Skip to content

Commit 4705316

Browse files
lexjansenlexjansen
authored
Merge pull request #5 from lexjansen/update-to-odm020
Update to odmlib v0.2.0
2 parents 93ffc9a + 5f320c0 commit 4705316

91 files changed

Lines changed: 31 additions & 34030 deletions

Some content is hidden

Large Commits have some content hidden by default. Use the searchbox below for content that may be hidden.

‎.vscode/launch.json‎

Lines changed: 30 additions & 30 deletions
Original file line numberDiff line numberDiff line change
@@ -13,7 +13,7 @@
1313
"program": "${file}",
1414
"console": "integratedTerminal",
1515
"justMyCode": true,
16-
// "env": {"PYTHONPATH": ".;../odmlib"}
16+
// "env": {"PYTHONPATH": ".;"}
1717
},
1818
{
1919
"name": "Python Debugger: Attach",
@@ -33,7 +33,7 @@
3333
"args": [
3434
"-ucm",
3535
],
36-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
36+
"env": { "PYTHONPATH": "${workspaceRoot};"}
3737
},
3838
{
3939
"name": "Create ADASCOGSC1 132 CRF",
@@ -47,7 +47,7 @@
4747
"--prefix",
4848
"adas-cog"
4949
],
50-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
50+
"env": { "PYTHONPATH": "${workspaceRoot};"}
5151
},
5252
{
5353
"name": "Create ADASCOGSC1 20 CRF",
@@ -61,7 +61,7 @@
6161
"--prefix",
6262
"adas-cog"
6363
],
64-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
64+
"env": { "PYTHONPATH": "${workspaceRoot};"}
6565
},
6666
{
6767
"name": "Create CES01 132 CRF",
@@ -75,7 +75,7 @@
7575
"--prefix",
7676
"CES"
7777
],
78-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
78+
"env": { "PYTHONPATH": "${workspaceRoot};"}
7979
},
8080
{
8181
"name": "Create CES01 20 CRF",
@@ -89,7 +89,7 @@
8989
"--prefix",
9090
"CES"
9191
],
92-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
92+
"env": { "PYTHONPATH": "${workspaceRoot};"}
9393
},
9494
{
9595
"name": "Create DEMOG_LZZT 132 CRF",
@@ -103,7 +103,7 @@
103103
"--prefix",
104104
"demographics"
105105
],
106-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
106+
"env": { "PYTHONPATH": "${workspaceRoot};"}
107107
},
108108
{
109109
"name": "Create DEMOG_LZZT 20 CRF",
@@ -117,7 +117,7 @@
117117
"--prefix",
118118
"demographics"
119119
],
120-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
120+
"env": { "PYTHONPATH": "${workspaceRoot};"}
121121
},
122122
{
123123
"name": "Create EC1 132 CRF",
@@ -131,7 +131,7 @@
131131
"--prefix",
132132
"study_administration"
133133
],
134-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
134+
"env": { "PYTHONPATH": "${workspaceRoot};"}
135135
},
136136
{
137137
"name": "Create EC1 20 CRF",
@@ -145,7 +145,7 @@
145145
"--prefix",
146146
"study_administration"
147147
],
148-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
148+
"env": { "PYTHONPATH": "${workspaceRoot};"}
149149
},
150150
{
151151
"name": "Create ECG1 132 CRF",
@@ -159,7 +159,7 @@
159159
"--prefix",
160160
"ecg"
161161
],
162-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
162+
"env": { "PYTHONPATH": "${workspaceRoot};"}
163163
},
164164
{
165165
"name": "Create ECG1 20 CRF",
@@ -173,7 +173,7 @@
173173
"--prefix",
174174
"ecg"
175175
],
176-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
176+
"env": { "PYTHONPATH": "${workspaceRoot};"}
177177
},
178178
{
179179
"name": "Create EQ5D02 132 CRF",
@@ -187,7 +187,7 @@
187187
"--prefix",
188188
"eq-5d-5l"
189189
],
190-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
190+
"env": { "PYTHONPATH": "${workspaceRoot};"}
191191
},
192192
{
193193
"name": "Create EQ5D02 20 CRF",
@@ -201,7 +201,7 @@
201201
"--prefix",
202202
"eq-5d-5l"
203203
],
204-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
204+
"env": { "PYTHONPATH": "${workspaceRoot};"}
205205
},
206206
{
207207
"name": "Create IE_LZZT 132 CRF",
@@ -215,7 +215,7 @@
215215
"--prefix",
216216
"inclusion_exclusion"
217217
],
218-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
218+
"env": { "PYTHONPATH": "${workspaceRoot};"}
219219
},
220220
{
221221
"name": "Create IE_LZZT 20 CRF",
@@ -229,7 +229,7 @@
229229
"--prefix",
230230
"inclusion_exclusion"
231231
],
232-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
232+
"env": { "PYTHONPATH": "${workspaceRoot};"}
233233
},
234234
{
235235
"name": "Create KFSS01 132 CRF",
@@ -243,7 +243,7 @@
243243
"--prefix",
244244
"KFSS"
245245
],
246-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
