simclr on medical dataset gives error

[fatmacelebi]

I just changed the line 65 in simclr/tf2/data.py ( dataset = builder.as_dataset() ) as
dataset= tf.data.Dataset.from_tensor_slices(train_images)
but I was not able to run the codes. Is there any document that you can share with me how to apply simclr on custom dataset which different than tensorflow dataset or can you say where I am doing wrong?
In my codes; train_images = list(paths.list_images(images_path))
images_path=folder path which contains unlabaled pretraining images
With this way I am getting error in mp_fn function with error "tf__map_fn() missing 1 required positional argument: 'label'"

[ambekarsameer96]

Hi, you can try to add labels from the dataset, that might fix the issue. You can refer to this from -
https://www.tensorflow.org/api_docs/python/tf/data/Dataset

# Both the features and the labels tensors can be converted to a Dataset object separately and combined after. features_dataset = Dataset.from_tensor_slices(features) labels_dataset = Dataset.from_tensor_slices(labels) dataset = Dataset.zip((features_dataset, labels_dataset))

[fatmacelebi]

but I don't have any label, because I want to train unlabeled images as pretraining.

[chentingpc]

creating a dummy label may suffice. label won't be used anyway for the pretraining of backbone network.

[fatmacelebi]

Finally, I was able to run the code, but after completing the iteartions I couldn't get any hub file which has saved model like in your case, and code just cerated files like ;

• checkpoint
• model.ckpt-8720.data-00000-of-00001
• model.ckpt-8720.index
• model.ckpt-8720.meta

and I don't know from above files which can be used as model for fine-tuning? Am I doing wrong while running and because of that the code doesn't create any hub file with saved model?
Can you help please?

[chentingpc]

These are checkpoints and you could specify `FLAGS.checkpoint=/path/to/directory` to load the checkpoint for fine-tuning.

…

On Wed, Feb 9, 2022 at 11:16 AM fclb ***@***.***> wrote: Finally, I was able to run the code, but after completing the iteartions I couldn't get any hub file which has saved model like in your case, and code just cerated files like ; - checkpoint - model.ckpt-8720.data-00000-of-00001 - model.ckpt-8720.index - model.ckpt-8720.meta and I don't know from above files which can be used as model for fine-tuning? Am I doing wrong while running and because of that the code doesn't create any hub file with saved model? Can you help please? — Reply to this email directly, view it on GitHub <#187 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAKERUIU6MKY4Q5GV5YIHWDU2KHPPANCNFSM5MWISKZQ> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>. You are receiving this because you commented.Message ID: ***@***.***>

[fatmacelebi]

I need Resnet model pre-trained weights to use in another approach as initial weights and I need an .h5 file to load weights. Is is possible to get such a file?

[wmrenr]

apply simclr on custom dataset

Now I want apply simclr on my custom dataset.Could you please tell me how to prepare datas format?Thank you very much!