downloads:cryolo_1
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downloads:cryolo_1 [2019/03/14 14:48] twagner [Paper] |
downloads:cryolo_1 [2019/03/18 08:06] twagner [Known issues] |
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| ====crYOLO==== | ====crYOLO==== | ||
| - | Version: 1.3.0 | + | Version: 1.3.1 |
| - | Uploaded: | + | Uploaded: |
| - | [[ftp:// | + | [[ftp:// |
| ====crYOLO boxmanager==== | ====crYOLO boxmanager==== | ||
| Line 88: | Line 88: | ||
| * < | * < | ||
| * < | * < | ||
| - | * Issue 13: After picking it can happen that some of the boxes are not fully immersed in the image. Will be fixed in 1.2.4. | + | * <del>Issue 13: After picking it can happen that some of the boxes are not fully immersed in the image. Will be fixed in 1.2.4.</ |
| - | * Issue 14: Parallelization in filament mode is broken. Will be fixed in 1.2.4. | + | * <del>Issue 14: Parallelization in filament mode is broken. Will be fixed in 1.2.4.</ |
| + | * < | ||
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| Picking with crYOLO is also quite fast on the CPU. On my local machine (Intel i9) it takes roughly 1 second per micrograph and on our low-performance notebooks (Intel i3) 4 seconds. | Picking with crYOLO is also quite fast on the CPU. On my local machine (Intel i9) it takes roughly 1 second per micrograph and on our low-performance notebooks (Intel i3) 4 seconds. | ||
| - | Training crYOLO is much more computational expensive. Training a model from scratch on my local machine take 34 minutes per epoch on the CPU. Given that you often need 25 epochs until convergence it is a task to do overnight (~ 12 hours). However, you might want to try refining the general model, which takes 12 minutes per epoch (~ 5 hours). | + | Training crYOLO is much more computational expensive. Training a model with 14 micrographs |
| **Here is how you prepare your crYOLO setup for using it on the CPU:** | **Here is how you prepare your crYOLO setup for using it on the CPU:** | ||
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| * Add tifffile as dependency, as imageio throws a lot of warning for some tif files. | * Add tifffile as dependency, as imageio throws a lot of warning for some tif files. | ||
| * Add conversion for uint16 images, as pillow cannot work with them. | * Add conversion for uint16 images, as pillow cannot work with them. | ||
| - | * Add option %%--%%skip_augmentation to deactivate augmentation during training (requested by some users). (https:// | + | * Add option %%--%%skip_augmentation to deactivate augmentation during training (Thanks to Tijmen de Wolf). (https:// |
| - | * Add option %%--%%num_cpu to specify the number of CPUs used during training and during prediction. (https:// | + | * Add option %%--%%num_cpu to specify the number of CPUs used during training and during prediction. |
| - | * Add option to limit the amount of GPU memory reserved by crYOLO with %%--%%gpu_fraction (https:// | + | * Add option to limit the amount of GPU memory reserved by crYOLO with %%--%%gpu_fraction |
| * Save anchor size in model every time you write a new model during training (not only at the end) | * Save anchor size in model every time you write a new model during training (not only at the end) | ||
| * In case of using %%--%%min_distance, | * In case of using %%--%%min_distance, | ||
downloads/cryolo_1.txt · Last modified: 2021/02/19 09:43 by twagner
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