| リビジョン | 20e4778958ed3cd76e0c028af0967c64ac6bb797 (tree) |
|---|---|
| 日時 | 2015-03-02 10:28:15 |
| 作者 | kinoshita-eos <kinoshita@yasu...> |
| コミッター | kinoshita-eos |
Modify: PIONE tutorial Advanced5
modified: SampleCode/PIONE/Advanced5/Main.pione
SampleCode/PIONE/Advanced5/Main.pione (diff)| @@ -1,17 +1,73 @@ | ||
| 1 | 1 | param $task := 2 |
| 2 | 2 | param $divide := 2 |
| 3 | -param $refine := 5 | |
| 3 | +param $refine := 5 | |
| 4 | + | |
| 5 | +# Cluster Name | |
| 6 | +param $CLUSTER := "all" | |
| 7 | + | |
| 8 | +# Pad Parameter | |
| 9 | +# Width(Nx) before shrinking | |
| 10 | +param $PADWIDTH := 32 | |
| 11 | +# Height(Ny) before shrinking | |
| 12 | +param $PADHEIGHT := 32 | |
| 13 | +# Shrink for Speed Up in clustering | |
| 14 | +param $SHRINK := 1 | |
| 15 | +# Pad Mode | |
| 16 | +param $PADMODE := 13 | |
| 17 | +# LOWPASS | |
| 18 | +param $LowPassMode := 4 | |
| 19 | +param $LowPassResolution := 0.1 | |
| 20 | + | |
| 21 | +# Clustering | |
| 22 | +param $ClusterCorrelationMode := 19 | |
| 23 | +# | |
| 24 | +param $ClusterRotationRangeMin := 0 | |
| 25 | +param $ClusterRotationRangeMax := 360 | |
| 26 | +param $ClusterRotationRangePartitionNumber := 72 | |
| 27 | +param $ClusterRotationIterationNumber := 2 | |
| 28 | +param $ClusterRotationCorrelationMode := 0 | |
| 29 | +# | |
| 30 | +param $ClusterMode := 2 | |
| 31 | + | |
| 32 | + | |
| 33 | +# ClusterShow | |
| 34 | +param $TreeRootPositionX := 0 | |
| 35 | +param $TreeRootPositionY := 400 | |
| 36 | +param $TreeScaleX := 10 | |
| 37 | +param $TreeScaleY := 100 | |
| 38 | +param $TreeOffset := "1e1" | |
| 39 | + | |
| 40 | +# Sequence with Keys(Makefile.config for 2D Clustering) | |
| 41 | +$Config := ("CLUSTER":$CLUSTER) | | |
| 42 | + ("PADWIDTH":$PADWIDTH) | | |
| 43 | + ("PADHEIGHT":$PADHEIGHT) | | |
| 44 | + ("SHRINK":$SHRINK) | | |
| 45 | + ("PADMODE":$PADMODE) | | |
| 46 | + ("LowPassMode":$LowPassMode) | | |
| 47 | + ("LowPassResolution":$LowPassResolution) | | |
| 48 | + ("ClusterCorrelationMode":$ClusterCorrelationMode) | | |
| 49 | + ("ClusterRotationRangeMin":$ClusterRotationRangeMin) | | |
| 50 | + ("ClusterRotationRangeMax":$ClusterRotationRangeMax) | | |
| 51 | + ("ClusterRotationRangePartitionNumber":$ClusterRotationRangePartitionNumber) | | |
| 52 | + ("ClusterRotationIterationNumber":$ClusterRotationIterationNumber) | | |
| 53 | + ("ClusterRotationCorrelationMode":$ClusterRotationCorrelationMode) | | |
| 54 | + ("ClusterMode":$ClusterMode) | | |
| 55 | + ("TreeRootPositionX":$TreeRootPositionX) | | |
| 56 | + ("TreeRootPositionY":$TreeRootPositionY) | | |
| 57 | + ("TreeScaleX":$TreeScaleX) | | |
| 58 | + ("TreeScaleY":$TreeScaleY) | | |
| 59 | + ("TreeOffset":$TreeOffset) | |
| 4 | 60 | |
| 5 | 61 | Rule Main |
| 6 | 62 | input '*.roi'.all |
| 7 | 63 | input 'Makefile' |
| 8 | - input 'Makefile.config' | |
| 9 | 64 | output '*.avg'.all |
| 10 | 65 | output '*.tiff'.all |
| 11 | 66 | output 'all.logps' |
| 12 | 67 | output 'all.treeinfo' |
| 13 | 68 | output 'all.avgsortlst' |
| 14 | 69 | Flow |
| 70 | + rule SetParam | |
| 15 | 71 | rule Preprocess {filelist:$I[1].all, num:1.upto($task), length:$I[1].length()} |
| 16 | 72 | rule Process |
| 17 | 73 | rule Refinement {num:1.upto($divide)} |
| @@ -19,6 +75,17 @@ Flow | ||
| 19 | 75 | rule MontageAverage |
| 20 | 76 | End |
| 21 | 77 | |
| 78 | +Rule SetParam | |
| 79 | + output 'Makefile.config' | |
| 80 | +Action | |
| 81 | + key=({$Config.keys}) | |
| 82 | + value=({$Config.values}) | |
| 83 | + for (( i=0; i<{$Config.length}; i++ )) | |
| 84 | + do | |
| 85 | + echo "${key[${i}]}=${value[${i}]}" >> {$O[1]} | |
| 86 | + done | |
| 87 | +End | |
| 88 | + | |
| 22 | 89 | Rule Preprocess |
| 23 | 90 | input $filelist.nth(((($num-1)*((($length-1)/$task)+1))+1).upto((($num*((($length-1)/$task)+1))|$length).min())) |
| 24 | 91 | input 'Makefile' |
| @@ -219,5 +286,3 @@ Action | ||
| 219 | 286 | mrcImageMontageCreate -i {$I[1]} -o {$O[1]} |
| 220 | 287 | mrc2tiff -i {$O[1]} -o {$O[2]} |
| 221 | 288 | End |
| 222 | - | |
| 223 | -param $roi := false |
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