246+
"env": { "PYTHONPATH": "${workspaceRoot};"}
247247
},
248248
{
249249
"name": "Create KFSS01 20 CRF",
@@ -257,7 +257,7 @@
257257
"--prefix",
258258
"KFSS"
259259
],
260-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
260+
"env": { "PYTHONPATH": "${workspaceRoot};"}
261261
},
262262
{
263263
"name": "Create MH_LZZT 132 CRF",
@@ -271,7 +271,7 @@
271271
"--prefix",
272272
"medical_history"
273273
],
274-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
274+
"env": { "PYTHONPATH": "${workspaceRoot};"}
275275
},
276276
{
277277
"name": "Create MH_LZZT 20 CRF",
@@ -285,7 +285,7 @@
285285
"--prefix",
286286
"medical_history"
287287
],
288-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
288+
"env": { "PYTHONPATH": "${workspaceRoot};"}
289289
},
290290
{
291291
"name": "Create PR_LZZT 132 CRF",
@@ -299,7 +299,7 @@
299299
"--prefix",
300300
"procedures"
301301
],
302-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
302+
"env": { "PYTHONPATH": "${workspaceRoot};"}
303303
},
304304
{
305305
"name": "Create PR_LZZT 20 CRF",
@@ -313,7 +313,7 @@
313313
"--prefix",
314314
"procedures"
315315
],
316-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
316+
"env": { "PYTHONPATH": "${workspaceRoot};"}
317317
},
318318
{
319319
"name": "Create SC_LZZT 132 CRF",
@@ -327,7 +327,7 @@
327327
"--prefix",
328328
"subject_characteristics"
329329
],
330-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
330+
"env": { "PYTHONPATH": "${workspaceRoot};"}
331331
},
332332
{
333333
"name": "Create SC_LZZT 20 CRF",
@@ -341,7 +341,7 @@
341341
"--prefix",
342342
"subject_characteristics"
343343
],
344-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
344+
"env": { "PYTHONPATH": "${workspaceRoot};"}
345345
},
346346
{
347347
"name": "Create SIXMW1 132 CRF",
@@ -355,7 +355,7 @@
355355
"--prefix",
356356
"six_minute_walk"
357357
],
358-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
358+
"env": { "PYTHONPATH": "${workspaceRoot};"}
359359
},
360360
{
361361
"name": "Create SIXMW1 20 CRF",
@@ -369,7 +369,7 @@
369369
"--prefix",
370370
"six_minute_walk"
371371
],
372-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
372+
"env": { "PYTHONPATH": "${workspaceRoot};"}
373373
},
374374
{
375375
"name": "Create SU_LZZT 132 CRF",
@@ -383,7 +383,7 @@
383383
"--prefix",
384384
"substance_use"
385385
],
386-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
386+
"env": { "PYTHONPATH": "${workspaceRoot};"}
387387
},
388388
{
389389
"name": "Create SU_LZZT 20 CRF",
@@ -397,7 +397,7 @@
397397
"--prefix",
398398
"substance_use"
399399
],
400-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
400+
"env": { "PYTHONPATH": "${workspaceRoot};"}
401401
},
402402
{
403403
"name": "Create VS1 132 CRF",
@@ -411,7 +411,7 @@
411411
"--prefix",
412412
"vital_signs"
413413
],
414-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
414+
"env": { "PYTHONPATH": "${workspaceRoot}"}
415415
},
416416
{
417417
"name": "Create VS1 20 CRF",
@@ -425,7 +425,7 @@
425425
"--prefix",
426426
"vital_signs"
427427
],
428-
"env": { "PYTHONPATH": "${workspaceRoot};../odmlib"}
428+
"env": { "PYTHONPATH": "${workspaceRoot}"}
429429
}
430430
],
431431
"compounds": [

‎README.md‎

Lines changed: 0 additions & 4 deletions
Original file line numberDiff line numberDiff line change
@@ -42,10 +42,6 @@ The scripts use the [odmlib](https://pypi.org/project/odmlib/) Python library. A
4242
- cdisc_crf_specializations_draft.xlsx: CRF Specialization metadata. Generated from the draft CDISC CRF Specializations (see: [https://github.com/cdisc-org/COSMoS/tree/main/curation/draft](https://github.com/cdisc-org/COSMoS/tree/main/curation/draft)).
4343
- cdisc_crf_specilizations_forms.xlsx: Forms metadata.
4444

45-
**odmlib**:
46-
47-
- Updates to the [odmlib](https://pypi.org/project/odmlib/) library to support the final ODM v2.0 schema. These updates are intended to be merged with the odmlib library at [https://github.com/swhume/odmlib](https://github.com/swhume/odmlib).
48-
4945
**schema**:
5046

5147
- XML Schema files to validate ODM XML v1.3.2 and v2.0 files.

‎odmlib/__init__.py‎

Lines changed: 0 additions & 45 deletions
This file was deleted.

‎odmlib/__init__.pyi‎

Lines changed: 0 additions & 7 deletions
This file was deleted.

0 commit comments

Comments
 (0)