[Loris-dev] BIds Insertion
Cecile Madjar
cecile.madjar at mcin.ca
Fri Dec 6 15:10:58 EST 2019
Hi Iris,
I am a bit puzzled by your error message.
I see you are inserting EDF files but somehow the pipeline is going into an
if statement reserved to '.set' files (which sometimes can come with '.fdt'
files, see link here
<https://github.com/aces/Loris-MRI/blob/96a026ffc48af5c408d037a1bbaecc58619066ce/python/lib/eeg.py#L471>).
Was the code modified on your end by any chance?
Cécile
On Fri, Dec 6, 2019 at 2:30 PM Iris Rodríguez Gil <
iris.rodriguez at cneuro.edu.cu> wrote:
> Hi all,
>
>
>
> I have problem with the insertion of the bids dataset in my server with
> loris 22.0.
>
> I am testing with a short dataset and passing this parameters:
>
>
>
> *Python bids_import –d /dataset_bids –p database_config.py –c –s -v*
>
>
>
>
>
> Trace and Error:
>
>
>
> Connecting to:
>
> database: CBMCUBA
>
> username: lorisuser
>
> hostname: localhost
>
> port : 3306
>
>
>
>
>
> Executing query:
>
> SELECT Value FROM Config WHERE ConfigID = (SELECT ID FROM
> ConfigSettings WHERE Name = %s);
>
>
>
> With arguments:
>
> ('default_bids_vl',)
>
>
>
>
>
> Executing query:
>
> SELECT Value FROM Config WHERE ConfigID = (SELECT ID FROM
> ConfigSettings WHERE Name = %s);
>
>
>
> With arguments:
>
> ('dataDirBasepath',)
>
>
>
> Loading the BIDS dataset with BIDS layout library...
>
>
>
> => BIDS dataset loaded with BIDS layout
>
>
>
> Grepping candidates from the BIDS layout...
>
> Validating the list of participants...
>
> => Passed validation of the list of participants
>
>
>
> => List of participants found:
>
> MC0002270
>
> MC0002275
>
> MC0002339
>
> MC0002347
>
> MC0002352
>
> MC0002362
>
>
>
>
>
> Grepping list of sessions from the BIDS layout...
>
> => List of sessions found:
>
>
>
> MC0002270: 1
>
> MC0002339: 1
>
> MC0002275: 1
>
> MC0002362: 1
>
> MC0002352: 1
>
> MC0002347: 1
>
>
>
>
>
> Grepping the different modalities from the BIDS layout...
>
> => Done grepping the different modalities from the BIDS layout
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/
>
> Copying file /home/lorisadmin/dataset_test/dataset_description.json to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/dataset_description.json
>
> Copying file /home/lorisadmin/dataset_test/README to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/README
>
> Copying file /home/lorisadmin/dataset_test/participants.tsv to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/participants.tsv
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002270',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('586022', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002275',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002275
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('531254', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002275/ses-1
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002339',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002339
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('854503', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002339/ses-1
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002347',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002347
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('615335', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002347/ses-1
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002352',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002352
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('606661', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002352/ses-1
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002362',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002362
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('827956', '1')
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002362/ses-1
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/anat/
