downloads:cryolo_1
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downloads:cryolo_1 [2019/07/22 13:05] twagner [Installation] |
downloads:cryolo_1 [2019/07/29 14:39] twagner [crYOLO] |
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| ====crYOLO==== | ====crYOLO==== | ||
| - | Version: 1.4.0 | + | Version: 1.4.1 |
| - | Uploaded: | + | Uploaded: |
| - | [[ftp://ftp.gwdg.de/pub/misc/sphire/ | + | [[https://pypi.org/project/cryolo/#files|DOWNLOAD]] |
| Please see [[downloads: | Please see [[downloads: | ||
| Line 46: | Line 46: | ||
| Version: 1.2.3 | Version: 1.2.3 | ||
| - | Uploaded: | + | Uploaded: |
| - | [[ftp://ftp.gwdg.de/pub/misc/sphire/ | + | [[https://pypi.org/project/cryoloBM/#files|DOWNLOAD]] |
| [{{ : | [{{ : | ||
| Line 98: | Line 98: | ||
| * Issue 17: On the fly filtering (%%--%%otf) is slower than using it not, as the filtering is not parallelized in this case. | * Issue 17: On the fly filtering (%%--%%otf) is slower than using it not, as the filtering is not parallelized in this case. | ||
| * Issue 22: Since crYOLO 1.4.0 it sometimes take long until it starts picking. The reason seems to be the tensorflow update. | * Issue 22: Since crYOLO 1.4.0 it sometimes take long until it starts picking. The reason seems to be the tensorflow update. | ||
| + | * Issue 23: Fine-tune mode does not start (cannot find layer model_3). Will be fixed in 1.4.1. | ||
| <hidden Closed issues> | <hidden Closed issues> | ||
| * < | * < | ||
| Line 146: | Line 147: | ||
| After that, create a new virtual environment: | After that, create a new virtual environment: | ||
| < | < | ||
| - | conda create -n cryolo -c anaconda python=3.6 pyqt=5 cudnn=7.1.2 cython | + | conda create -n cryolo -c anaconda python=3.6 pyqt=5 cudnn=7.1.2 |
| </ | </ | ||
| Line 152: | Line 153: | ||
| < | < | ||
| source activate cryolo | source activate cryolo | ||
| - | </ | ||
| - | |||
| - | Install fast numpy from conda: | ||
| - | < | ||
| - | conda install numpy==1.15.4 | ||
| </ | </ | ||
| In case you run **crYOLO on a GPU** run: | In case you run **crYOLO on a GPU** run: | ||
| < | < | ||
| - | pip install ' | + | pip install ' |
| </ | </ | ||
| But if you want to run **crYOLO on a CPU** run: | But if you want to run **crYOLO on a CPU** run: | ||
| < | < | ||
| - | pip install ' | + | pip install ' |
| </ | </ | ||
| - | Finally | + | < |
| - | < | + | During the installtion of crYOLO |
| - | pip install cryoloBM-X.Y.Z.tar.gz | + | '' |
| - | </code> | + | However, you can ignore it. It is actually also working with numpy==1.14.5 |
| + | </note> | ||
| **That' | **That' | ||
| Line 195: | Line 192: | ||
| ====crYOLO==== | ====crYOLO==== | ||
| + | |||
| + | **crYOLO 1.4.1:** | ||
| + | * Downgrade the dependencies to tensorflow 1.10.1 and numpy 1.14.5 as some users reported long initialization times. (Thanks to Shaun Rawson) | ||
| + | * The initialization weights are not longer shipped with the package and downloaded on-the-fly (because they are big and pypi does not allow such big packages) | ||
| + | * crYOLO is installed through pypi | ||
| + | * crYOLO box manager is installed through pypi and automatically shipped with the crYOLO package | ||
| + | * Fix fine-tune mode (Thanks to Antoine Koehl) | ||
| + | * Fixed normalization function for YOLO backend (Thanks to Wolfgang Lugmayr) | ||
| + | |||
| + | <hidden **Old crYOLO change logs**> | ||
| **crYOLO 1.4.0:** | **crYOLO 1.4.0:** | ||
| Line 202: | Line 209: | ||
| * Update numpy from 1.14.5 to 1.15.4 to make crYOLO compatible with JANNI | * Update numpy from 1.14.5 to 1.15.4 to make crYOLO compatible with JANNI | ||
| - | <hidden **Old crYOLO change logs**> | ||
| **crYOLO 1.3.6:** | **crYOLO 1.3.6:** | ||
| * Changed filament search radius factor from 0.8 to 1.41 (this fixed issue 21) | * Changed filament search radius factor from 0.8 to 1.41 (this fixed issue 21) | ||
| Line 341: | Line 347: | ||
| </ | </ | ||
| ====crYOLO Boxmanager==== | ====crYOLO Boxmanager==== | ||
| - | **crYOLO Boxmanager Version 1.2.3:** | + | **crYOLO Boxmanager Version 1.2.6:** |
| * Make it compatible with current new environment | * Make it compatible with current new environment | ||
| <hidden **Old crYOLO Boxmanager change logs**> | <hidden **Old crYOLO Boxmanager change logs**> | ||
| + | |||
| + | **crYOLO Boxmanager Version 1.2.3:** | ||
| + | * Make it compatible with current new environment | ||
| + | |||
| **crYOLO Boxmanager Version 1.2.2:** | **crYOLO Boxmanager Version 1.2.2:** | ||
| * Makes sure that the correct version of MatplotLib is used. | * Makes sure that the correct version of MatplotLib is used. | ||
downloads/cryolo_1.txt · Last modified: 2021/02/19 09:43 by twagner
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