507cac3127
Respect prefer header on transaction processing
2017-06-16 09:52:12 -04:00
40a70b874c
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-06-16 09:49:06 -04:00
d40c5fa5e3
Add DAO setting to specify maximum query size
2017-06-16 09:41:45 -04:00
69849dd3c5
Optimize queries in JPA
2017-06-14 08:35:41 -04:00
d59b832e74
Merge branch 'master' into minute_precision_in_searchparams
2017-06-12 11:50:01 -04:00
a50a86d9af
Fix crash in JPA server if numeric search parameter has no value
2017-06-11 09:16:48 -04:00
404037b441
Fix some compile issues
2017-06-09 19:37:11 -04:00
c2e5fa3f18
Fix #667 - When using the AuthorizationInterceptor with the JPA server, when a client is updating a resource from A to B, the user now needs to have write permission for both A and B
2017-06-09 11:48:17 -04:00
14edc79ac1
Version bump to 2.6-SNAPSHOT
2017-06-09 07:28:29 -04:00
8b5209ff67
Version bump to 2.5
2017-06-08 06:34:44 -04:00
b6e9a753ca
Merge pull request #660 from HHSIDEAlab/fix-race-condition-in-if-none-exists
...
Hacky but workable fix for race condition surfaced by If-None-Exists creates
2017-06-07 21:51:05 -04:00
4caa5dfa8d
Merge pull request #656 from aehrc/feature/scalable_searchbuilder
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Improve SearchBuilder query generation for code:modifier searches
2017-06-07 21:35:50 -04:00
7c6bb01a8b
Don't allow JPA server to save duplicate or empty tags, and fix #664 by
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preventing multiple threads from loading structure definitions for
validation at the same time
2017-06-06 16:44:13 -04:00
aa134fc423
Hacky but workable fix for race condition surfaced by If-None-Exists creates.
...
Some notes from other attempts I made to fix this in a less hacky way:
* Tried to @Autowire myResourceDaos from a setter (rather than using the annotation on a field), and initialize myResourceTypeToDao in that setter, instead. Couldn't get it to work: Spring started throwing odd bean dependency errors. Don't really understand why.
* Tried to move the exceptions being thrown on null getDao(Class) results into that method, but that was breaking a test case. Didn't investigate why.
2017-06-01 03:17:38 -04:00
52a5fcce17
Adding logging
2017-05-30 15:39:33 -04:00
97c83cd8f0
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-05-30 10:05:34 -04:00
3db4091601
Add a null check
2017-05-30 10:05:27 -04:00
6d59b0f5e0
Indexing logging
2017-05-30 10:01:33 -04:00
d0a927ae3f
use disj. of AND and IN for code:modifier searches
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Without this, OR conditions with too many disjuncts are generated which can lead to
failures in the underlying database code generation.
2017-05-29 14:57:16 +10:00
ba40f44d27
Properly index decimal datatype
2017-05-26 06:39:38 -04:00
2fa7aedf63
Fixed the resource type comparison to not use startsWith
2017-05-25 16:47:09 -07:00
b96932a5c5
Fix dependency on new version of commons-codec
2017-05-25 15:24:47 -04:00
e2b329382a
Add some logging to searches
2017-05-25 08:31:29 -04:00
32de48f392
Fix broken tests
2017-05-24 15:50:53 -04:00
5bdd10c7ab
Include patient in $everything even if there are no other resources
2017-05-24 14:24:01 -04:00
3f712fdf8a
POM updates
2017-05-22 17:25:05 -04:00
d54b62ffe4
Fix compile errors
2017-05-22 16:42:51 -04:00
1ec180628f
JPA server now has configurable properties that allow referential integrity to be disabled for both writes and deletes. This is useful in some cases where data integrity is not wanted or not possible. It can also be useful if you want to delete large amounts interconnected data quickly.
2017-05-22 15:34:44 -04:00
a834770e38
A bit more cleanup for #646
2017-05-22 08:13:00 -04:00
b71ba86a3a
Update copyright per plugin
2017-05-21 16:37:27 -04:00
a13247ad4b
Updates for #646
...
