 Xav | fc87566f098 | SHRINE2020-1742 : prefix query result table names with the name of the module they belong to. This avoids a name coll... | | |
 Marc-Danie Nazaire | 9bb809ae6ff | SHRINE2020-1736 - Fixed unit test failures | | |
Marc-Danie Nazaire | b9c4a5ab06b | Merge branch 'develop' of https://open.catalyst.harvard.edu/stash/scm/shrine/shrine into feature/SHRINE2020-1736
C... | | |
Marc-Danie Nazaire | 796ea6ac6de | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - added back import | | |
Marc-Danie Nazaire | 23a1af8d563 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - moved location o... | | |
Marc-Danie Nazaire | e4fab7d03ce | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - moved location o... | | |
Xav | 2b20cbf4903 | fix override config for network-lifecycle-tools | | |
Xav | d06344f2f98 | SHRINE2020-1730 : remove comments which are not needed; clarify the use of the "createTablesOnStart" configuration pr... | | |
Marc-Danie Nazaire | ebad92c5bd5 | SHRINE2020-1736 - downsamples 4.x query for 3.x node and now returns patient count from 3.x node - debug statements | | |
Marc-Danie Nazaire | c2c1d91c551 | SHRINE2020-1736 - downsamples 4.x query for 3.x node and now returns patient count from 3.x node - Roundtrip works fo... | | |
Xav | 41bda0db607 | SHRINE2020-1730 : make database indices and constraint names UPPER_CASE, replace newly added println's with Log.info,... | | |
Marc-Danie Nazaire | c7f9f6cee34 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - renamed envelop ... | | |
Marc-Danie Nazaire | e850829c1b9 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - removed commente... | | |
Marc-Danie Nazaire | 95c9b78cb33 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - revert changes i... | | |
Marc-Danie Nazaire | 7ffd66a8135 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - removed shrine-m... | | |
Marc-Danie Nazaire | 93c7c05b44d | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - added shrine-mes... | | |
Marc-Danie Nazaire | 51e34567eb0 | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated - removed shrine-m... | | |
Marc-Danie Nazaire | cbd80b18f9b | SHRINE2020-1735 - Create and display a new error message if a protocol message can't be translated | | |
Xav | 7d9cc30f64d | SHRINE2020-1730 : added comments after re-creating the entire project on a new laptop | | |
Xav | d7036feac62 | Merge remote-tracking branch 'origin/SHRINE2020-1730-rename-databases-columns-tables-and-filenames' into SHRINE2020-1... | | |
Xav | d32fea02787 | SHRINE2020-1730 : fix 2 comments in Dockerfiles; fix paths to Lucene indices and adapter mapping files on S3 | | |
Xav | 378e8a4bfc1 | SHRINE2020-1730 : fix comments in two Dockerfiles | | |
Xav | d2b9111ebbd | SHRINE2020-1730 : runtime debugging | | |
Xav | 55fd78a4804 | SHRINE2020-1730 : runtime debugging | | |
Xav | ff6e97180b6 | SHRINE2020-1730 : build docker network without kafka (using older messaging system) | | |
Xav | 0c10ae64823 | SHRINE2020-1730 : fixed so it builds, but Docker set-up fails | | |
Xav | 5b693ccafaf | SHRINE2020-1730 : -- still not working, except now Hub has its own database and tables. Rename queryEntryPoint qep ac... | | |
 Ansible Deploy | 14072d1831a | Merge release branch release/4.3.0 into master. | | |
Ansible Deploy | bf44fe84bf3 | Update POMs with release version 4.3.0. | | |
