Hello to all,
I'm trying to use the script import_library_dataset_to_history.py in
order to upload a file from a dataset in a history.
I get an error, but I'm not sure that I use it the right way.
The command line I use is:
python import_library_dataset_to_history.py
cd065330048989af4ae266cf94685e6b http://127.0.0.1:8080
/api/libraries/f597429621d6eb2b/contents/f597429621d6eb2b
I'm not sur if the url (http://127.0.0.1:8080) is the one to use.
I'm not sure if the library_file_id is the right one.
At the url
http://127.0.0.1:8080/api/libraries/f597429621d6eb2b/contents/f597429621d6eb2b
The Json:
{
"data_type": "fasta",
"date_uploaded": "2012-11-16T13:29:37.051910",
"file_name":
"/home/odoppelt/localStuff_VM/tools/galaxy-dist/database/files/000/dataset_2.dat",
"file_size": 5492113,
"folder_id": "f597429621d6eb2b",
"genome_build": "?",
"id": "f597429621d6eb2b",
"ldda_id": "f597429621d6eb2b",
"message": "",
"metadata_data_lines": 90357,
"metadata_dbkey": "?",
"metadata_sequences": 246,
"misc_blurb": "246 sequences",
"misc_info": "uploaded fasta file",
"model_class": "LibraryDataset",
"name": "Galaxy64-[Fasta_file_containing_result_contigs].fasta",
"template_data": {},
"uploaded_by": "odopp...@pasteur.fr",
"uuid": null
}
could you please tell me if I use it the wrong way or if it doesn't work.
FYI,
the error i'm getting is:
Traceback (most recent call last):
File "import_library_dataset_to_history.py", line 16, in <module>
submit( sys.argv[1], sys.argv[2], data )
File "common.py", line 105, in submit
r = post( api_key, url, data )
File "common.py", line 47, in post
return simplejson.loads( urllib2.urlopen( req ).read() )
File
"/home/odoppelt/localStuff_VM/tools/galaxy-dist/eggs/simplejson-2.1.1-py2.7-linux-x86_64-ucs4.egg/simplejson/__init__.py",
line 384, in loads
File
"/home/odoppelt/localStuff_VM/tools/galaxy-dist/eggs/simplejson-2.1.1-py2.7-linux-x86_64-ucs4.egg/simplejson/decoder.py",
line 402, in decode
File
"/home/odoppelt/localStuff_VM/tools/galaxy-dist/eggs/simplejson-2.1.1-py2.7-linux-x86_64-ucs4.egg/simplejson/decoder.py",
line 420, in raw_decode
simplejson.decoder.JSONDecodeError: No JSON object could be decoded:
line 1 column 0 (char 0)
Thanks in advance,
Cheers,
--
Olivia Doppelt-Azeroual, PhD
Tel: 92 15
CIB - Institut Pasteur
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