Squashed commit of the following:
commit 9d6d5e92dabb75c4eb185b061d20f487b8856795
Author: James <jamesagnew@gmail.com>
Date: Sun May 21 15:27:26 2017 -0400
Get subscriptions working
commit 6bccdd7594f0a4f802212e11cc823f7a92dd9a5c
Author: James Agnew <jamesagnew@gmail.com>
Date: Sun May 21 14:37:40 2017 -0400
Work on subscription
commit 129f4c9d0d1e6c8fa56dbc5cf78a34c1d6659705
Author: James <jamesagnew@gmail.com>
Date: Sat May 20 19:58:11 2017 -0400
Work on merging subscription
2017-05-21 15:28:08 -04:00
5ef8b70a1f
Merge branch 'master' into master
2017-05-20 18:25:02 -04:00
20c14fe8a6
Make sure we don't update unchanged resources in a transaction
2017-05-20 17:55:09 -04:00
f6ee4db598
Process :missing qualifier on date params
2017-05-19 20:36:06 -04:00
7a24bff0eb
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-05-19 17:15:07 -04:00
a7bb01393a
Add tests
2017-05-19 17:14:50 -04:00
2143c6906b
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-05-19 10:13:45 -04:00
7c48eadf38
Add tests
2017-05-19 06:50:01 -04:00
8701e3ad61
Change millis to int for stopwatch
2017-05-18 22:06:40 -04:00
9ea8e7822a
More fixes for chaining on custom search params
2017-05-18 17:16:30 -04:00
d58a9e7ed4
Further fixes to searching on a chained value
2017-05-18 10:48:05 -04:00
a92d80d860
Correctly encode extensions on the root of a resource with type
...
reference
2017-05-17 12:40:10 -04:00
7bb9e5edd9
Custom search parameters could not chain an extension param
2017-05-17 10:46:22 -04:00
5ac91bfb94
Add a test for custom params
2017-05-17 08:19:11 -04:00
b2996d3550
Fix interceptor behaviour
2017-05-15 23:12:50 -04:00
d87b4f2062
Re-enable daoconfig interceptors
2017-05-15 22:11:29 -04:00
da2d7c3bc3
Clean up testpage overlay
2017-05-14 11:27:52 -04:00
5b282c3b25
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-05-14 06:39:37 -04:00
897c65e818
CLI and HttpClient cleanup
2017-05-14 06:39:23 -04:00
cf2d38498d
Header update
2017-05-10 02:12:22 -04:00
95659bed3a
Fix tests
2017-05-10 08:11:23 +02:00
663125fe94
Resthook subscription implementation, event driven websocket subscription implementation, Tminus subscription support, notification on delete
2017-05-09 15:08:59 -07:00
579e5da5ff
Make sure we reuse searches
2017-05-09 11:47:05 +02:00
262e39e57a
Work on term
2017-05-06 11:41:30 +02:00
ef772547c3
Fix an issue in the JPA server if a resource has been previously saved containing vocabulary that is no longer valid. This only really happened if you were using a non-final version of FHIR (e.g. using DSTU3 before it was finalized) but if you were in this situation, upgrading HAPI could cause you to have old codes that no longer exist in your database. This fix prevents these from blocking you from accesing those resources.
2017-05-06 10:51:17 +02:00
e53d747f2b
Get large searches working on Oracle
2017-05-05 15:45:45 +02:00
3780248a2f
Update JPA defs based on new unit test
2017-05-04 06:56:28 -04:00
fdd82e0b2a
Shorten column names in Search table for JPA
2017-05-04 05:51:02 -04:00
c5c6c5eff6
Fix deadlock regression in JPA 2.5-SNAPSHOT
2017-04-29 07:20:43 -04:00
f21ab8bfe6
Add synchronization to SP registry
2017-04-24 07:40:53 -04:00
93b61aac90
Force resource updates when reindexing
2017-04-23 22:20:58 -04:00
bb9cd7c198
Add configuration property to DSTU3 FhirInstanceValidator to allow client code to change unknown extension handling behaviour.
