Wait for an upload box to appear at the end of the "Input Protein ..." box. (not seeing it)

[dxter-zz]

When I select msa_mod->custom I do not see an "upload box" at the end of the "Input Protein ..." box.

[martin-steinegger]

did you use the "run all" button? You need to execute the cell in order to see the box.

[dxter-zz]

Thanks, that seemed to work. It wasn't clear from the msa instructions that you needed to start the run for the upload option to appear. It is reading the a3m now, but it is crashing at "Call MMSseq2 ..." with error below. I actually don't want it to try to find more sequences, but not sure how to skip that step. running model_1

…

--------------------------------------------------------------------------- InvalidArgumentError Traceback (most recent call last) /usr/local/lib/python3.7/dist-packages/tensorflow/python/framework/ops.py <https://localhost:8080/#> in _create_c_op(graph, node_def, inputs, control_inputs, op_def) 1879 try: -> 1880 c_op = pywrap_tf_session.TF_FinishOperation(op_desc) 1881 except errors.InvalidArgumentError as e: InvalidArgumentError: Cannot reshape a tensor with 1710 elements to shape [3,70,1] (210 elements) for '{{node reshape_msa}} = Reshape[T=DT_INT32, Tshape=DT_INT32](Const_6, reshape_msa/shape)' with input shapes: [3,570], [3] and with input tensors computed as partial shapes: input[1] = [3,70,1]. During handling of the above exception, another exception occurred: ValueError Traceback (most recent call last)

------------------------------ 12 frames ------------------------------ /usr/local/lib/python3.7/dist-packages/tensorflow/python/framework/ops.py <https://localhost:8080/#> in _create_c_op(graph, node_def, inputs, control_inputs, op_def) 1881 except errors.InvalidArgumentError as e: 1882 # Convert to ValueError for backwards compatibility. -> 1883 raise ValueError(str(e)) 1884 1885 return c_op ValueError: Cannot reshape a tensor with 1710 elements to shape [3,70,1] (210 elements) for '{{node reshape_msa}} = Reshape[T=DT_INT32, Tshape=DT_INT32](Const_6, reshape_msa/shape)' with input shapes: [3,570], [3] and with input tensors computed as partial shapes: input[1] = [3,70,1].

On Tue, Sep 21, 2021 at 1:28 AM Martin Steinegger ***@***.***> wrote: did you use the "run all" button? You need to execute the cell in order to see the box. — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#46 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAOAGQN5R5LOFYA6HHVWO63UDAJV7ANCNFSM5ENQMHKQ> . 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>.