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--- pipeline:window:cryolo:picking_general [2019/09/18 08:38]
twagner [2. Configuration]
+++ pipeline:window:cryolo:picking_general [2019/09/19 15:45]
twagner [2. Configuration]
@@ Line 30: / Line 30: @@
+<html>
+<div style="background-color: LightCyan ; padding: 10px; border: 1px solid Black;">
+<b>Alternative:Create the configuration file using the command line</b>
+</div>
+</html>
-<hidden **Alternative:** Create the configuration file using the command line>
+<hidden>
 In the following I assume that you target box size is 220. Please adapt if necessary.
 For the general **[[:cryolo_nets#network_3_phosaurusnet|Phosaurus network]]** trained for **low-pass filtered cryo images** run:
 <code>
-cryoloo.py config config_cryolo_.json 220 --filter LOWPASS --low_pass_cutoff 0.1
+cryolo_gui.py config config_cryolo_.json 220 --filter LOWPASS --low_pass_cutoff 0.1
 </code>
 For the general model trained with **neural-network denoised cryo images** (with [[:janni_tutorial#download|JANNI's general model]]) run:
 <code>
-cryoloo.py config config_cryolo_.json 220 --filter JANNI --janni_model /path/to/janni_general_model.h5
+cryolo_gui.py config config_cryolo_.json 220 --filter JANNI --janni_model /path/to/janni_general_model.h5
 </code>
 For the general model for **negative stain data** please run:
 <code>
-cryoloo.py config config_cryolo_.json 220 --filter NONE
+cryolo_gui.py config config_cryolo_.json 220 --filter NONE
 </code>
 </hidden>
+<html>
+<div style="background-color: LightCyan ; padding: 10px; border: 1px solid Black;">
+<b> </b>
+</div>
+</html>
 ==== 3. Picking ====
 {{page>pipeline:window:cryolo:picking}}

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