2017-04-23 19:28:45 -04:00
9c595e18f9
Ignore updates that don't actually change anything
2017-04-23 15:04:19 -04:00
841cfb8cf3
Fix test failures from search cleanup
2017-04-22 13:08:29 -04:00
fa2950dacb
Fix tests for expiring search results
2017-04-22 08:50:51 -04:00
dd5580ed2d
Search reuse merged in
2017-04-22 07:47:05 -04:00
405ac50351
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-04-22 06:34:36 -04:00
c311a0b3bf
Work on JPA performance
2017-04-22 06:34:24 -04:00
c09e26e28f
Clean up calls in JPA server for ID
2017-04-22 06:31:55 -04:00
716fa56b8f
Merge branch 'jpa_perf_enhancements'
2017-04-21 06:30:22 -04:00
cbc652d226
Version bump to 2.5-SNAPSHOT
2017-04-20 16:13:15 -04:00
282f90d174
Perf work
2017-04-20 05:59:10 -04:00
9d3d15ce6f
Version bump to 2.4
2017-04-19 21:38:36 -04:00
552bd90d59
More perf work
2017-04-19 18:08:38 -04:00
cc526f6d99
Upgrade to STU3
2017-04-18 21:58:23 -04:00
61a61cddee
More perf work
2017-04-18 21:02:25 -04:00
077676fd03
Bring DSTU3 structs up to FHIR R3
...
Squashed commit of the following:
commit 65b70d30c91df2de06679a51323e0340aebba0a7#610
2017-04-18 07:48:38 -04:00
4bf97e836a
Fix memory leak
2017-04-18 06:13:48 -04:00
7f2cf17f9f
Fix perf issue
2017-04-17 17:29:32 -04:00
5adc09ad56
perf enhancements finally working
2017-04-17 16:56:53 -04:00
fbbe792726
Perf work
2017-04-17 14:00:36 -04:00
08ec97e78a
More work on perf
2017-04-16 15:57:58 -04:00
217d9f8176
More perf work
2017-04-16 14:46:15 -04:00
62ece72e6f
More perf work
2017-04-16 12:08:23 -04:00
913fd422a1
Merge branch 'master' into jpa_perf_enhancements
2017-04-14 11:30:19 -04:00
f6acb5633b
Work on perf
2017-04-14 09:50:05 -04:00
54055f5bfb
Support extensions pointing to references for JPA custom search params
2017-04-14 07:26:49 -04:00
1039bbec97
More perf work
2017-04-14 07:25:01 -04:00
23b7de5dd8
More perf work
2017-04-12 18:28:10 -04:00
81aae2b672
More perf work
2017-04-11 06:56:17 -04:00
cba5aeb47b
More perf work
2017-04-10 17:55:50 -04:00
0a8900ee78
Perf updates possibly working?
