hrshdhgd
commented
3 months ago Hi @sayalaruano ! Yes, the resource got changed to a gzip file. Try to get the latest version of the master branch and rerun. It was fixed just yesterday. If you feel the issue is resolved please feel free to close the issue. If not, we can help you fix it.
sayalaruano
Hi! I'm trying to create KG-microbe on my local computer, but when I try to download the resources needed got this error:
ERROR:root:Failed to download: https://w3id.org/biopragmatics/resources/rhea/rhea.json Downloading files: 81%|██████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████▊ | 17/21 [00:00<00:00, 25.02it/s] Traceback (most recent call last): File "", line 1, in
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/click/core.py", line 1157, in call
return self.main(args, kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/click/core.py", line 1078, in main
rv = self.invoke(ctx)
^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/click/core.py", line 1688, in invoke
return _process_result(sub_ctx.command.invoke(sub_ctx))
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/click/core.py", line 1434, in invoke
return ctx.invoke(self.callback, ctx.params)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/click/core.py", line 783, in invoke
return __callback(args, *kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/run/media/sayalaruano/Windows-SSD/Users/sayalaruano/OneDrive - Universidad San Francisco de Quito/Documentos/School/Maastricht/Thesis/MicWasteWatKG/Extra_metadata/kg-microbe-master/kg_microbe/run.py", line 53, in download
kg_download(args, *kwargs)
File "/run/media/sayalaruano/Windows-SSD/Users/sayalaruano/OneDrive - Universidad San Francisco de Quito/Documentos/School/Maastricht/Thesis/MicWasteWatKG/Extra_metadata/kg-microbe-master/kg_microbe/download.py", line 22, in download
download_from_yaml(
File "/home/sayalaruano/.cache/pypoetry/virtualenvs/kg-microbe-yG4npcK6-py3.11/lib/python3.11/site-packages/kghub_downloader/download_utils.py", line 134, in download_from_yaml
with urlopen(req) as response, open(outfile, "wb") as out_file: # type: ignore
^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 216, in urlopen
return opener.open(url, data, timeout)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 525, in open
response = meth(req, response)
^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 634, in http_response
response = self.parent.error(
^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 557, in error
result = self._call_chain(args)
^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 496, in _call_chain
result = func(args)
^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 749, in http_error_302
return self.parent.open(new, timeout=req.timeout)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 525, in open
response = meth(req, response)
^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 634, in http_response
response = self.parent.error(
^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 563, in error
return self._call_chain(args)
^^^^^^^^^^^^^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 496, in _call_chain
result = func(*args)
^^^^^^^^^^^
File "/home/sayalaruano/.pyenv/versions/3.11.8/lib/python3.11/urllib/request.py", line 643, in http_error_default
raise HTTPError(req.full_url, code, msg, hdrs, fp)
urllib.error.HTTPError: HTTP Error 404: Not Found
Is there something wrong with this link/resource? How can I solve it?
Thanks in advance for your help.