def test_sample_template_summary_get_req_no_access(self):
obs = sample_template_summary_get_req(1, '*****@*****.**')
exp = {
'status': 'error',
'message': 'User does not have access to study'
}
self.assertEqual(obs, exp)
def test_sample_template_summary_get_req_no_access(self):
obs = sample_template_summary_get_req(1, "*****@*****.**")
exp = {"status": "error", "message": "User does not have access to study"}
self.assertEqual(obs, exp)
def test_sample_template_summary_get_req(self):
obs = sample_template_summary_get_req(1, "*****@*****.**")
exp = {
"status": "success",
"alert_message": "",
"alert_type": "",
"stats": {
"physical_specimen_location": [("ANL", 27)],
"texture": [
("63.1 sand, 17.7 silt, 19.2 clay", 9),
("64.6 sand, 17.6 silt, 17.8 clay", 9),
("66 sand, 16.3 silt, 17.7 clay", 9),
],
"common_name": [("rhizosphere metagenome", 9), ("root metagenome", 9), ("soil metagenome", 9)],
"water_content_soil": [("0.101", 9), ("0.164", 9), ("0.178", 9)],
"env_feature": [("ENVO:plant-associated habitat", 27)],
"assigned_from_geo": [("n", 27)],
"altitude": [("0", 27)],
"tot_org_carb": [("3.31", 9), ("4.32", 9), ("5", 9)],
"env_biome": [("ENVO:Temperate grasslands, savannas, and " "shrubland biome", 27)],
"sample_type": [("ENVO:soil", 27)],
"scientific_name": [("1118232", 27)],
"host_taxid": [("3483", 27)],
"latitude": [
("0.291867635913", 1),
("3.21190859967", 1),
("4.59216095574", 1),
("10.6655599093", 1),
("12.6245524972", 1),
("12.7065957714", 1),
("13.089194595", 1),
("23.1218032799", 1),
("29.1499460692", 1),
("35.2374368957", 1),
("38.2627021402", 1),
("40.8623799474", 1),
("43.9614715197", 1),
("44.9725384282", 1),
("53.5050692395", 1),
("57.571893782", 1),
("60.1102854322", 1),
("68.0991287718", 1),
("68.51099627", 1),
("74.0894932572", 1),
("78.3634273709", 1),
("82.8302905615", 1),
("84.0030227585", 1),
("85.4121476399", 1),
("95.2060749748", 1),
("Not applicable", 2),
],
"ph": [("6.8", 9), ("6.82", 10), ("6.94", 8)],
"description_duplicate": [
("Bucu Rhizo", 3),
("Bucu Roots", 3),
("Bucu bulk", 3),
("Burmese Rhizo", 3),
("Burmese bulk", 3),
("Burmese root", 3),
("Diesel Rhizo", 3),
("Diesel Root", 3),
("Diesel bulk", 3),
],
"elevation": [("114", 27)],
"description": [("Cannabis Soil Microbiome", 27)],
"collection_timestamp": [("11/11/11 13:00:00", 27)],
"physical_specimen_remaining": [("true", 27)],
"dna_extracted": [("true", 27)],
"taxon_id": [("410658", 9), ("939928", 9), ("1118232", 9)],
"samp_salinity": [("7.1", 9), ("7.15", 9), ("7.44", 9)],
"host_subject_id": [
("1001:B1", 1),
("1001:B2", 1),
("1001:B3", 1),
("1001:B4", 1),
("1001:B5", 1),
("1001:B6", 1),
("1001:B7", 1),
("1001:B8", 1),
("1001:B9", 1),
("1001:D1", 1),
("1001:D2", 1),
("1001:D3", 1),
("1001:D4", 1),
("1001:D5", 1),
("1001:D6", 1),
("1001:D7", 1),
("1001:D8", 1),
("1001:D9", 1),
("1001:M1", 1),
("1001:M2", 1),
("1001:M3", 1),
("1001:M4", 1),
("1001:M5", 1),
("1001:M6", 1),
("1001:M7", 1),
("1001:M8", 1),
("1001:M9", 1),
],
"temp": [("15", 27)],
"country": [("GAZ:United States of America", 27)],
"longitude": [