Xav | e0067d6195e | SHRINE2020-1730 : may still be buggy, however I want to run it on the dev instance | | |
Xav | ec267a9e23f | SHRINE2020-1730 : still buggy (still some hub code trying to access the qep database); committing so Bill can look at it | | |
Xav | e8de89cdc70 | Revert the db timeout to its initial value; add a comment about the potential need to increase it. Fix a comment in R... | | |
Xav | d8a1acb628f | Give the dockerized MySQL server more time to come up before the hub starts doing its thing | | |
Xav | afc1bb6e850 | SHRINE2020-1730 : rename database qep_audit_db to QEP_AUDIT_DB | | |
Xav | 58f13ebddba | SHRINE2020-1730 : rename database shrine_query_history to SHRINE_QUERY_HISTORY | | |
Xav | d90a762fe26 | SHRINE2020-1730 : rename database blackWhiteTableDB to BLACK_WHITE_TABLE_DB | | |
Xav | 58a3ed9c6a2 | SHRINE2020-1730 : prefix two more SQL file names with "authz-" | | |
Xav | 7a4f8e99d2e | SHRINE2020-1730 : fix reference to a HUB SQL file (straggler) | | |
Xav | e7a5c58fb7b | SHRINE2020-1730 : prefix SQL filenames with module name (in the present case, "adapter-") | | |
Xav | 4e937fae269 | SHRINE2020-1730 : make SQL table and column names UPPER_CASE | | |
Xav | bff3855fbef | SHRINE2020-1730 : merge SHRINE2020-1729 | | |
Xav | 5a4a3601074 | Merge branch 'SHRINE2020-1728-rewrite-database-terms-in-HUB' into SHRINE2020-1730-rename-databases-columns-tables-and... | | |
Xav | 25083c69cc5 | SHRINE2020-1728 : prepend "hub-" to SQL files used by the HUB | | |
Xav | ba9334c7529 | SHRINE2020-1729 : make all column names UPPER_CASE | | |
Xav | e357df39f09 | SHRINE2020-1728 : make table names singular | | |
Xav | d7fe5069fa8 | SHRINE2020-1726 : prepend all mentions of QEP SQL file names with "qep-" | | |
Xav | 2488f1bfb49 | SHRINE2020-1726 : prepend all QEP SQL file names with "qep-" | | |
Xav | b598764e958 | SHRINE2020-1726 : convert all QEP database table names to singular | | |
Xav | 0f3fb0a7ec5 | SHRINE2020-1726 : convert all QEP database table names to uppercase and underscore | | |
Xav | 430e531bb35 | SHRINE2020-1726 : convert the column names "description" to "DESCRIPTION" and "details" to "DETAILS" throughout the s... | | |
Xav | 4bf6157876a | SHRINE2020-1726 : convert the column names "summary" to "SUMMARY" and "stamp" to "STAMP" throughout the service module | | |
Xav | df41a7a2cee | SHRINE2020-1726 : convert the column name "codec" to "CODEC" throughout the service module | | |
Xav | 4beae7b27df | SHRINE2020-1726 : fix new, buggy column names w.r.t. SQL schema | | |
Xav | 9f0e5bb1555 | Merge branch 'develop' into SHRINE2020-1726-rewrite-database-terms-in-qep | | |
Xav | f98b3c01618 | SHRINE2020-1726 : push this to origin so it can be tested on the dev tier | | |
Xav | 7e3d33c79e3 | Give wildfly more time to come up by increasing the timeout in its config | | |
Xav | 1d3525ba81f | Shrine2020-1726 : adjust revision number to 4.4.0; fixed DATE_CREATED in 2 places | | |
Xav | 4b602ae9749 | update revision number to 4.4.0 in topmost POM file | | |
Xav | 82319f50b14 | SHRINE2020-1726 : rename queryFaved to QUERY_FAVED (straggler) | | |
Xav | 0b53676f3bf | SHRINE2020-1726 : rename dateCreated to DATE_CREATED (straggler) | | |
Xav | a69e350ae92 | SHRINE2020-1726 : rename date_created to DATE_CREATED (straggler) | | |
Xav | 32b2cb07234 | SHRINE2020-1726 : rename date_created to DATE_CREATED | | |
