Error_data import from Galaxy history into rstudio

usegalaxy.eu support
,
1

Hello there,

I am trying to import some txt files from my galaxy history into the Rstudio in usegalaxy.eu. I am continuously getting an error message.

first half of the error message:

DEBUG:root:Host IP determined to be b’172.17.0.1\n’
DEBUG:root:TestURL url=https://usegalaxy.eu obj=False
/opt/miniconda/lib/python3.9/site-packages/bioblend/galaxy/histories/init.py:120: FutureWarning: The history_id parameter is deprecated, use the show_history() method to view details of a history for which you know the ID.
warnings.warn(
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): usegalaxy.eu:443
DEBUG:urllib3.connectionpool:https://usegalaxy.eu:443 “GET /api/histories HTTP/1.1” 200 None
DEBUG:root:TestURL url=https://usegalaxy.eu state=success

Creating a new history and redoing it with a fresh session also does not help. Even changing the browser from Microsoft Edge to Google Chrome did not help.

Can anyone help?

Thanks!!

2

Hi @srinivasa_abishek

Are you using one of these commands?

  • gx_get() to move files from the history into the Rstudio environment
  • gx_put() to do the reverse
  • gx_save() to save the session history

Tutorials

If something is going on special at that server, the EU moderators will be online in a few hours.

3

Yes. I am using the gx_get() command to import files from the galaxy history in which the Rstudio tool was initiated. But it is not working. I am getting the same error message again.

4

If this is still a problem, would you post back the actual command and a screenshot of the history panel?

  • The command should include the individual dataset number, example gx_get(12).
  • The active history should contain that individual dataset somewhere – it could be a hidden dataset nested within a collection. Try to capture the number and datatype.