/
transaction.js
256 lines (256 loc) · 12.7 KB
/
transaction.js
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
"use strict";
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
return new (P || (P = Promise))(function (resolve, reject) {
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
step((generator = generator.apply(thisArg, _arguments || [])).next());
});
};
var __generator = (this && this.__generator) || function (thisArg, body) {
var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
function verb(n) { return function (v) { return step([n, v]); }; }
function step(op) {
if (f) throw new TypeError("Generator is already executing.");
while (g && (g = 0, op[0] && (_ = 0)), _) try {
if (f = 1, y && (t = op[0] & 2 ? y["return"] : op[0] ? y["throw"] || ((t = y["return"]) && t.call(y), 0) : y.next) && !(t = t.call(y, op[1])).done) return t;
if (y = 0, t) op = [op[0] & 2, t.value];
switch (op[0]) {
case 0: case 1: t = op; break;
case 4: _.label++; return { value: op[1], done: false };
case 5: _.label++; y = op[1]; op = [0]; continue;
case 7: op = _.ops.pop(); _.trys.pop(); continue;
default:
if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
if (t[2]) _.ops.pop();
_.trys.pop(); continue;
}
op = body.call(thisArg, _);
} catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
}
};
Object.defineProperty(exports, "__esModule", { value: true });
exports.Transaction = void 0;
var auth_1 = require("./auth");
var path = require("path");
var fs = require("fs");
var fhir_1 = require("fhir/fhir");
var request = require("request");
var helper_1 = require("./helper");
var Transaction = exports.Transaction = (function () {
function Transaction(options) {
this.fhir = new fhir_1.Fhir();
this.bundles = [];
this.options = options;
}
Transaction.args = function (yargs) {
return yargs
.positional('fhirServer', {
type: 'string',
describe: 'The base url of the fhir server'
})
.option('authConfig', {
description: 'Path to the auth YML config file to use when authenticating requests to the FHIR server'
})
.option('bundle', {
array: true,
type: 'string',
demandOption: true,
description: 'Either a file or directory of JSON/XML files that are bundles to be executed as transactions on the FHIR server'
});
};
Transaction.handler = function (args) {
new Transaction(args).execute()
.then(function () { return process.exit(0); });
};
Transaction.prototype.addBundle = function (path) {
var bundleContent = fs.readFileSync(path).toString();
var bundle;
if (path.toLowerCase().endsWith('.xml')) {
bundle = this.fhir.xmlToObj(bundleContent);
}
else if (path.toLowerCase().endsWith('.json')) {
bundle = JSON.parse(bundleContent);
}
else {
throw new Error("Skipping ".concat(path, " because it is an unexpected extension"));
}
if (!bundle.type || (bundle.type !== 'batch' && bundle.type !== 'transaction')) {
bundle.type = 'batch';
}
if (!bundle.entry || bundle.entry.length === 0) {
(0, helper_1.log)("Skipping ".concat(path, " because it does not have any entries"));
return;
}
bundle.entry = bundle.entry.filter(function (entry) { return entry.request || entry.resource; });
bundle.entry.forEach(function (entry) {
if (!entry.request || !entry.request.method || !entry.request.url) {
entry.request = {
method: entry.resource.id ? 'PUT' : 'POST',
url: entry.resource.id ? "".concat(entry.resource.resourceType, "/").concat(entry.resource.id) : entry.resource.resourceType
};
}
});
this.bundles.push({
path: path,
bundle: bundle
});
};
Transaction.prototype.getBundles = function () {
var _this = this;
this.options.bundle.forEach(function (b) {
if (fs.lstatSync(b).isDirectory()) {
fs.readdirSync(b)
.filter(function (f) { return f.toLowerCase().endsWith('.xml') || f.toLowerCase().endsWith('.json'); })
.forEach(function (f) { return _this.addBundle(path.join(b, f)); });
}
else {
if (!b.toLowerCase().endsWith('.xml') && !b.toLowerCase().endsWith('.json')) {
(0, helper_1.log)("Skipping ".concat(b, " because it is not an XML or JSON file"));
return;
}
_this.addBundle(b);
}
});
};
Transaction.prototype.executeBundle = function (bundle) {
