain == ``cs.wisc.edu''

13. Condor File System and File Transfer Mechanism • If machines do not share file systems or the file systems not explicitly specified, enable Condor File Transfer Mechanism: should_transfer_files = YES when_to_transfer_output = ON_EXIT • Any files that are generated or modified in the remote working directory are transferred back to the submit machine

14. References / Sources / Credits • Condor manual • Condor web pages • Michael Litzkow, Todd Tannenbaum, Jim Basney, and Miron Livny, "Checkpoint and Migration of UNIX Processes in the Condor Distributed Processing System", University of Wisconsin-Madison Computer Sciences Technical Report #1346, April 1997. • James Frey, Todd Tannenbaum, Ian Foster, Miron Livny, and Steven Tuecke, "Condor-G: A Computation Management Agent for Multi-Institutional Grids", Proceedings of the Tenth IEEE Symposium on High Performance Distributed Computing (HPDC10) San Francisco, California, August 7-9, 2001. • Rajesh Raman, Miron Livny, and Marvin Solomon, "Matchmaking: Distributed Resource Management for High Throughput Computing", Proceedings of the Seventh IEEE International Symposium on High Performance Distributed Computing, July 28-31, 1998, Chicago, IL. • Michael Litzkow, Miron Livny, and Matt Mutka, "Condor - A Hunter of Idle Workstations", Proceedings of the 8th International Conference of Distributed Computing Systems, pages 104-111, June, 1988.

15. Submit description files • Directs queuing of jobs • Contains • Executable location • Command line arguments to job • stdin, stderr, stdout • Initial working directory • should_transfer_files = <YES | NO | IF_NEEDED >. NO disables condor file transfer mechanism • when_to_transfer_output = < ON_EXIT | ON_EXIT_OR_EVICT >

16. Submit description file • requirements = <ClassAd Boolean Expression> • By default, Arch, OpSys, Disk, virtualMemory, FileSystemDomain for vanilla are set • requirements = <ClassAd Boolean Expression> • +<attribute> = <value>

17. Machine ClassAd Attributes • Activity • Arch • CondorLoadAvg, ConsoleIdle, Disk, Cpus, KeyboardIdle, LoadAvg, KFlops, Mips, Memory, OpSys, • FileSystemDomain, Requirements, StartdIpAddr • ClientMachine, CurrentRank, RemoteOwner, LastPeriodicCheckpoint

18. Job ClassAd Attributes • CompletionDate, RemoteIwd

19. Heterogeneous job submission • Works well with the vanilla universe since checkpoint is not taken. • For standard universe, # Added by Condor CkptRequirements = ((CkptArch == Arch) || (CkptArch =?= UNDEFINED)) && \ ((CkptOpSys == OpSys) || (CkptOpSys =?= UNDEFINED)) Requirements = (<user specified policy>) && $(CkptRequirements)

20. Submission steps • Job preparation • Choosing a universe • Submit description file • condor_submit

21. Job Migration • SIGSTP and signal handler in standard universe • SIGTERM in vanilla

22. Condor Security • Schedd starts shadow with the effective UID of job owner • Different methods like Kherberos and GSI for authentication, different encryption mechanisms, authorization are supported between client and daemons • Sockets and ports – condor collector and negotiator start on well known ports. Other daemons start on ephermeral ports.

23. Checkpointing • CkptArch, CkptOpSys, LastCkptServer, LastCkptTime, NumCkpts classAds generated automatically for job