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Download of doid.obo fails #1

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mpreusse opened this issue Nov 19, 2020 · 0 comments
Open

Download of doid.obo fails #1

mpreusse opened this issue Nov 19, 2020 · 0 comments

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@mpreusse
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The data loading container fails when it tries to download https://github.com/DiseaseOntology/HumanDiseaseOntology/raw/master/src/ontology/doid.obo

motherlode_1  | 2020-11-18 17:27:05,985 HELOMICS_HETIONET INFO: 2020-11-18T17:27:05.983637831Z downloading https://github.com/DiseaseOntology/HumanDiseaseOntology/raw/master/src/ontology/doid.obo to /app/dataloader/../dataset/disease_ontology/doid.obo
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,287 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.286466529Z URL ***
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,288 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.286524846Z pw SomeTestHere
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,289 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.286541817Z user neo4j
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,289 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.286555575Z Code block 'Downloader' took: 13.71501 s
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,292 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292236156Z Traceback (most recent call last):
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,293 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292285742Z   File "./main.py", line 38, in <module>
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,294 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292306764Z     download()
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,295 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292322897Z   File "/app/dataloader/download_data.py", line 127, in download
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,296 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292339030Z     download_disease_dataset()
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,296 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292355303Z   File "/app/dataloader/download_data.py", line 62, in download_disease_dataset
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,297 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292371995Z     download_file(config.DISEASE_DOWNLOAD_URL, config.DISEASE_OBO_FILE)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,298 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292388616Z   File "/app/dataloader/download_data.py", line 31, in download_file
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,298 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292419486Z     with urllib.request.urlopen(url) as response:
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,298 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292435130Z   File "/usr/local/lib/python3.6/urllib/request.py", line 223, in urlopen
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,298 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292450704Z     return opener.open(url, data, timeout)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,299 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292465231Z   File "/usr/local/lib/python3.6/urllib/request.py", line 532, in open
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,299 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292509998Z     response = meth(req, response)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,299 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292549318Z   File "/usr/local/lib/python3.6/urllib/request.py", line 642, in http_response
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,299 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292574670Z     'http', request, response, code, msg, hdrs)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,300 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292609101Z   File "/usr/local/lib/python3.6/urllib/request.py", line 570, in error
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,300 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292632079Z     return self._call_chain(*args)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,300 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292650237Z   File "/usr/local/lib/python3.6/urllib/request.py", line 504, in _call_chain
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,300 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292673913Z     result = func(*args)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,300 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292691583Z   File "/usr/local/lib/python3.6/urllib/request.py", line 650, in http_error_default
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,301 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292707855Z     raise HTTPError(req.full_url, code, msg, hdrs, fp)
motherlode_1  |
motherlode_1  | 2020-11-18 17:27:06,301 HELOMICS_HETIONET INFO: 2020-11-18T17:27:06.292724757Z urllib.error.HTTPError: HTTP Error 404: Not Found

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