return __awaiter(this, void 0, void 0, function () {
var options;
var _this = this;
return __generator(this, function (_a) {
options = {
body: bundle,
json: true
};
this.auth.authenticateRequest(options);
return [2, new Promise(function (resolve, reject) {
try {
request.post(_this.options.fhirServer, options, function (err, res, body) {
if (err || body.resourceType === 'OperationOutcome') {
reject(err || body);
}
else {
resolve(body);
}
});
}
catch (ex) {
reject(ex);
}
})];
});
});
};
Transaction.prototype.getResponseOutcome = function (outcome) {
if (!outcome || outcome.resourceType !== 'OperationOutcome' || !outcome.issue || !outcome.issue.length) {
return '';
}
return '\n' + (outcome.issue || []).map(function (issue) {
return "** ".concat(issue.severity, ": ").concat(issue.diagnostics);
}).join('\n');
};
Transaction.prototype.logBundleResponse = function (path, results) {
var _this = this;
var goodEntries = (results.entry || []).filter(function (e) { return e.response && e.response.status && e.response.status.startsWith('2'); });
var badEntries = (results.entry || []).filter(function (e) { return !e.response || !e.response.status || !e.response.status.startsWith('2'); });
(0, helper_1.log)("Done executing ".concat(path, ". ").concat(goodEntries.length, " positive and ").concat(badEntries.length, " bad responses"));
if (badEntries.length > 0) {
var badOutput_1 = '\n';
badEntries.forEach(function (e) {
if (!e.response) {
badOutput_1 += '* No response\n';
}
else if (!e.response.status) {
badOutput_1 += '* Response without status\n';
}
else if (e.response.status) {
var outcome = _this.getResponseOutcome(e.response.outcome);
badOutput_1 += "* Response with status \"".concat(e.response.status, "\"").concat(outcome, "\n");
}
});
(0, helper_1.log)(badOutput_1);
}
};
Transaction.prototype.logOperationOutcome = function (results) {
(results.issue || []).forEach(function (issue) {
(0, helper_1.log)("".concat(issue.severity || 'ISSUE', ": ").concat(issue.diagnostics));
});
};
Transaction.prototype.execute = function () {
return __awaiter(this, void 0, void 0, function () {
var activeTransactions, _loop_1, this_1, _i, _a, bundleInfo;
var _this = this;
return __generator(this, function (_b) {
switch (_b.label) {
case 0:
this.auth = new auth_1.Auth();
return [4, this.auth.prepare(this.options.authConfig)];
case 1:
_b.sent();
this.getBundles();
activeTransactions = [];
_loop_1 = function (bundleInfo) {
var activeTransaction;
return __generator(this, function (_c) {
switch (_c.label) {
case 0:
if (!(activeTransactions.length >= (this_1.options.batchCount || 5))) return [3, 2];
return [4, Promise.race(activeTransactions)];
case 1:
_c.sent();
_c.label = 2;
case 2:
(0, helper_1.log)("Executing batch/transaction for ".concat(bundleInfo.path));
activeTransaction = this_1.executeBundle(bundleInfo.bundle)
.then(function (results) {
_this.logBundleResponse(bundleInfo.path, results);
activeTransactions.splice(activeTransactions.indexOf(activeTransaction), 1);
})
.catch(function (ex) {
activeTransactions.splice(activeTransactions.indexOf(activeTransaction), 1);
if (ex.resourceType === 'OperationOutcome') {
(0, helper_1.log)("Response is OperationOutcome executing batch/transaction ".concat(bundleInfo.path, " due to"), true);
_this.logOperationOutcome(ex);
}
else {
(0, helper_1.log)("Error executing batch/transaction ".concat(bundleInfo.path, " due to: ").concat(ex.message || ex), true);
}
});
activeTransactions.push(activeTransaction);
return [2];
}
});
};
this_1 = this;
_i = 0, _a = this.bundles;
_b.label = 2;
case 2:
if (!(_i < _a.length)) return [3, 5];
bundleInfo = _a[_i];
return [5, _loop_1(bundleInfo)];
case 3:
_b.sent();
_b.label = 4;
case 4:
_i++;
return [3, 2];
case 5: return [4, Promise.all(activeTransactions)];
case 6:
_b.sent();
(0, helper_1.log)('Done');
return [2];
}
});
});
};
Transaction.command = 'transaction <fhirServer>';
Transaction.description = 'Execute a bundle as a transaction on the destination fhirServer';
return Transaction;
}());
//# sourceMappingURL=transaction.js.map