2017-04-10 16:29:24 -04:00
aa02dd5037
More perf work
2017-04-10 08:05:25 -04:00
04468c8352
More perf work
2017-04-09 21:52:55 -04:00
e32d6bb56e
More perf work
2017-04-09 20:06:56 -04:00
bf0f1421b3
Work on perf
2017-04-09 19:13:55 -04:00
fa435fb8b2
More perf work
2017-04-09 11:48:56 -04:00
c5c154346e
More work on perf
2017-04-08 22:21:57 -04:00
801ae7cb75
NOFT test passing
2017-04-08 21:19:10 -04:00
90a4e2def2
More work on perf improvements
2017-04-08 19:46:51 -04:00
08e5681d8b
Work on perf
2017-04-08 15:12:10 -04:00
dd84fced5e
Merge branch 'master' into jpa_perf_enhancements
2017-04-08 06:54:13 -04:00
0a61096f6f
Add JPA utility method
2017-04-07 11:14:48 -04:00
8284fcab1b
More work on performance
2017-04-07 08:37:48 -04:00
660c2bde72
More work on perf
2017-04-06 22:23:20 -04:00
f48d0d677b
More work on performance
2017-04-06 12:50:36 -04:00
1581cdf9a8
Work on perf
2017-04-04 08:26:04 -04:00
233eb54710
Work on perf
2017-04-03 22:05:53 -04:00
9b1366734a
Merge branch 'master' into jpa_perf_enhancements
2017-04-03 15:20:55 -04:00
6ab1cb4c2e
Fix compile issues from new version of errorprone
2017-04-03 14:43:59 -04:00
efaa7a74cb
Work on perf enhancements to JPA
2017-03-30 19:58:32 +08:00
ce73e89715
For bit of work on JPA perf enhancements
2017-03-30 06:28:34 +08:00
2c9a6e65e7
Fix #534 : Add setting for logical references to DAOConfig
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Merge branch 'master' into issue534
2017-03-30 03:21:50 +08:00
14d861992c
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-03-29 15:29:10 +08:00
c6555ddd4f
DaoConfig#setAllowInlineMatchUrlReferences now defaults to true
2017-03-29 15:23:23 +08:00
d9749b652d
Work on issue 534
2017-03-29 15:19:52 +08:00
4748c8ba74
New DSTU2 FhirInstanceValidator bean exposed. ( #611 )
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Merging with master, issue #609 will be closed.
2017-03-28 23:19:20 -04:00
3ecfbf098f
Work on #534
2017-03-27 08:37:31 +08:00
72f682d81e
Refactor search param registry
2017-03-18 19:36:10 -04:00
40848b1beb
Version bump to 2.4-SNAPSHOT
2017-03-18 12:24:39 -04:00
d009e836bb
Fix tests for 2.3
2017-03-18 08:06:18 -04:00
e18ab206d7
Version bump to 2.3
2017-03-17 21:21:59 -04:00
8758b6f3da
Updating to 1.9.0 structures
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Squashed commit of the following:
commit 81edf46fe02a88851693f958e60855edfe69c04c
Author: James Agnew <jamesagnew@gmail.com>
Date: Fri Mar 17 21:05:22 2017 -0400
Work on converter
commit 3342d987008892dd3a75dddd251fe599c31c5a6c
Author: James <jamesagnew@gmail.com>
Date: Fri Mar 17 08:40:37 2017 -0400
Site updates
commit 7dcb63904ece1fcb59a09dc268e8382ac0b75535
Author: James <jamesagnew@gmail.com>
Date: Fri Mar 17 08:36:39 2017 -0400
STU3 structs working!
commit c5aec809e3f19f3fedf0aaaeab8cdd7924c144a2
Author: James <jamesagnew@gmail.com>
Date: Fri Mar 17 07:05:54 2017 -0400
Format test
commit 5033090010e8c93644505bccaa5e41ccbd756485
Author: James <jamesagnew@gmail.com>
Date: Fri Mar 17 07:03:39 2017 -0400
Merge tests for STU3
commit de40a516bfa4d2ab7f5e28e2d95815fde68bd10a
Merge: d5a5a60 899ed25
2017-03-17 21:06:12 -04:00
899ed2567f
Merge pull request #575 from joelsch/large-codesystem-persistence-fix
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Revise saveConcept method to use save() instead of saveAndFlush()
2017-03-17 06:52:57 -04:00
0be818c31c
Add validation results to oo ( #595 )
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* Add interceptor
* Add changelog entry
* Update changes.xml
Corrected reference to issue 586 (was 585). Corrected order of actions for issues 586 and 595 (was reversed).
* Update changes.xml
Should have been 585 after all. Whoops!
* Update changes.xml
Adding an item for pull request 565 that was previously approved and merged.
* Fixed test with English String in assertion.
