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pipeline:window:cryolo

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pipeline:window:cryolo [2018/12/24 11:21]
twagner [Configuration] 		pipeline:window:cryolo [2019/01/02 19:48]
twagner [Configuration]
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 For this tutorial, we assume that you have either a single GPU or want to use GPU 0. Therefore we add '-g 0' after each command below. However, if you have multiple (e.g GPU 0 and GPU 1) you could also use both by adding '-g 0 1' after each command. For this tutorial, we assume that you have either a single GPU or want to use GPU 0. Therefore we add '-g 0' after each command below. However, if you have multiple (e.g GPU 0 and GPU 1) you could also use both by adding '-g 0 1' after each command.
  
-Navigate to the folder with config.json file, train_image folder, etc.+Navigate to the folder with ''config.json'' file, ''train_image'' folder, etc.
  
 **1. Warm up your network** **1. Warm up your network**
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 to the training command. to the training command.
 ==== Picking ==== ==== Picking ====
-You can now use the model weights saved in ''model.h5'' to pick all your images in the directory full_data. To do this, run: +You can now use the model weights saved in ''model.h5'' to pick all your images in the directory ''full_data''. To do this, run: 
 <code> <code>
 cryolo_predict.py -c config.json -w model.h5 -i full_data/ -g 0 -o boxfiles/ cryolo_predict.py -c config.json -w model.h5 -i full_data/ -g 0 -o boxfiles/
Line 166: Line 166:
 cryolo_boxmanager.py cryolo_boxmanager.py
 </code> </code>
-Now press //File -> Open image// folder and the select the ''full_data'' directory. The first image should pop up. Then you import the box files with //File -> Import box files// and select the ''boxfiles'' directory.+Now press //File -> Open image// folder and the select the ''full_data'' directory. The first image should pop up. Then you import the box files with //File -> Import box files// and select in the ''boxfiles'' folder the ''EMAN'' directory.
  
  
Line 191: Line 191:
         "num_patches":          1,         "num_patches":          1,
         "filter":               [0.1,"tmp_filtered"]         "filter":               [0.1,"tmp_filtered"]
 +      }
     }     }
 </code> </code>
pipeline/window/cryolo.txt ยท Last modified: 2021/02/19 10:00 by twagner

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