# Renku update error

**URL:** <https://renku.discourse.group/t/renku-update-error/72>\
**Category:** Renku (CLI)\
**Created:** [23 March 2020 08:23 UTC](https://renku.discourse.group/t/renku-update-error/72 "2020-03-23T08:23:27Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![hluetck](https://yyz2.discourse-cdn.com/free1/user_avatar/renku.discourse.group/hluetck/32/45_2.png) [@hluetck](https://renku.discourse.group/u/hluetck)\
**Post date:** [23 March 2020 08:23 UTC](https://renku.discourse.group/t/renku-update-error/72/1 "2020-03-23T08:23:27Z")

</div>

Hi all,

I have created a renku workflow in a private repo on renkulab:  
[https://renkulab.io/projects/hluetcke/calcium-movie-analysis](https://renkulab.io/projects/hluetcke/calcium-movie-analysis)

The workflow consists of Jupyter notebooks run through papermill. I can run it through renku successfully:

```auto
renku run papermill --kernel Python3 PreprocessMovies.ipynb PreprocessMovies.ran.ipynb -p input_path ../data/test_dataset/rawMovie.h5 -p output_path ../data/test_dataset/preprocessedMovie.h5 -p n_jobs 1
renku run papermill --kernel Python3 ExtractSignals.ipynb ExtractSignals.ran.ipynb -p input_path ../data/test_dataset/preprocessedMovie.h5 -p output_path ../data/test_dataset/resultsPCAICA_python.h5
renku run papermill --kernel Python3 AnnotateSignals.ipynb AnnotateSignals.ran.ipynb -p input_path ../data/test_dataset/resultsPCAICA_python.h5 -p output_path ../data/test_dataset/PCAICAsorted.h5 -p update_existing False

```

This also creates a nice graph of the workflow in the renkulab UI. Now, I want to change some code in the first notebook, commit the changes and run `renku update` but I get the following error:  
[https://pastebin.pl/view/c113d85f](https://pastebin.pl/view/c113d85f)

Do you have any idea what could be the problem?

Thanks, Henry

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<div class="post-metadata">

**Author:** ![adriente](https://avatars.discourse-cdn.com/v4/letter/a/3e96dc/32.png) [@adriente](https://renku.discourse.group/u/adriente)\
**Post date:** [23 March 2020 09:34 UTC](https://renku.discourse.group/t/renku-update-error/72/2 "2020-03-23T09:34:57Z")

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Hi,

The same kind of error occured in renkulab environment too when i was running `renku update` on a several-steps knowledge graph.

If you have for example A–\>B–\>C–\>D, I found out that running :

```auto
renku update B
renku update C
renku update D

```

was working fine for me.

I hope that can help you or help to find a solution to this issue.

Have a good day,

Adrien

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<div class="post-metadata">

**Author:** ![hluetck](https://yyz2.discourse-cdn.com/free1/user_avatar/renku.discourse.group/hluetck/32/45_2.png) [@hluetck](https://renku.discourse.group/u/hluetck)\
**Post date:** [23 March 2020 14:35 UTC](https://renku.discourse.group/t/renku-update-error/72/3 "2020-03-23T14:35:56Z")

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Thanks for the hint. I found that there was still an old unused dataset dangling around in `.renku/refs/datasets`. After removing it, the error disappeared.

Best, Henry