Datasets:
celinelee
/
python_fn_calls

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print(d)
deletes.append(delete)
print(e)
self.session.commit()
delete_sample_experimentIDAndSampleID_samplePhysiologicalParameters(self,dataListDelete_I)
self.session.query(sample_physiologicalParameters)
experiment.id.like(d['experiment_id'])
sample.sample_id.like(d['sample_id'])
experiment.sample_name.like(sample.sample_name)
sample_physiologicalParameters.sample_id.like(sample.sample_id)
print('row not found')
print(d)
deletes.append(delete)
print(e)
self.session.commit()
get_calibratorIDAndLevel_sampleNameAndSampleType_sample(self,sample_name_I,sample_type_I)
sample.sample_name.like(sample_name_I)
sample.sample_type.like(sample_type_I)
all()
print('no calibrator id nor level found for sample_name/sample_type ' + sample_name_I + ' / ' + sample_type_I)
print(e)
get_calibratorConcentrationAndUnit_metIDAndCalibratorIDAndLevel_calibratorConcentrations(self, met_id_I, calibrator_id_I, calibrator_level_I)
mix2met_id.met_id.like(met_id_I)
mix2met_id.mix_id.like(calibrator2mix.mix_id)
all()
print('no calibrator ID nor unit found for met_id ' + met_id_I)
print(e)
calibrator_concentrations.met_id.like(met_id_I)
all()
print('no calibrator concentration nor unit found for met_id/calibrator_id/calibrator_level ' + met_id_I + ' / ' + str(calibrator_id_I)
str(calibrator_level_I)
print(e)
get_acqusitionMethod(self,lc_method_I,ms_mode_I,ms_methodtype_I)
method (i.e., join tables lc_elution and ms_components)
lc_elution.lc_method_id.like(lc_method_I)
MS_components.ms_mode.like(ms_mode_I)
MS_components.ms_methodtype.like(ms_methodtype_I)
MS_components.met_id.like(lc_elution.met_id)
lc_elution.rt.asc()
MS_components.component_name.asc()
all()
print('bad query for row in ms_components: ')
print('lc_method_I: ' + lc_method_I + ', ms_mode_I: ' + ms_mode_I + ', ms_methodtype_I: ' + ms_methodtype_I)
exit(-1)
mscomponents_O.append(mscomponents_1)
print(e)
delete_sample_experimentID_experiment(self,dataListDelete_I)
self.session.query(experiment)
experiment.id.like(d['experiment_id'])
print('row not found')
print(d)
deletes.append(delete)
print(e)
self.session.commit()
delete_sample_experimentID_sample(self,dataListDelete_I)
self.session.query(sample)
experiment.id.like(d['experiment_id'])
experiment.sample_name.like(sample.sample_name)
print('row not found')
print(d)
deletes.append(delete)
print(e)
self.session.commit()
get_nMaxBioReps_experimentIDAndSampleName_sampleDescription(self,experiment_id_I,sample_name_I)
self.session.query(sample_description.sample_replicate)
experiment.id.like(experiment_id_I)
experiment.sample_name.like(sample_name_I)
experiment.sample_name.like(sample.sample_name)
sample.sample_id.like(sample_description.sample_id)
sample_description.sample_replicate.desc()
all()
max(bioReps[0])
print('no biological replicates found for experiment ' + experiment_id_I)
exit(-1)
print(e)
get_nMaxBioReps_experimentIDAndSampleID_sampleDescription(self,experiment_id_I,sample_id_I)
self.session.query(sample_description.sample_replicate)
experiment.id.like(experiment_id_I)
experiment.sample_name.like(sample.sample_name)
sample.sample_id.like(sample_id_I)
sample.sample_id.like(sample_description.sample_id)
sample_description.sample_desc.like('Broth')
sample_description.sample_replicate.desc()
all()
max(bioReps[0])
print('no biological replicates found for experiment ' + experiment_id_I)
exit(-1)
print(e)
get_nMaxBioReps_experimentIDAndSampleNameAbbreviation_sampleDescription(self,experiment_id_I,sample_name_abbreviation_I)
self.session.query(sample_description.sample_replicate)
experiment.id.like(experiment_id_I)
experiment.sample_name.like(sample.sample_name)
sample.sample_id.like(sample_description.sample_id)
sample_description.sample_name_abbreviation.like(sample_name_abbreviation_I)
sample_description.sample_desc.like('Broth')
sample_description.sample_replicate.desc()
all()
max(bioReps[0])
print('no biological replicates found for experiment ' + experiment_id_I)
exit(-1)