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002270',)
>
>
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('586022', '1')
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/anat/sub-MC0002270_T1w.json
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/anat/sub-MC0002270_T1w.json
>
>
>
> Executing query:
>
> SELECT type FROM ImagingFileTypes
>
>
>
>
>
> Executing query:
>
> SELECT f.FileID, f.File FROM files AS f JOIN parameter_file USING
> (FileID) JOIN parameter_type USING (ParameterTypeID) WHERE Value=%s
>
>
>
> With arguments:
>
>
> ('2bc67d1f0ffa5f5860f0c71f31cc517adf364d5a9503ab402758fa0e0836e14e956354fd992be4a0dbaf3f0454ead82b824a718853b09ab3ed83503ead37e7ab',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
>
>
> With arguments:
>
> ('MC0002270',)
>
>
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('586022', '1')
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.json
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.json
>
>
>
> Executing query:
>
> SELECT type FROM ImagingFileTypes
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.bvec
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.bvec
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.bval
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-01_dwi.bval
>
>
>
> Executing query:
>
> SELECT f.FileID, f.File FROM files AS f JOIN parameter_file USING
> (FileID) JOIN parameter_type USING (ParameterTypeID) WHERE Value=%s
>
>
>
> With arguments:
>
>
> ('1a075f0c10b856888e728c5421791cf6d18e363ca45255df46f4161460173f8153907173ae3840ac383e68d5f271eadc54bf03ea52fae737f758f376819295b3',)
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.json
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.json
>
>
>
> Executing query:
>
> SELECT type FROM ImagingFileTypes
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.bvec
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.bvec
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.bval
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/dwi/sub-MC0002270_run-02_dwi.bval
>
>
>
> Executing query:
>
> SELECT f.FileID, f.File FROM files AS f JOIN parameter_file USING
> (FileID) JOIN parameter_type USING (ParameterTypeID) WHERE Value=%s
>
>
>
> With arguments:
>
>
> ('bef678b4383bde1df93411e05bf75d8bccb5adf985e610ee7029c74056397ca43449dc20c187fa553ac0487a5adff67dc9e49827a8c227382768968c0444c9e7',)
>
>
>
> Creating directory
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/eeg/
>
>
>
> Executing query:
>
> SELECT * FROM candidate WHERE PSCID = %s
>
> /data/loris/bin/mri/python_virtualenvs/loris-mri-python/lib/python3.5/site-packages/sklearn/externals/joblib/__init__.py:15:
> FutureWarning: sklearn.externals.joblib is deprecated in 0.21 and will be
> removed in 0.23. Please import this functionality directly from joblib,
> which can be installed with: pip install joblib. If this warning is raised
> when loading pickled models, you may need to re-serialize those models with
> scikit-learn 0.21+.
>
> warnings.warn(msg, category=FutureWarning)
>
> /data/loris/bin/mri/python_virtualenvs/loris-mri-python/lib/python3.5/site-packages/sklearn/utils/deprecation.py:144:
> FutureWarning: The sklearn.utils.testing module is deprecated in version
> 0.22 and will be removed in version 0.24. The corresponding classes /
> functions should instead be imported from sklearn.utils. Anything that
> cannot be imported from sklearn.utils is now part of the private API.
>
> warnings.warn(message, FutureWarning)
>
> /data/loris/bin/mri/python_virtualenvs/loris-mri-python/lib/python3.5/site-packages/sklearn/utils/deprecation.py:144:
> FutureWarning: The sklearn.datasets.base module is deprecated in version
> 0.22 and will be removed in version 0.24. The corresponding classes /
> functions should instead be imported from sklearn.datasets. Anything that
> cannot be imported from sklearn.datasets is now part of the private API.