2017-03-16 13:31:25 -04:00
95ef644612
Missed a param type for updated
2017-03-12 18:50:49 -04:00
0e3cc29c50
Add update time to search parameters
2017-03-12 12:13:31 -04:00
120227da2f
License headers
2017-03-11 14:57:43 -05:00
0c6679ac44
JPA server interceptor methods for create/update/delete provided the wrong version ID to the interceptors
2017-03-11 07:57:33 -05:00
bcff22c769
Add an interface for the stale search deleter
2017-03-01 19:50:17 -05:00
d1d208c6c7
Rename a few reindexing methods to make their names more intuitive
2017-03-01 16:44:48 -05:00
2f1662b59f
Revise saveConcept method to use myConceptDao.save instead of myConceptDao.saveAndFlush (to avoid overloading CPU with flush computations when persisting large codesystems, e.g. one with 399837 concepts).
2017-02-28 22:43:00 -06:00
7ea7bd45cf
Make preDelete consistent with postCreate
2017-02-14 21:28:23 -05:00
f7187fbc0a
Fix another test
2017-02-11 19:39:01 -05:00
79e336025c
Fix test
2017-02-11 19:31:00 -05:00
82ac69d86c
Throw correct HTTP status when validation fails because of missing ID
2017-02-11 19:22:25 -05:00
53f6effd56
Clean up custom seach param code
2017-02-11 18:37:21 -05:00
f1828d1ca8
Fix handling of filters on valueset expansions
2017-02-10 11:05:59 -05:00
0dd6364fe5
Improve paging in JPA server for _history operation
2017-02-08 21:42:17 -05:00
ef23b45d25
Custom extension params working now
2017-02-08 19:17:12 -05:00
d28122ff3e
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-02-07 12:24:35 -05:00
ad781334d8
Fix conditional creates updating resource body
2017-02-07 11:36:24 -05:00
21ea5a070f
Fix test
2017-02-07 08:46:22 -05:00
d5fbcf8e82
Return an OperationOutcome in the response for a delete in JPA
2017-02-07 07:44:57 -05:00
116cb1c8f7
Work on repopulating
2017-02-06 21:57:23 -05:00
a760f1df7c
Work on custom params
2017-02-05 21:27:07 -05:00
30df29c083
Work on custom params
2017-02-05 21:04:19 -05:00
73924199a9
Work on custom search params
2017-02-05 20:34:12 -05:00
d4dda1dace
headers
2017-02-04 18:21:09 -05:00
7149d2e053
Merge branch 'custom_jpa_search_params'
2017-02-04 16:34:05 -05:00
dd0e47afc3
Make projects import cleanly into eclipse
2017-02-04 16:31:18 -05:00
3f8a8cd8aa
Merge pull request #548 from sekaijin/cleanup
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Cleanup
2017-02-04 16:02:50 -05:00
54ac780cd5
Custom params works!
2017-02-04 16:02:00 -05:00
c85c2269a1
Work on custom params
2017-02-04 14:41:11 -05:00
12dc4d1c11
Work on custom params
2017-02-04 07:14:21 -05:00
aa5588826e
Work on custom search params
2017-02-02 22:31:34 -05:00
97ff79d730
Work on custom params
2017-02-02 20:37:58 -05:00
3191c907a3
Work on JPA
2017-02-02 06:23:28 -05:00
b4a362b8ee
Work in progress
2017-02-01 05:55:35 -05:00
e5b9aa4536
Bump some dependency versions
2017-01-30 17:59:01 -05:00
ad324174bd
Try to get travis working again
2017-01-30 08:06:31 -05:00
ce80007f8d
Bump spring version and refactor examples
2017-01-29 22:55:22 -05:00
4963f8908b
Merge pull request #533 from Robbert1/spring-4.3-compat
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correct ordering of codesystem dao types
2017-01-29 17:58:56 -05:00
a150a96089
dependencies convergence
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correct dependencies convergence
correct version use ${project.version}
2017-01-29 19:22:28 +01:00
23784c1619
remove .settings .project .classpath file of eclipse
2017-01-28 17:13:47 +01:00
12598b4e3b
