cryolo_reference_example

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cryolo_reference_example [2019/04/03 15:56]
twagner [Reference setup]
cryolo_reference_example [2019/09/23 09:28]
twagner [Reference setup]
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   * Titan V   * Titan V
   * Intel Core i9 7920X @ 2.90 Ghz   * Intel Core i9 7920X @ 2.90 Ghz
 +  * SSD Harddrive
 +  * crYOLO 1.5.0
  
  
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 The ''​toxin_reference''​ directory contains multiple folders / files: The ''​toxin_reference''​ directory contains multiple folders / files:
-  * train_image:​ Folder with the training images +  * train_image:​ Folder with 12 training images 
-  * train_annot:​ Folder with box files for the training images+  * train_annot:​ Folder with 12 box files for the training images
   * config_phosnet.json:​ Configuration file for crYOLO   * config_phosnet.json:​ Configuration file for crYOLO
   * reference_model.h5:​ Model that I've trained on my machine using the commands below.   * reference_model.h5:​ Model that I've trained on my machine using the commands below.
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 ===== Training ===== ===== Training =====
  
-First, you have to warm up the network with "-g 0" I'm selection GPU 0. It takes 2 minutes 30 seconds on our reference setup: + 
-<​code>​ +The training is done with this command:
-cryolo_train.py -c config_phosnet.json -w 5 -g 0 +
-</​code>​ +
-The actual ​training is done with this command:+
 <​code>​ <​code>​
-cryolo_train.py -c config_phosnet.json -w -e 10 -g 0+cryolo_train.py -c config_phosnet.json -w -e -g 0
 </​code>​ </​code>​
-It needed 6 minutes ​45 seconds to converge (18 epochs). The best validation loss was 0.03316. These numbers might be a little bit different on your case.+It needes 5 minutes ​50 seconds to converge (5 warmup + 10 "​normal" ​epochs). The best validation loss was 0.03042. These numbers might be a little bit different on your case.
  
 ===== Prediction ===== ===== Prediction =====
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 </​code>​ </​code>​
  
-It picked 1617 particles on 12 micrographs in seconds. Including filtering the image and loading the model the command needed ​46 seconds.+It picked 1617 particles on 12 micrographs in seconds. Including filtering the image and loading the model the command needed ​38 seconds.
  
 ===== Visualize results ===== ===== Visualize results =====
  • cryolo_reference_example.txt
  • Last modified: 2020/05/08 11:43
  • by twagner