pipeline:window:cryolo:picking_general_refine
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pipeline:window:cryolo:picking_general_refine [2019/09/18 12:53] twagner [Picking particles - Using the general model refined for your data] |
pipeline:window:cryolo:picking_general_refine [2019/12/02 16:28] twagner [Picking particles - Using the general model refined for your data] |
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| - The training will need less GPU memory ((We are testing crYOLO with its default configuration on graphic cards with >= 8 GB memory. Using the fine tune mode, it should also work with GPUs with 4 GB memory)) and therefore is usable with NVIDIA cards with less memory. | - The training will need less GPU memory ((We are testing crYOLO with its default configuration on graphic cards with >= 8 GB memory. Using the fine tune mode, it should also work with GPUs with 4 GB memory)) and therefore is usable with NVIDIA cards with less memory. | ||
| - | However, the fine tune mode is still somewhat experimental and we will update this section as crYOLO develops over time. | + | <note important> |
| + | The fine tune mode is still somewhat experimental and we will update this section as crYOLO develops over time. | ||
| + | </ | ||
| If you followed the installation instructions, | If you followed the installation instructions, | ||
| Line 39: | Line 40: | ||
| </ | </ | ||
| - | <hidden **Create the configuration file using the command line:**> | + | <html> |
| + | <div style=" | ||
| + | < | ||
| + | </ | ||
| + | </ | ||
| + | <hidden> | ||
| I assume your box files for training are in the folder '' | I assume your box files for training are in the folder '' | ||
| < | < | ||
| - | cryoloo.py config config_cryolo.json 160 --train_image_folder train_image --train_annot_folder train_annot --pretrained_weights gmodel_phosnet_20190516.h5 | + | cryolo_gui.py config config_cryolo.json 160 --train_image_folder train_image --train_annot_folder train_annot --pretrained_weights gmodel_phosnet_20190516.h5 |
| </ | </ | ||
| To get a full description of all available options type: | To get a full description of all available options type: | ||
| < | < | ||
| - | cryoloo.py config -h | + | cryolo_gui.py config -h |
| </ | </ | ||
| Line 55: | Line 61: | ||
| < | < | ||
| - | cryoloo.py config config_cryolo.json 160 --train_image_folder train_image --train_annot_folder train_annot --pretrained_weights gmodel_phosnet_20190516.h5 --valid_image_folder valid_img --valid_annot_folder valid_annot | + | cryolo_gui.py config config_cryolo.json 160 --train_image_folder train_image --train_annot_folder train_annot --pretrained_weights gmodel_phosnet_20190516.h5 --valid_image_folder valid_img --valid_annot_folder valid_annot |
| </ | </ | ||
| </ | </ | ||
| + | < | ||
| + | <div style=" | ||
| + | <b> </ | ||
| + | </ | ||
| + | </ | ||
| ==== 4. Training ==== | ==== 4. Training ==== | ||
| Line 95: | Line 105: | ||
| </ | </ | ||
| - | + | < | |
| - | <hidden **Alternative: | + | <div style=" |
| + | <b>Alternative: | ||
| + | </ | ||
| + | </ | ||
| + | <hidden> | ||
| In comparison to the training from scratch, you can skip the warm up training ( -w 0 ). Moreover you have to add the // | In comparison to the training from scratch, you can skip the warm up training ( -w 0 ). Moreover you have to add the // | ||
| Line 103: | Line 117: | ||
| </ | </ | ||
| </ | </ | ||
| + | < | ||
| + | <div style=" | ||
| + | <b> </ | ||
| + | </ | ||
| + | </ | ||
| ==== 5. Picking ==== | ==== 5. Picking ==== | ||
| {{page> | {{page> | ||
pipeline/window/cryolo/picking_general_refine.txt · Last modified: 2020/06/05 09:05 by twagner
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