User Tools

Site Tools

cryolo_archive

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revision Previous revision
Next revision 		Previous revision
Next revision Both sides next revision
cryolo_archive [2018/11/27 11:25]
twagner [General model YOLO patched mode] 		cryolo_archive [2019/09/20 08:28]
twagner
Line 2: Line 2:
  
 ==== crYOLO ==== ==== crYOLO ====
 +<hidden>
 +No longer maintained. See pip archive
 +https://pypi.org/project/cryolo/#history
 +=== Version: 1.3.6 ===
 +bla
 +</hidden>
 +
 +<hidden>
 +=== Version: 1.3.6 ===
 +
 +Uploaded:  17. May 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_6/cryolo-1.3.6.tar.gz|DOWNLOAD GPU VERSION]] [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_6/cryolo-1.3.6.dev0.tar.gz|DOWNLOAD CPU VERSION]]
 +
 +=== Version: 1.3.5 ===
 +
 +Uploaded:  03. May 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_5/cryolo-1.3.5.tar.gz|DOWNLOAD GPU VERSION]] [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_5/cryolo-1.3.5.dev0.tar.gz|DOWNLOAD CPU VERSION]]
 +
 +=== Version: 1.3.4 ===
 +
 +Uploaded:  23. April 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_4/cryolo-1.3.4.tar.gz|DOWNLOAD GPU VERSION]] [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_4/cryolo-1.3.4.dev0.tar.gz|DOWNLOAD CPU VERSION]]
 +
 +===Version: 1.3.3===
 +
 +Uploaded:  08. April 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_3/cryolo-1.3.3.tar.gz|DOWNLOAD GPU VERSION]][[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_3/cryolo-1.3.3.dev0.tar.gz|DOWNLOAD CPU VERSION]]
 +
 +=== Version: 1.3.2 ===
 +
 +Uploaded:  05. April 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_2/cryolo-1.3.2.tar.gz|DOWNLOAD GPU VERSION]] [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_2/cryolo-1.3.2.dev0.tar.gz|DOWNLOAD CPU VERSION]]
 +
 +=== Version: 1.3.1===
 +
 +Uploaded:  18. March 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_1/cryolo-1.3.1.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.3.0 ===
 +
 +Uploaded:  14. March 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_3_0/cryolo-1.3.0.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.3 ===
 +
 +Uploaded:  12. February 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_2_3/cryolo-1.2.3.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.2 ===
 +
 +Uploaded:  21. December 2018 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_2_2/cryolo-1.2.2.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.1 ===
 +
 +Uploaded:  05. December 2018 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_2_1/cryolo-1.2.1.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.0 ===
 +
 +Uploaded:  27. November 2018 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_2_0/cryolo-1.2.0.tar.gz|DOWNLOAD]]
  
 === Version: 1.1.4 === === Version: 1.1.4 ===
Line 42: Line 93:
 Download the **crYOLO version 1.0.0** here : [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_0_0/cryolo-1.0.0.tar.gz|DOWNLOAD]] Download the **crYOLO version 1.0.0** here : [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_0_0/cryolo-1.0.0.tar.gz|DOWNLOAD]]
  
- +</hidden>
-----+
  
 ==== crYOLO boxmanager ==== ==== crYOLO boxmanager ====
 +
 +No longer maintained. See pip archive
 +https://pypi.org/project/cryoloBM/#history
 +
 +=== Version: 1.2.2 ===
 +
 +Uploaded: 03. May 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_2_2/cryoloBM-1.2.2.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.1 ===
 +
 +Uploaded: 05. April 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_2_1/cryoloBM-1.2.1.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.2.0 ===
 +
 +Uploaded: 14. March 2019 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_2/cryoloBM-1.2.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.1.1 ===
 +
 +Uploaded: 21. December 2018 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_1_1/cryoloBM-1.1.1.tar.gz|DOWNLOAD]]
 +
 +=== Version: 1.1.0 ===
 +
 +Uploaded: 27. November 2018 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_BM_V1_1_0/cryoloBM-1.1.0.tar.gz|DOWNLOAD]]
 +
  