("2.35063674718", 1),
("3.48274264219", 1),
("6.66444220187", 1),
("15.6526750776", 1),
("26.8138925876", 1),
("27.3592668624", 1),
("31.2003474585", 1),
("31.6056761814", 1),
("32.5563076447", 1),
("34.8360987059", 1),
("42.838497795", 1),
("63.5115213108", 1),
("65.3283470202", 1),
("66.1920014699", 1),
("66.8954849864", 1),
("68.5041623253", 1),
("68.5945325743", 1),
("70.784770579", 1),
("74.423907894", 1),
("74.7123248382", 1),
("82.1270418227", 1),
("82.8516734159", 1),
("84.9722975792", 1),
("86.3615778099", 1),
("92.5274472082", 1),
("96.0693176066", 1),
("Not applicable", 1),
],
"tot_nitro": [("1.3", 9), ("1.41", 9), ("1.51", 9)],
"depth": [("0.15", 27)],
"qiita_study_id": [("1", 27)],
"anonymized_name": [
("SKB1", 1),
("SKB2", 1),
("SKB3", 1),
("SKB4", 1),
("SKB5", 1),
("SKB6", 1),
("SKB7", 1),
("SKB8", 1),
("SKB9", 1),
("SKD1", 1),
("SKD2", 1),
("SKD3", 1),
("SKD4", 1),
("SKD5", 1),
("SKD6", 1),
("SKD7", 1),
("SKD8", 1),
("SKD9", 1),
("SKM1", 1),
("SKM2", 1),
("SKM3", 1),
("SKM4", 1),
("SKM5", 1),
("SKM6", 1),
("SKM7", 1),
("SKM8", 1),
("SKM9", 1),
],
},
"num_samples": 27,
"message": "",
"num_columns": 30,
"editable": True,
}
self.assertItemsEqual(obs, exp) # Test the keys
obs_stats = obs.pop("stats")
exp_stats = exp.pop("stats")
for k in obs:
self.assertEqual(obs[k], exp[k])
self.assertItemsEqual(obs_stats, exp_stats) # Test the keys
for k in obs_stats:
self.assertItemsEqual(obs_stats[k], exp_stats[k])
def test_sample_template_summary_get_req(self):
obs = sample_template_summary_get_req(1, '*****@*****.**')
exp = {
'stats': {
'physical_specimen_location': [('ANL', 27)],
'texture': [('63.1 sand, 17.7 silt, 19.2 clay', 9),
('64.6 sand, 17.6 silt, 17.8 clay', 9),
('66 sand, 16.3 silt, 17.7 clay', 9)],
'common_name': [('rhizosphere metagenome', 9),
('root metagenome', 9),
('soil metagenome', 9)],
'water_content_soil': [('0.101', 9), ('0.164', 9),
('0.178', 9)],
'env_feature': [('ENVO:plant-associated habitat', 27)],
'assigned_from_geo': [('n', 27)],
'altitude': [('0.0', 27)],
'tot_org_carb': [('3.31', 9), ('4.32', 9), ('5.0', 9)],
'env_biome':
[('ENVO:Temperate grasslands, savannas, and shrubland'
' biome', 27)],
'sample_type': [('ENVO:soil', 27)],
'scientific_name': [('1118232', 27)],
'host_taxid': [('3483', 27)],
'latitude': [('0.291867635913', 1), ('3.21190859967', 1),
('4.59216095574', 1), ('10.6655599093', 1),
('12.6245524972', 1), ('12.7065957714', 1),
('13.089194595', 1), ('23.1218032799', 1),
('29.1499460692', 1), ('35.2374368957', 1),
('38.2627021402', 1), ('40.8623799474', 1),
('43.9614715197', 1), ('44.9725384282', 1),
('53.5050692395', 1), ('57.571893782', 1),
('60.1102854322', 1), ('68.0991287718', 1),
('68.51099627', 1), ('74.0894932572', 1),
('78.3634273709', 1), ('82.8302905615', 1),
('84.0030227585', 1), ('85.4121476399', 1),
('95.2060749748', 1)],
'ph': [('6.8', 9), ('6.82', 10), ('6.94', 8)],
'description_duplicate': [('Bucu Rhizo', 3), ('Bucu Roots', 3),
('Bucu bulk', 3),
('Burmese Rhizo', 3),
('Burmese bulk', 3),
('Burmese root', 3),
('Diesel Rhizo', 3),
('Diesel Root', 3),
