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annotate bin/_runme.sh @ 154:5d30cd8c6254

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fix typo
author Henry S. Thompson <ht@inf.ed.ac.uk>
date Wed, 11 Oct 2023 12:50:29 +0100
parents 235004978b22
children 39c3835716f3
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1 #!/bin/bash
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2 # This runs on the compute nodes...
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3 # Args: [-a i] wd [-d] [-t nthreads] [-b CMDS] [-i input] CMDS
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e3c440666f1a doc pointer
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4 # See ug4/azure/notes.txt for documentation
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5
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6 N=$SLURM_JOB_NUM_NODES
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7 n=$SLURM_NTASKS
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8 c=$SLURM_CPUS_PER_TASK
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9 nodename=$SLURMD_NODENAME
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10 local=$SLURM_LOCALID
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11 node=$SLURM_NODEID
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12 task=$SLURM_PROCID
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13
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14 if [ "$1" = "-a" ]
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15 then
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16 shift
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17 xarg="$1"
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18 shift
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19 else
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20 xarg=
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21 fi
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22
2
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23 cd "$1"
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24 shift
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25
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26 if [ "$1" = "-d" ]
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27 then
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28 shift
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29 debug=1
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30 fi
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31
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32 if [ "$1" = "-t" ]
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33 then
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34 shift
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35 threadsPerTask=$1
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36 shift
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37 else
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38 threadsPerTask=2
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39 fi
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40
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41 pjobs=$((c / $threadsPerTask))
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42
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43 echo $(date) task $n.$task on $nodename:$N.$node start $pjobs jobs 1>&2
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44
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45 PATH=$W/$USER/bin:$W/shared/bin:$PATH
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46 export task PATH n xarg
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47
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48 if [ "$1" = "-b" ]
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49 then
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50 shift
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51 eval "$1"
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52 shift
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53 fi
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54
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55 input="seq 1 $pjobs" # default to make sure something runs
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56
2
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57 if [ "$1" = "-i" ]
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58 then
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59 shift
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60 input="$1"
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61 shift
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62 if [ "$debug" ]
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63 then
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64 echo $(date) task $n.$task input "|$input|"
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65 fi
2
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66 fi
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68 export cmd="$1"
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69 shift
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71 doit () {
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72 arg="$1"
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73 echo $(date) start $task $PARALLEL_SEQ "|$cmd|$xarg|$arg|"
2
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74 eval "$cmd"
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75 echo $(date) end $task $PARALLEL_SEQ
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76 }
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77
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78 export -f doit
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79
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80 if [ "$debug" ]
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81 then
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82 echo $(date) task $n.$task cmd "|$cmd|" doit $(type doit)
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83 fi
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84
2
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85 eval "$input" | \
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86 if [ "$debug" ]
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87 then
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88 tee >(cat 1>&2)
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89 else
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90 cat
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91 fi | \
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92 if [ $pjobs -le 1 ]
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93 then
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94 xargs -I ^ -n 1 bash -c "doit ^"
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95 else
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96 parallel --line-buffer -j $pjobs doit '{}'
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97 fi
2
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98
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99 echo $(date) task $n.$task on $nodename:$N.$node end 1>&2
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100