 === Version: 1.0.4 === === Version: 1.0.4 ===
Line 71: Line 145:
 ---- ----
  
 +==== General PhosaursNet model ===
 +
 +=== Version 20190516 ===
 +
 +cryo (low-pass): [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_phosnet_20190516.h5
 +|DOWNLOAD]] 
 +
 +Config is the same as in version 20191221. 
 +
 +cryo (janni): [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_phosnet_201907_nn_denoise.h5
 +|DOWNLOAD]] 
 +<code .json>
 +    {
 +    "model" : {
 +        "architecture":         "PhosaurusNet",
 +        "input_size":           1024,
 +        "anchors":              [205,205],
 +        "max_box_per_image":    700,
 +        "num_patches":          1,
 +        "filter":               ["gmodel_janni_20190703.h5",24,3,"tmp_filtered_nn"]
 +      }
 +    }
 +</code>
 +
 +=== Version 20190314 ===
 +
 +[[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_phosnet_20190314.h5
 +|DOWNLOAD]] (Uploaded: 14. March 2019) Number of datasets: 32 real, 10 simulated, 10 particle free datasets on various grids with contaminations.
 +
 +Config is the same as in version 20191221.
 +
 +=== Version 20190218 ===
 +
 +[[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_phosnet_20190218_loss0042.h5 |DOWNLOAD]] (Uploaded: 18. February 2019) Number of datasets: 30 real, 10 simulated, 10 particle free datasets on various grids with contaminations
 +
 +Config is the same as in version 20191221.
 +
 +=== Version 20191221 ===
 +
 +[[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_phosnet_20181221_loss0037.h5
 +|DOWNLOAD]] (Uploaded: 21. December 2018)  Number of datasets: 27 (real), 10 simulated, 10 particle free datasets on various grids
 +
 +<code json config.json>
 +    {
 +    "model" : {
 +        "architecture":         "PhosaurusNet",
 +        "input_size":           1024,
 +        "anchors":              [205,205],
 +        "max_box_per_image":    700,
 +        "num_patches":          1,
 +        "filter":               [0.1,"tmp_filtered"]
 +      }
 +    }
 +</code>
  
 ==== General model YOLO patched mode ==== ==== General model YOLO patched mode ====
  
-=== Version 20180823 ===+=== Version 20181127 ===
  
-Number of real handpicked datasets included: 25  (+8 particle free datasets on various grids) 
  
  
 +[[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_yolo_20181127_1100.h5|DOWNLOAD]] (Uploaded: 27. November 2018) Number of datasets: 27 (real), 10 simulated, 10 particle free datasets on various grids
 +
 +<code json config.json>
 +{
 +    "model" : {
 +        "architecture":         "YOLO",
 +        "input_size":           1024,
 +        "anchors":              [205,205],
 +        "overlap_patches":      200,
 +        "max_box_per_image":    700,
 +        "num_patches":          2,
 +        "filter":               [0.1,"tmp_filtered"]
 +    }
 +}
 +</code>
 +
 +=== Version 20180823 ===
  
 [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_yolo_20180823_0806_loss_0059.h5|DOWNLOAD]]  [[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO-GENERAL-MODELS/gmodel_yolo_20180823_0806_loss_0059.h5|DOWNLOAD]] 
-(Uploaded: 23. August 2018)+(Uploaded: 23. August 2018) Number of real handpicked datasets included: 25  (+8 particle free datasets on various grids)
  
 Compatible config: Compatible config:
Line 88: Line 232:
     "model" : {     "model" : {
         "architecture":         "YOLO",         "architecture":         "YOLO",
-        "input_size":           1024,+        "input_size":           768,
         "anchors":              [205,205],         "anchors":              [205,205],
         "max_box_per_image":    600,         "max_box_per_image":    600,
-        "num_patches":          2+        "overlap_patches":      200, 
 +        "num_patches":          3
     }     }
 } }
Line 140: Line 285:
  
 ==== General crYOLO network model ==== ==== General crYOLO network model ====
 +
 +
 +Number of real handpicked datasets included: 10
 +
 +Uploaded: 28. June 2018
 +
 +[[ftp://ftp.gwdg.de/pub/misc/sphire/crYOLO_V1_0_0/gmodel_cryolo_20180621_0734_loss_0102.h5|DOWNLOAD]] 
 +
 +<code json config.json>
 +{
 +    "model" : {
 +        "​architecture": ​        "​crYOLO",​
 +        "​input_size": ​          ​1024,​
 +        "​anchors": ​             [160,​160],​
 +        "​max_box_per_image": ​   600 
 +    }
 +}
 +</code>
 +
 +Info: Trained on cryo images, therefore negative stain will not work.
cryolo_archive.txt · Last modified: 2019/10/15 16:41 by twagner

Page Tools

Except where otherwise noted, content on this wiki is licensed under the following license: GNU Free Documentation License 1.3
GNU Free Documentation License 1.3 Donate Powered by PHP Valid HTML5 Valid CSS Driven by DokuWiki