('Diesel bulk', 3)],
'elevation': [('114.0', 27)],
'description': [('Cannabis Soil Microbiome', 27)],
'collection_timestamp': [('2011-11-11 13:00:00', 27)],
'physical_specimen_remaining': [('True', 27)],
'dna_extracted': [('True', 27)],
'taxon_id': [('410658', 9), ('939928', 9), ('1118232', 9)],
'samp_salinity': [('7.1', 9), ('7.15', 9), ('7.44', 9)],
'host_subject_id': [('1001:B1', 1), ('1001:B2', 1),
('1001:B3', 1), ('1001:B4', 1),
('1001:B5', 1), ('1001:B6', 1),
('1001:B7', 1), ('1001:B8', 1),
('1001:B9', 1), ('1001:D1', 1),
('1001:D2', 1), ('1001:D3', 1),
('1001:D4', 1), ('1001:D5', 1),
('1001:D6', 1), ('1001:D7', 1),
('1001:D8', 1), ('1001:D9', 1),
('1001:M1', 1), ('1001:M2', 1),
('1001:M3', 1), ('1001:M4', 1),
('1001:M5', 1), ('1001:M6', 1),
('1001:M7', 1), ('1001:M8', 1),
('1001:M9', 1)],
'season_environment': [('winter', 27)],
'temp': [('15.0', 27)],
'country': [('GAZ:United States of America', 27)],
'longitude': [('2.35063674718', 1), ('3.48274264219', 1),
('6.66444220187', 1), ('15.6526750776', 1),
('26.8138925876', 1), ('27.3592668624', 1),
('31.2003474585', 1), ('31.6056761814', 1),
('32.5563076447', 1), ('34.8360987059', 1),
('42.838497795', 1), ('63.5115213108', 1),
('65.3283470202', 1), ('66.1920014699', 1),
('66.8954849864', 1), ('68.5041623253', 1),
('68.5945325743', 1), ('70.784770579', 1),
('74.423907894', 1), ('74.7123248382', 1),
('82.1270418227', 1), ('82.8516734159', 1),
('84.9722975792', 1), ('86.3615778099', 1),
('92.5274472082', 1), ('96.0693176066', 1)],
'tot_nitro': [('1.3', 9), ('1.41', 9), ('1.51', 9)],
'depth': [('0.15', 27)],
'anonymized_name': [('SKB1', 1), ('SKB2', 1), ('SKB3', 1),
('SKB4', 1), ('SKB5', 1), ('SKB6', 1),
('SKB7', 1), ('SKB8', 1), ('SKB9', 1),
('SKD1', 1), ('SKD2', 1), ('SKD3', 1),
('SKD4', 1), ('SKD5', 1), ('SKD6', 1),
('SKD7', 1), ('SKD8', 1), ('SKD9', 1),
('SKM1', 1), ('SKM2', 1), ('SKM3', 1),
('SKM4', 1), ('SKM5', 1), ('SKM6', 1),
('SKM7', 1), ('SKM8', 1), ('SKM9', 1)]
},
'num_samples': 27,
'num_columns': 30,
'editable': True,
'status': 'success',
'message': '',
'alert_type': '',
'alert_message': ''
}
self.assertEqual(obs, exp)
def test_sample_template_summary_get_req_no_access(self):
obs = sample_template_summary_get_req(1, '*****@*****.**')
exp = {'status': 'error',
'message': 'User does not have access to study'}
self.assertEqual(obs, exp)
def test_sample_template_summary_get_req(self):
obs = sample_template_summary_get_req(1, '*****@*****.**')
exp = {'stats': {
'physical_specimen_location': [('ANL', 27)],
'texture': [('63.1 sand, 17.7 silt, 19.2 clay', 9),
('64.6 sand, 17.6 silt, 17.8 clay', 9),
('66 sand, 16.3 silt, 17.7 clay', 9)],
'common_name': [('rhizosphere metagenome', 9),
('root metagenome', 9), ('soil metagenome', 9)],
'water_content_soil': [('0.101', 9), ('0.164', 9), ('0.178', 9)],
'env_feature': [('ENVO:plant-associated habitat', 27)],
'assigned_from_geo': [('n', 27)], 'altitude': [('0', 27)],
'tot_org_carb': [('3.31', 9), ('4.32', 9), ('5', 9)],
'env_biome': [('ENVO:Temperate grasslands, savannas, and shrubland'
' biome', 27)],
'sample_type': [('ENVO:soil', 27)],
'scientific_name': [('1118232', 27)],
'host_taxid': [('3483', 27)],
'latitude': [('0.291867635913', 1), ('3.21190859967', 1),
('4.59216095574', 1), ('10.6655599093', 1),
('12.6245524972', 1), ('12.7065957714', 1),
('13.089194595', 1), ('23.1218032799', 1),
('29.1499460692', 1), ('35.2374368957', 1),
('38.2627021402', 1), ('40.8623799474', 1),
('43.9614715197', 1), ('44.9725384282', 1),
('53.5050692395', 1), ('57.571893782', 1),
('60.1102854322', 1), ('68.0991287718', 1),
('68.51099627', 1), ('74.0894932572', 1),
('78.3634273709', 1), ('82.8302905615', 1),
('84.0030227585', 1), ('85.4121476399', 1),
('95.2060749748', 1), ('Not applicable', 2)],
'ph': [('6.8', 9), ('6.82', 10), ('6.94', 8)],
'description_duplicate': [('Bucu Rhizo', 3), ('Bucu Roots', 3),
('Bucu bulk', 3), ('Burmese Rhizo', 3),
('Burmese bulk', 3), ('Burmese root', 3),
('Diesel Rhizo', 3), ('Diesel Root', 3),
('Diesel bulk', 3)],
'elevation': [('114', 27)],
'description': [('Cannabis Soil Microbiome', 27)],
'collection_timestamp': [('11/11/11 13:00:00', 27)],
'physical_specimen_remaining': [('true', 27)],
'dna_extracted': [('true', 27)],
'taxon_id': [('410658', 9), ('939928', 9), ('1118232', 9)],
'samp_salinity': [('7.1', 9), ('7.15', 9), ('7.44', 9)],
'host_subject_id': [('1001:B1', 1), ('1001:B2', 1), ('1001:B3', 1),
('1001:B4', 1), ('1001:B5', 1), ('1001:B6', 1),
('1001:B7', 1), ('1001:B8', 1), ('1001:B9', 1),
('1001:D1', 1), ('1001:D2', 1), ('1001:D3', 1),
('1001:D4', 1), ('1001:D5', 1), ('1001:D6', 1),
('1001:D7', 1), ('1001:D8', 1), ('1001:D9', 1),
('1001:M1', 1), ('1001:M2', 1), ('1001:M3', 1),
('1001:M4', 1), ('1001:M5', 1), ('1001:M6', 1),
('1001:M7', 1), ('1001:M8', 1), ('1001:M9', 1)
],
'season_environment': [('winter', 27)],
'temp': [('15', 27)],
'country': [('GAZ:United States of America', 27)],
'longitude': [('2.35063674718', 1), ('3.48274264219', 1),
('6.66444220187', 1), ('15.6526750776', 1),
('26.8138925876', 1), ('27.3592668624', 1),
('31.2003474585', 1), ('31.6056761814', 1),
('32.5563076447', 1), ('34.8360987059', 1),
('42.838497795', 1), ('63.5115213108', 1),
('65.3283470202', 1), ('66.1920014699', 1),
('66.8954849864', 1), ('68.5041623253', 1),
('68.5945325743', 1), ('70.784770579', 1),
('74.423907894', 1), ('74.7123248382', 1),
('82.1270418227', 1), ('82.8516734159', 1),
('84.9722975792', 1), ('86.3615778099', 1),
('92.5274472082', 1), ('96.0693176066', 1),
('Not applicable', 1)],
'tot_nitro': [('1.3', 9), ('1.41', 9), ('1.51', 9)],
'depth': [('0.15', 27)],
'anonymized_name': [('SKB1', 1), ('SKB2', 1), ('SKB3', 1),
('SKB4', 1), ('SKB5', 1), ('SKB6', 1),
('SKB7', 1), ('SKB8', 1), ('SKB9', 1),
('SKD1', 1), ('SKD2', 1), ('SKD3', 1),
('SKD4', 1), ('SKD5', 1), ('SKD6', 1),
('SKD7', 1), ('SKD8', 1), ('SKD9', 1),
('SKM1', 1), ('SKM2', 1), ('SKM3', 1),
('SKM4', 1), ('SKM5', 1), ('SKM6', 1),
('SKM7', 1), ('SKM8', 1), ('SKM9', 1)]},
'num_samples': 27,
'num_columns': 30,
'editable': True,
'status': 'success',
'message': '',
'alert_type': '',
'alert_message': ''}
self.assertEqual(obs, exp)
