{"action":"created","issue":{"url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/1","repository_url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS","labels_url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/1/comments","events_url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/1/events","html_url":"https://github.com/AutomaticBehaviorRecognitionSystem/ABRS/issues/1","id":493405615,"node_id":"MDU6SXNzdWU0OTM0MDU2MTU=","number":1,"title":"Filters/SVdictTrainingSet_ST_Gr33a_dust_th0_10_averSubT2_binVar not found","user":{"login":"cgutierrez-Ibanez","id":48419994,"node_id":"MDQ6VXNlcjQ4NDE5OTk0","avatar_url":"https://avatars3.githubusercontent.com/u/48419994?v=4","gravatar_id":"","url":"https://api.github.com/users/cgutierrez-Ibanez","html_url":"https://github.com/cgutierrez-Ibanez","followers_url":"https://api.github.com/users/cgutierrez-Ibanez/followers","following_url":"https://api.github.com/users/cgutierrez-Ibanez/following{/other_user}","gists_url":"https://api.github.com/users/cgutierrez-Ibanez/gists{/gist_id}","starred_url":"https://api.github.com/users/cgutierrez-Ibanez/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/cgutierrez-Ibanez/subscriptions","organizations_url":"https://api.github.com/users/cgutierrez-Ibanez/orgs","repos_url":"https://api.github.com/users/cgutierrez-Ibanez/repos","events_url":"https://api.github.com/users/cgutierrez-Ibanez/events{/privacy}","received_events_url":"https://api.github.com/users/cgutierrez-Ibanez/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":19,"created_at":"2019-09-13T16:06:22Z","updated_at":"2019-10-28T22:06:46Z","closed_at":null,"author_association":"NONE","body":"Hi\r\n\r\nI started to try to use your code to analyze some behavior (fish to start), but I run into a problem. \r\nI manage to run video_to_ST_image_batch.py and got some ST-images for my video. But then, when I run ST_image_to_ST_feature_batch.py I get the error below: \r\n\r\ntraceback (most recent call last):\r\n  File \"C:\\deeplabcut\\ABRS\\ST_image_to_ST_feature_batch.py\", line 125, in <module>\r\n    STF_30_posXY_dict = project_to_basis_fun (dirPathInputSTfolder,dirPathU,dirPathOutput,numbFiles)\r\n  File \"C:\\deeplabcut\\ABRS\\ST_image_to_ST_feature_batch.py\", line 23, in project_to_basis_fun\r\n    with open(UDirPathFileName, \"rb\") as f:\r\nFileNotFoundError: [Errno 2] No such file or directory: 'C:\\\\deeplabcut\\\\ABRS\\\\Filters\\\\USVdictTrainingSet_ST_Gr33a_dust_th0_10_averSubT2_binVar'\r\n\r\n\r\nWhich makes sense because there is no folder named  \"Filters\", nor a file with that name anywhere.  What is that file and how do I get it/generate it?\r\n\r\nThank you for your time\r\n\r\nCristian Gutierrez-Ibanez"},"comment":{"url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/comments/547166137","html_url":"https://github.com/AutomaticBehaviorRecognitionSystem/ABRS/issues/1#issuecomment-547166137","issue_url":"https://api.github.com/repos/AutomaticBehaviorRecognitionSystem/ABRS/issues/1","id":547166137,"node_id":"MDEyOklzc3VlQ29tbWVudDU0NzE2NjEzNw==","user":{"login":"AutomaticBehaviorRecognitionSystem","id":46036116,"node_id":"MDQ6VXNlcjQ2MDM2MTE2","avatar_url":"https://avatars3.githubusercontent.com/u/46036116?v=4","gravatar_id":"","url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem","html_url":"https://github.com/AutomaticBehaviorRecognitionSystem","followers_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/followers","following_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/following{/other_user}","gists_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/gists{/gist_id}","starred_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/subscriptions","organizations_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/orgs","repos_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/repos","events_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/events{/privacy}","received_events_url":"https://api.github.com/users/AutomaticBehaviorRecognitionSystem/received_events","type":"User","site_admin":false},"created_at":"2019-10-28T22:06:46Z","updated_at":"2019-10-28T22:06:46Z","author_association":"OWNER","body":"Hi Augusto,\r\n\r\nSorry it took a while. Yes, you can start from any resolution or size of ROI and then reshape it to 80x80. I do realize that in current implementation you can only read a clip from frame 0. The batch was originally designed for processing many short clips rather than few long ones. I will try to update it soon as to make it more flexible. However, I have uploaded **ABRS_labelMaker** script which is essentially a condensed version of ABRS minus training. It reads movies from any given frame and converts them to 3CST images in real-time. It can also be used to make new labels but this is still in development so you can comment those lines out. I suggest using this script to create optimal 3CST images for your purposes. Once the images look good you can start the CNN training with them as well as adjust the batch with the new parameters. \r\n\r\nYes, the 3CST image files are huge, unfortunately. The images are not compressed the way the original movies are so it is not surprising that the size is big. I suggest discarding the 3CST images once satisfactory ethograms are produced (as the 3CST images are just an intermediate product anyway).\r\n  \r\n I am now also writing a much improved batch to convert 3CST images to ethograms and will upload it when ready (1-2 weeks). This batch is more in line with the old ABRS version, described in the paper, when it comes to post-processing of probability outputs of the CNN. \r\n\r\nThanks for your patience and for your efforts to make ABRS usable with other animals. "}}
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