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54 lines
1.6 KiB
Python
Executable File
54 lines
1.6 KiB
Python
Executable File
#!/usr/bin/env python
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"""
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Upload a file to the desired history.
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"""
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import json
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import os
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import sys
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try:
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import requests
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except ImportError:
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print("Could not import the requests module. See http://docs.python-requests.org/en/latest/"
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+ " or install with 'pip install requests'")
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raise
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def upload_file(base_url, api_key, history_id, filepath, **kwargs):
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full_url = base_url + '/api/tools'
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payload = {
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'key': api_key,
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'tool_id': 'upload1',
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'history_id': history_id,
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}
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inputs = {
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'files_0|NAME': kwargs.get('filename', os.path.basename(filepath)),
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'files_0|type': 'upload_dataset',
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# TODO: the following doesn't work with tools.py
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'dbkey': '?',
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'file_type': kwargs.get('file_type', 'auto'),
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'ajax_upload': 'true',
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}
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payload['inputs'] = json.dumps(inputs)
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response = None
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with open(filepath, 'rb') as file_to_upload:
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files = {'files_0|file_data': file_to_upload}
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response = requests.post(full_url, data=payload, files=files)
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return response.json()
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if __name__ == '__main__':
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if len(sys.argv) < 5:
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print("history_upload.py <api key> <galaxy base url> <history id> <filepath to upload>\n"
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+ " (where galaxy base url is just the root url where your Galaxy is served; e.g. 'localhost:8080')")
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sys.exit(1)
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api_key, base_url, history_id, filepath = sys.argv[1:5]
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kwargs = dict([kwarg.split('=', 1) for kwarg in sys.argv[5:]])
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response = upload_file(base_url, api_key, history_id, filepath, **kwargs)
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print(response, file=sys.stderr)
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