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A recent installation of parsec (last couple of weeks) over pip produces the following error on an attempt to download a dataset:
GalaxyInstance object for Galaxy at http://platform.persist-seq.org/galaxy/
Traceback (most recent call last):
File "/mymachine/myuser/venvs/galaxy-parsec/lib64/python3.9/site-packages/parsec/decorators.py", line 18, in custom_exception
return wrapped(*args, **kwargs)
File "/mymachine/myuser/venvs/galaxy-parsec/lib64/python3.9/site-packages/parsec/decorators.py", line 36, in json_output
output = wrapped(*args, **kwargs)
File "/mymachine/myuser/venvs/galaxy-parsec/lib64/python3.9/site-packages/parsec/commands/datasets/download_dataset.py", line 46, in cli
return ctx.gi.datasets.download_dataset(dataset_id, file_path=file_path, use_default_filename=use_default_filename, require_ok_state=require_ok_state, maxwait=maxwait)
File "/mymachine/myuser/venvs/galaxy-parsec/lib64/python3.9/site-packages/bioblend/galaxy/datasets/__init__.py", line 115, in download_dataset
r.raise_for_status()
File "/mymachine/myuser/venvs/galaxy-parsec/lib64/python3.9/site-packages/requests/models.py", line 1024, in raise_for_status
raise HTTPError(http_error_msg, response=self)
requests.exceptions.HTTPError: 404 Client Error: Not Found for url: http://platform.persist-seq.org/api/histories/fbaae07cedf84009/contents/70f561ec53a10e88/display?to_ext=h5ad
404 Client Error: Not Found for url: http://platform.persist-seq.org/api/histories/fbaae07cedf84009/contents/70f561ec53a10e88/display?to_ext=h5ad
For some reason, this pip install also uses a very old version of bioblend (not sure why requirements get resolved like that, but I remember seeing this before, since it worked I didn't pay attention to it):
where, when joining the correct URL stored in the gi object (in this case http://platform.persist-seq.org/galaxy/) with the download_url /api/histories/fbaae07cedf84009/contents/70f561ec53a10e88/display?to_ext=h5ad the prefix galaxy gets stripped and the end URL ends up being:
without galaxy, which of course doesn't exists. I'm guessing issue must be between some old version of bioblend and newer versions or urlib perhaps? Not sure.
The text was updated successfully, but these errors were encountered:
A recent installation of parsec (last couple of weeks) over pip produces the following error on an attempt to download a dataset:
For some reason, this pip install also uses a very old version of bioblend (not sure why requirements get resolved like that, but I remember seeing this before, since it worked I didn't pay attention to it):
The problem seems to be in this line of the installed bioblend:
where, when joining the correct URL stored in the gi object (in this case
http://platform.persist-seq.org/galaxy/
) with the download_url/api/histories/fbaae07cedf84009/contents/70f561ec53a10e88/display?to_ext=h5ad
the prefixgalaxy
gets stripped and the end URL ends up being:without
galaxy
, which of course doesn't exists. I'm guessing issue must be between some old version of bioblend and newer versions or urlib perhaps? Not sure.The text was updated successfully, but these errors were encountered: