-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathProjectApi.py
271 lines (183 loc) · 10.6 KB
/
ProjectApi.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
#!/usr/bin/env python
"""
WordAPI.py
Copyright 2014 Wordnik, Inc.
Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.
NOTE: This class is auto generated by the swagger code generator program. Do not edit the class manually.
"""
import sys
import os
from models import *
class ProjectApi(object):
def __init__(self, apiClient):
self.apiClient = apiClient
def getProjectSummary(self, projectAccession, **kwargs):
"""retrieve project information by accession
Args:
projectAccession, str: a project accession number (example: PXD000001) (required)
Returns: ProjectDetail
"""
allParams = ['projectAccession']
params = locals()
for (key, val) in params['kwargs'].iteritems():
if key not in allParams:
raise TypeError("Got an unexpected keyword argument '%s' to method getProjectSummary" % key)
params[key] = val
del params['kwargs']
resourcePath = '/project/{projectAccession}'
resourcePath = resourcePath.replace('{format}', 'json')
method = 'GET'
queryParams = {}
headerParams = {}
formParams = {}
bodyParam = None
if ('projectAccession' in params):
replacement = str(self.apiClient.toPathValue(params['projectAccession']))
resourcePath = resourcePath.replace('{' + 'projectAccession' + '}',
replacement)
if formParams:
headerParams['Content-type'] = 'application/x-www-form-urlencoded'
postData = (formParams if formParams else bodyParam)
response = self.apiClient.callAPI(resourcePath, method, queryParams,
postData, headerParams)
if not response:
return None
return response
responseObject = self.apiClient.deserialize(response, 'ProjectDetail')
return responseObject
def simpleSearchProjects(self, show= None, page= None, order= None, **kwargs):
"""list projects for given criteria
Args:
query, str: search term to query for (example: stress) (optional)
sort, str: the field to sort on (e.g. score, publication_date, id or project_title) (optional)
speciesFilter, list[str]: filter by species (NCBI taxon ID, example: 9606 for human) (optional)
ptmsFilter, list[str]: filter by PTM annotation (example: phosphorylation) (optional)
tissueFilter, list[str]: filter by tissue annotation (example: brain) (optional)
diseaseFilter, list[str]: filter by disease annotation (example: cancer) (optional)
titleFilter, list[str]: filter the title for keywords (example: stress) (optional)
instrumentFilter, list[str]: filter for instrument names or keywords (example: ltq) (optional)
experimentTypeFilter, list[str]: filter by experiment type (example: shotgun) (optional)
quantificationFilter, list[str]: filter by quantification annotation (example: label-free) (optional)
projectTagFilter, list[str]: filter by project tags (example: Biomedical) (optional)
show, int: how many results to return per page (required)
page, int: which page (starting from 0) of the result to return (required)
order, str: the sorting order (asc or desc) (required)
Returns: ProjectSummaryList
"""
allParams = ['query', 'sort', 'speciesFilter', 'ptmsFilter', 'tissueFilter', 'diseaseFilter', 'titleFilter', 'instrumentFilter', 'experimentTypeFilter', 'quantificationFilter', 'projectTagFilter', 'show', 'page', 'order']
params = locals()
for (key, val) in params['kwargs'].iteritems():
if key not in allParams:
raise TypeError("Got an unexpected keyword argument '%s' to method simpleSearchProjects" % key)
params[key] = val
del params['kwargs']
resourcePath = '/project/list'
resourcePath = resourcePath.replace('{format}', 'json')
method = 'GET'
queryParams = {}
headerParams = {}
formParams = {}
bodyParam = None
if ('query' in params):
queryParams['query'] = self.apiClient.toPathValue(params['query'])
if ('show' in params):
queryParams['show'] = self.apiClient.toPathValue(params['show'])
if ('page' in params):
queryParams['page'] = self.apiClient.toPathValue(params['page'])
if ('sort' in params):
queryParams['sort'] = self.apiClient.toPathValue(params['sort'])
if ('order' in params):
queryParams['order'] = self.apiClient.toPathValue(params['order'])
if ('speciesFilter' in params):
queryParams['speciesFilter'] = self.apiClient.toPathValue(params['speciesFilter'])
if ('ptmsFilter' in params):
queryParams['ptmsFilter'] = self.apiClient.toPathValue(params['ptmsFilter'])
if ('tissueFilter' in params):
queryParams['tissueFilter'] = self.apiClient.toPathValue(params['tissueFilter'])
if ('diseaseFilter' in params):
queryParams['diseaseFilter'] = self.apiClient.toPathValue(params['diseaseFilter'])
if ('titleFilter' in params):
queryParams['titleFilter'] = self.apiClient.toPathValue(params['titleFilter'])
if ('instrumentFilter' in params):
queryParams['instrumentFilter'] = self.apiClient.toPathValue(params['instrumentFilter'])
if ('experimentTypeFilter' in params):
queryParams['experimentTypeFilter'] = self.apiClient.toPathValue(params['experimentTypeFilter'])
if ('quantificationFilter' in params):
queryParams['quantificationFilter'] = self.apiClient.toPathValue(params['quantificationFilter'])
if ('projectTagFilter' in params):
queryParams['projectTagFilter'] = self.apiClient.toPathValue(params['projectTagFilter'])
if formParams:
headerParams['Content-type'] = 'application/x-www-form-urlencoded'
postData = (formParams if formParams else bodyParam)
response = self.apiClient.callAPI(resourcePath, method, queryParams,
postData, headerParams)
if not response:
return None
responseObject = self.apiClient.deserialize(response, 'ProjectSummaryList')
return responseObject
def countSearchProjects(self, **kwargs):
"""count projects for given criteria
Args:
query, str: search term to query for (example: stress) (optional)
speciesFilter, list[str]: filter by species (NCBI taxon ID, example: 9606 for human) (optional)
ptmsFilter, list[str]: filter by PTM annotation (example: phosphorylation) (optional)
tissueFilter, list[str]: filter by tissue annotation (example: brain) (optional)
diseaseFilter, list[str]: filter by disease annotation (example: cancer) (optional)
titleFilter, list[str]: filter the title for keywords (example: stress) (optional)
instrumentFilter, list[str]: filter for instrument names or keywords (example: ltq) (optional)
experimentTypeFilter, list[str]: filter by experiment type (example: shotgun) (optional)
quantificationFilter, list[str]: filter by quantification annotation (example: label-free) (optional)
projectTagFilter, list[str]: filter by project tags (example: Biomedical) (optional)
Returns: long
"""
allParams = ['query', 'speciesFilter', 'ptmsFilter', 'tissueFilter', 'diseaseFilter', 'titleFilter', 'instrumentFilter', 'experimentTypeFilter', 'quantificationFilter', 'projectTagFilter']
params = locals()
for (key, val) in params['kwargs'].iteritems():
if key not in allParams:
raise TypeError("Got an unexpected keyword argument '%s' to method countSearchProjects" % key)
params[key] = val
del params['kwargs']
resourcePath = '/project/count'
resourcePath = resourcePath.replace('{format}', 'json')
method = 'GET'
queryParams = {}
headerParams = {}
formParams = {}
bodyParam = None
if ('query' in params):
queryParams['query'] = self.apiClient.toPathValue(params['query'])
if ('speciesFilter' in params):
queryParams['speciesFilter'] = self.apiClient.toPathValue(params['speciesFilter'])
if ('ptmsFilter' in params):
queryParams['ptmsFilter'] = self.apiClient.toPathValue(params['ptmsFilter'])
if ('tissueFilter' in params):
queryParams['tissueFilter'] = self.apiClient.toPathValue(params['tissueFilter'])
if ('diseaseFilter' in params):
queryParams['diseaseFilter'] = self.apiClient.toPathValue(params['diseaseFilter'])
if ('titleFilter' in params):
queryParams['titleFilter'] = self.apiClient.toPathValue(params['titleFilter'])
if ('instrumentFilter' in params):
queryParams['instrumentFilter'] = self.apiClient.toPathValue(params['instrumentFilter'])
if ('experimentTypeFilter' in params):
queryParams['experimentTypeFilter'] = self.apiClient.toPathValue(params['experimentTypeFilter'])
if ('quantificationFilter' in params):
queryParams['quantificationFilter'] = self.apiClient.toPathValue(params['quantificationFilter'])
if ('projectTagFilter' in params):
queryParams['projectTagFilter'] = self.apiClient.toPathValue(params['projectTagFilter'])
if formParams:
headerParams['Content-type'] = 'application/x-www-form-urlencoded'
postData = (formParams if formParams else bodyParam)
response = self.apiClient.callAPI(resourcePath, method, queryParams,
postData, headerParams)
if not response:
return None
responseObject = self.apiClient.deserialize(response, 'long')
return responseObject