>
> warnings.warn(message, FutureWarning)
>
>
>
> With arguments:
>
> ('MC0002270',)
>
>
>
>
>
> Executing query:
>
> SELECT * FROM session WHERE CandID = %s AND Visit_label = %s
>
>
>
> With arguments:
>
> ('586022', '1')
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.json
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.json
>
>
>
> Executing query:
>
> SELECT type FROM ImagingFileTypes
>
>
>
>
>
> Executing query:
>
> SELECT PhysiologicalOutputTypeID FROM
> physiological_output_type WHERE OutputTypeName = %s
>
>
>
> With arguments:
>
> ('raw',)
>
>
>
>
>
> Executing query:
>
> SELECT pf.PhysiologicalFileID, pf.FilePath FROM physiological_file
> AS pf JOIN physiological_parameter_file USING (PhysiologicalFileID) JOIN
> parameter_type USING (ParameterTypeID) WHERE Value=%s
>
>
>
> With arguments:
>
>
> ('2962f54555ebd038297d3056cbad12379a3a293cb2128930f76a1da8e033987e7f6440632b00e585c22826879108c00f535e5e2f205ed5107c04ee7ae51c3282',)
>
>
>
>
>
> Executing query:
>
> SELECT PhysiologicalModalityID FROM physiological_modality
> WHERE PhysiologicalModality = %s
>
>
>
> With arguments:
>
> ('eeg',)
>
>
>
> Copying file
> /home/lorisadmin/dataset_test/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.edf
> to
> /data/loris/data/bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.edf
>
>
>
> Executing query:
>
> INSERT INTO physiological_file (AcquisitionTime, SessionID,
> PhysiologicalOutputTypeID, FileType, InsertedByUser,
> PhysiologicalModalityID, FilePath) VALUES (%s,%s,%s,%s,%s,%s,%s)
>
> With arguments:
>
> [(None, 1, 1, 'set', 'lorisadmin', 1,
> 'bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.edf')]
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('json_file',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 109,
> 'bids_imports/Dataset_containing_Cuban_Brain_Mapping_database_BIDSVersion_1.2.1/sub-MC0002270/ses-1/eeg/sub-MC0002270_task-protmap_eeg.json')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('EMGChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 101, 0)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('PowerLineFrequency',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 108, 60)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('EEGPlacementScheme',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 116, '10-10')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('ECGChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 112, 0)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('physiological_file_blake2b_hash',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 107,
> '2962f54555ebd038297d3056cbad12379a3a293cb2128930f76a1da8e033987e7f6440632b00e585c22826879108c00f535e5e2f205ed5107c04ee7ae51c3282')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('TriggerChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 115, 0)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('physiological_json_file_blake2b_hash',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 105,
> 'b3c94060b316453cfc2816eb57cc9012377bcfe345dab476a2b6507651d1fd0b79b5987635659439c91ac44156d49ec191c9faf694e788d7919be79e8d87e3ad')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('TaskDescription',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 104, 'Protocol used in Cuban Brain Mapping Project')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('SoftwareFilters',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 100, 'n/a')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('EOGChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 106, 0)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('SamplingFrequency',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 102, 200)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('MiscChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 110, 0)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('RecordingType',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 114, 'continuous')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('EEGChannelCount',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 99, 62)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('RecordingDuration',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 111, 1801.42)
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('EEGReference',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 113, 'common')
>
>
>
>
>
> Executing query:
>
> SELECT ParameterTypeID FROM parameter_type WHERE Name = %s AND
> SourceFrom='physiological_parameter_file'
>
>
>
> With arguments:
>
> ('TaskName',)
>
>
>
>
>
> Executing query:
>
> INSERT INTO physiological_parameter_file (PhysiologicalFileID,
> ParameterTypeID, Value) VALUES (%s,%s,%s)
>
> With arguments:
>
> (3, 103, 'protmap')
>
>
>
> Traceback (most recent call last):
>
> File "bids_import.py", line 431, in <module>
>
> main()
>
> File "bids_import.py", line 75, in main
>
> read_and_insert_bids(bids_dir, config_file, verbose, createcand,
> createvisit)
>
> File "bids_import.py", line 216, in read_and_insert_bids
>
> loris_bids_root_dir = loris_bids_root_dir
>
> File "/data/loris/bin/mri/python/lib/eeg.py", line 143, in __init__
>
> self.register_raw_data()
>
> File "/data/loris/bin/mri/python/lib/eeg.py", line 264, in
> register_raw_data
>
> inserted_eeg = self.fetch_and_insert_eeg_file()
>
> File "/data/loris/bin/mri/python/lib/eeg.py", line 473, in
> fetch_and_insert_eeg_file
>
> fdt_full_path = eeg_file_data['fdt_file']
>
> KeyError: 'fdt_file'
>
>
>
>
>
> But with this error I can see that the candidates was inserted in the
> database, so which I can't see in the formulary?
>
>
>
>
>
>
>
>
>
>
>
> How I can solve this problem, any idea?,
>
>
>
> Thanks,
>
> Iris
>
>
>
>
>
>
>
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