Correctly handle declared extensions with multiple possible types
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Squashed commit of the following:
commit d6ea0552b7e5876f7d867e573c2299234b4a0c1c2eb780a690
2017-01-26 11:07:52 -05:00
8e0a904997
Add adapter for IServerOperationInterceptor
2017-01-24 13:34:30 -05:00
344e324929
Fix #544
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Squashed commit of the following:
commit 1ab9b58e9f5c752cdace127b76884a599bbe236c#544
2017-01-24 10:47:24 -05:00
a63b42d08f
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-01-23 17:59:11 -05:00
222333059d
Add test
2017-01-21 13:09:33 -05:00
bde8aebc5a
Merge pull request #467 from Robbert1/transaction-index-links
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fix resources links being correctly indexed when linking eachother as part of a single transaction bundle
2017-01-20 19:12:18 -05:00
d1542e98c5
JPA server was not correctly validating and expanding SCT codes
2017-01-19 17:37:43 -05:00
64e3435a8e
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-01-19 15:50:48 -05:00
e342d211d1
Add some logging and a test
2017-01-19 15:50:41 -05:00
56a25dc3c6
Merge branch 'master' of github.com:jamesagnew/hapi-fhir
2017-01-18 22:18:50 -05:00
f59ac8cf83
Version bump license header
2017-01-18 22:18:37 -05:00
495e57b4ec
Allow processing of transactions without a servlet in context
2017-01-18 22:18:03 -05:00
837b12a690
Docs updates
2017-01-14 11:40:05 -06:00
322051a383
Fix failing tests
2017-01-14 07:55:42 -06:00
fa1ad5ba85
Fix #519 - Issues with JPA capabilitystatement related to the _id param
2017-01-13 21:19:19 -06:00
37c40c4f9e
Fix #503 - Checking authorization again patient compartment fails with delete operation
2017-01-13 11:06:00 -05:00
af32c4b7e9
Websockets working once more on the public server
2017-01-12 08:59:51 -05:00
a8eb4a1967
More websocket work
2017-01-11 22:12:41 -05:00
47a81ebd8f
More websocket work
2017-01-11 21:23:39 -05:00
d7c4016896
Websocket work
2017-01-11 21:10:10 -05:00
3b41d85952
Server interceptor methods were being called twice unnecessarily by the JPA server, and the DaoConfig interceptor registration framework was not actually useful. Thanks to GitHub user @mattiuusitalo for reporting! Fixes #532
2017-01-11 20:57:39 -05:00
5b7abf15dc
Properly purge subscriptions
2017-01-11 18:19:46 -05:00
fe24841350
Work on #532
2017-01-09 19:00:56 -05:00
c7767937fc
License version bumps
2017-01-09 17:48:42 -05:00
e05b0e5d8a
Add test for localizer and add some docs
2016-12-30 08:53:42 -05:00
07525db83f
correct ordering of codesystem dao types
2016-12-29 12:16:32 +01:00
b448e13edd
Version bump to 2.3
2016-12-20 19:01:31 -05:00
0ec61533a8
Publish 2.2
2016-12-20 19:00:37 -05:00
750d6d4655
Switch public server to use CapabilityStatement for metadata return type
2016-12-20 15:35:54 -05:00
7838d511d0
Fix typo in IHttpResponse
2016-12-19 11:29:05 -05:00
74a73e74c5
Dependency version bumps
2016-12-14 09:21:00 -05:00
a77c4270ae
Generate schemas directly into class folder
2016-12-11 21:33:33 -05:00
901a85880c
Update STU3 definitions and being in STU2.1 defs too
2016-12-10 19:51:25 -05:00
ee63bbea74
Fix #516 - Handle STU3 invalid enum values with an appropriate exception
2016-12-10 14:14:22 -05:00
5149e581db
Fix #521 - Wrong or missing ID body in update should be an error
2016-12-08 08:31:52 -05:00
James
Karl M. Davis
Michael Lawley
Jeff Chung
Diederik Muylwyk
Joel Schneider (NMDP)
sekaijin
Waveren, Robbert van