root / bin / image2geometry / MGX_EdgeDetect_RNASeq.py @ 7
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| 1 | 7 | akiss | import os |
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| 2 | 7 | akiss | gaussianblurvalue=str(0) |
| 3 | 7 | akiss | edgedetectvalue=str(8000) |
| 4 | 7 | akiss | dilatevalue=str(5) |
| 5 | 7 | akiss | path="/home/biophysics/Desktop/Virginie/stade 11/02. normalised_30_scaled/27C/normalised-OtsuT30/27C_PMT3/"
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| 6 | 7 | akiss | os.chdir(path) |
| 7 | 7 | akiss | listfiles=os.listdir(path) |
| 8 | 7 | akiss | Process.Stack__System__Clear_Work_Stack('0')
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| 9 | 7 | akiss | Process.Stack__System__Clear_Main_Stack('0')
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| 10 | 7 | akiss | Process.Stack__System__Clear_Main_Stack('1')
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| 11 | 7 | akiss | Process.Stack__System__Clear_Work_Stack('1')
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| 12 | 7 | akiss | for i in listfiles: |
| 13 | 7 | akiss | Process.Stack__System__Set_Current_Stack('Main', '0') |
| 14 | 7 | akiss | Process.Stack__System__Open(path+i, 'Main', '0') |
| 15 | 7 | akiss | Process.Stack__System__Open(path+i, 'Main', '1') |
| 16 | 7 | akiss | Process.Stack__Filters__Gaussian_Blur_Stack(gaussianblurvalue, gaussianblurvalue, gaussianblurvalue) |
| 17 | 7 | akiss | Process.Stack__MultiStack__Copy_Work_to_Main_Stack() |
| 18 | 7 | akiss | Process.Stack__MultiStack__Swap_or_Copy_Stack_1_and_2('Main', '1 -> 2') |
| 19 | 7 | akiss | Process.Stack__Morphology__Edge_Detect(edgedetectvalue, '2.0', '0.3', '30000') |
| 20 | 7 | akiss | Process.Stack__MultiStack__Copy_Work_to_Main_Stack() |
| 21 | 7 | akiss | Process.Stack__MultiStack__Swap_or_Copy_Stack_1_and_2('Main', '1 <-> 2') |
| 22 | 7 | akiss | Process.Stack__System__Set_Current_Stack('Main', '0') |
| 23 | 7 | akiss | Process.Stack__Canvas__Reverse_Axes('No', 'No', 'Yes') |
| 24 | 7 | akiss | Process.Stack__Morphology__Edge_Detect(edgedetectvalue, '2.0', '0.3', '30000') |
| 25 | 7 | akiss | Process.Stack__Canvas__Reverse_Axes('No', 'No', 'Yes') |
| 26 | 7 | akiss | Process.Stack__MultiStack__Swap_or_Copy_Stack_1_and_2('Main', '1 <- 2') |
| 27 | 7 | akiss | Process.Stack__System__Set_Current_Stack('Both', '0') |
| 28 | 7 | akiss | Process.Stack__MultiStack__Combine_Stacks('Product')
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| 29 | 7 | akiss | Process.Stack__System__Set_Current_Stack('Work', '0') |
| 30 | 7 | akiss | Process.Stack__Morphology__Dilate(dilatevalue, dilatevalue, "0", 'No', 'No') |
| 31 | 7 | akiss | Process.Stack__System__Save(path+"MGX_"+i[:-4]+'_e'+edgedetectvalue+'_d'+dilatevalue+'.tif', 'Work', '0', '0') |
| 32 | 7 | akiss | Process.Stack__System__Clear_Work_Stack('0')
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| 33 | 7 | akiss | Process.Stack__System__Clear_Main_Stack('0')
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| 34 | 7 | akiss | Process.Stack__System__Clear_Main_Stack('1')
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| 35 | 7 | akiss | Process.Stack__System__Clear_Work_Stack('1')
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| 36 | 7 | akiss | Process.Stack__System__Clear_Main_Stack('2')
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| 37 | 7 | akiss | Process.Stack__System__Clear_Work_Stack('2') |