TableQA

[gavirapp]

In the Haystack Notebook "15_TableQA.ipynb", when I run the following commands in Colab:

>>**from haystack.nodes import TableReader**
>>**reader = TableReader(model_name_or_path="google/tapas-base-finetuned-wtq", max_seq_len=512)**

I keep running into the following error:

---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
[<ipython-input-20-fa74376e5068>](https://localhost:8080/#) in <module>
      1 from haystack.nodes import TableReader
      2 
----> 3 reader = TableReader(model_name_or_path="google/tapas-base-finetuned-wtq", max_seq_len=512)

1 frames
[/usr/local/lib/python3.7/dist-packages/haystack/nodes/reader/table.py](https://localhost:8080/#) in __init__(self, model_name_or_path, model_version, tokenizer, use_gpu, top_k, top_k_per_candidate, return_no_answer, max_seq_len, use_auth_token, devices)
    125         if not torch_scatter_installed:
    126             raise ImportError(
--> 127                 "Please install torch_scatter to use TableReader. You can follow the instructions here: https://github.com/rusty1s/pytorch_scatter"
    128             )
    129         if torch_scatter_wrong_version:

ImportError: Please install torch_scatter to use TableReader. You can follow the instructions here: https://github.com/rusty1s/pytorch_scatter

---------------------------------------------------------------------------
NOTE: If your import is failing due to a missing package, you can
manually install dependencies using either !pip or !apt.

To view examples of installing some common dependencies, click the
"Open Examples" button below.
----------------------------------------------

Then I successfully install:

>>**!pip install torch-scatter -f https://data.pyg.org/whl/torch-1.12.0+${CUDA}.html**

But I can't get past the error.

Any help will be greatly appreciated. Thanks

[anakin87]

@gavirapp hello!

Did you try to restart the runtime?
Sometimes it is needed to make the installation of new libraries effective.

[gavirapp]

I did. several times, over three days:( But nothing gets me past the: ImportError: Please install torch_scatter to use TableReader. You can follow the instructions here: https://github.com/rusty1s/pytorch_scatter

…

On Sun, Oct 30, 2022 at 6:24 AM Stefano Fiorucci ***@***.***> wrote: @gavirapp <https://github.com/gavirapp> hello! Did you try to restart the runtime? Sometimes it is needed to make the installation of new libraries effective. [image: image] <https://user-images.githubusercontent.com/44616784/198873714-e1101597-72c7-4728-ac6a-9587d3477ae2.png> — Reply to this email directly, view it on GitHub <#3501 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACKTPMSXU35J27HDX7IPHQTWFY5DJANCNFSM6AAAAAARR3WSCQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[anakin87]

I can reproduce your issue.
I solved it by executing the following cell and restarting the runtime.

# The TaPAs-based TableReader requires the torch-scatter library
import torch

version = torch.__version__
!pip install torch-scatter -f https://data.pyg.org/whl/torch-{version}.html

Please let me know if it works for you...
I think that the tutorial should be corrected.

[anakin87]

@gavirapp the problem has been fixed in deepset-ai/haystack-tutorials#56.

Try the tutorial again. It should work fine.

[gavirapp]

Hi Stefano, thanks, I just went back and tried running it, unfortunately still gives me the same error (BTW, I am using Colab). Here is a couple of views, to help you make sense (I will be happy to share my whole notebook if you like): [image: image.png] [image: image.png] Could this be privilege issue? or path? I actually dug into table.py, and the error is coming from the state Boolean *torch_scatter_installed* Apparently, the torch_scatter installation is not visible to the TableReader class, although it is installed (I checked) Hope this all makes sense and we can sort it out. Thanks much again.

…

-George

On Mon, Oct 31, 2022 at 5:14 AM Stefano Fiorucci ***@***.***> wrote: @gavirapp <https://github.com/gavirapp> the problem has been fixed in deepset-ai/haystack-tutorials#56 <deepset-ai/haystack-tutorials#56>. Try the tutorial again. It should work fine. — Reply to this email directly, view it on GitHub <#3501 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACKTPMRW3FFRKR6M6IQD66LWF6EV7ANCNFSM6AAAAAARR3WSCQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[anakin87]

I refer to the official tutorial: https://colab.research.google.com/github/deepset-ai/haystack-tutorials/blob/main/tutorials/15_TableQA.ipynb
It's working now.

I can't see the attached images. If you want/need, please share your notebook.

[TuanaCelik]

@gavirapp - Are you still running into this issue. Same as @anakin87, I was able to reproduce this on colab. If I try to run the reader cell before installing torch-scatter I got the error and installing it after that in the same run time did not fix the issue, it just kept giving me the same error. However, re-starting the runtime, installing torch first and then running the reader cell worked fine. I seem to only get this in colab though. I'll mention this to the team too to see if there's anything we can do about that for Colab.
Let me know if you're still experiencing this though.

[gavirapp]

Hi Tuana, first thanks for attending to this issue, and sorry I didn't get back to you sooner. You are exactly correct, as soon as installed torch before haystack the problem goes away! In any case attached is the notebook file that gives me trouble in Colab. Thanks and best,

…

-George

On Wed, Nov 16, 2022 at 3:12 PM Tuana Celik ***@***.***> wrote: @gavirapp <https://github.com/gavirapp> - Are you still running into this issue. Same as @anakin87 <https://github.com/anakin87>, I was able to reproduce this on colab. If I try to run the reader cell before installing torch-scatter I got the error and installing it after that in the same run time did not fix the issue, it just kept giving me the same error. However, re-starting the runtime, installing torch first and then running the reader cell worked fine. I seem to only get this in colab though. I'll mention this to the team too to see if there's anything we can do about that for Colab. Let me know if you're still experiencing this though. — Reply to this email directly, view it on GitHub <#3501 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ACKTPMXHS5UFSLAUBFRDBI3WIU5Y7ANCNFSM6AAAAAARR3WSCQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[TuanaCelik]

Ah good to hear and thanks for letting me know @gavirapp
For now I've marked this question answered. And I will take note of this to see if it's something g we should report to colab or fix with Haystack. (Installing torch after not working I mean)
Have a nice weekend!