Xav | c22367b5ac9 | SHRINE2020-1726 : rename domain to DOMAIN, queryName to QUERY_NAME, queryFaved to QUERY_FAVED, queryJSON to QUERY_JSO... | | |
Xav | 323c75f13f7 | SHRINE2020-1726 : rename networkId to NETWORK_ID | | |
Xav | cce0492215a | SHRINE2020-1726 : rename NETWORKQUERYID to NETWORK_QUERY_ID (straggler) | | |
Xav | 9c82b934049 | SHRINE2020-1726 : rename networkId to NETWORK_ID (straggler) | | |
Xav | 5601d50f552 | SHRINE2020-1726 : rename timeQuerySent to TIME_QUERY_SENT | | |
Xav | f19bd74b9d6 | SHRINE2020-1726 : rename queryName to QUERY_NAME | | |
Xav | 8e668de2ec5 | SHRINE2020-1726 : rename NETWORKQUERYID to NETWORK_QUERY_ID (straggler) | | |
Xav | bf0ba9b1638 | SHRINE2020-1726 : rename NETWORKQUERYID to NETWORK_QUERY_ID | | |
Xav | ca828d6e6fd | SHRINE2020-1726 : rename networkQueryId to NETWORK_QUERY_ID | | |
Xav | 6c3a3e6ade6 | SHRINE2020-1726 : rename shrineNodeId to SHRINE_NODE_ID | | |
Xav | e13ab2ed4d1 | SHRINE2020-1726 : rename userName to USER_NAME | | |
Xav | fce13b43299 | SHRINE2020-1726 : rename shrineNodeId to SHRINE_NODE_ID | | |
Marc-Danie Nazaire | a85b4ae33d9 | SHRINE2020-890 - Institution name displays twice in results tab due to equal time stamps on results in the QEP - Fixe... | | |
Xav | 195a25e0394 | SHRINE2020-1721 : make the query notes field not labelled as required | | |
Marc-Danie Nazaire | 21eb5d4d9b8 | SHRINE2020-890 - Institution name displays twice in results tab due to equal time stamps on results in the QEP - Need... | | |
Xav | 16f1b8c06aa | SHRINE2020-890 : committed broken code for Marc-Danie to look at | | |
Marc-Danie Nazaire | e0f2ac08207 | Pull request #1549: Bugfix/SHRINE2020 1723
Merge in SHRINE/shrine from bugfix/SHRINE2020-1723 to develop
* commit '... | | |
Marc-Danie Nazaire | 5bcde0e0016 | SHRINE2020-1715 - Help link needs to be updated for 4.3.0 - test build | | |
Marc-Danie Nazaire | 6915019db85 | Pull request #1552: SHRINE2020-1715 - Help link needs to be updated for 4.3.0
Merge in SHRINE/shrine from bugfix/SHR... | | |
Marc-Danie Nazaire | 8f4387e0be4 | SHRINE2020-1715 - Help link needs to be updated for 4.3.0 - Fixed unit test | | |
Marc-Danie Nazaire | bfecdf93c21 | SHRINE2020-1715 - Help link needs to be updated for 4.3.0 | | |
Xav | 620107c29d1 | SHRINE2020-890 : commit this in order to share code | | |
Xav | 69da163fba5 | SHRINE2020-890 : clean-up test code | | |
Xav | 8880fee386b | SHRINE2020-890 : better unit test for measuring response time | | |
Marc-Danie Nazaire | aac94172427 | Pull request #1551: SHRINE2020-1705 - Components that load from "shrine.webclient" are not loading on running the app... | | |
Xav | a8c5fbf0b5a | Merge branch 'develop' into bugfix/SHRINE2020-890-procedural | | |
Marc-Danie Nazaire | cfbd5bde79b | Updated mysql base docker image version | | |
Marc-Danie Nazaire | d62acc68e08 | SHRINE2020-1705 - Components that load from "shrine.webclient" are not loading on running the application | | |
Marc-Danie Nazaire | 716c0db4e9b | SHRINE2020-1723 - Overdue query check does not work as expected in 4.3.0 - Code cleanup | | |
Marc-Danie Nazaire | 31160e7fe0b | Merge branch 'develop' of https://open.catalyst.harvard.edu/stash/scm/shrine/shrine into bugfix/SHRINE2020-1723 | | |
Marc-Danie Nazaire | ece88f3b51f | Pull request #1548: Bugfix/SHRINE2020 1722 - DB fixes for query notes feature
Merge in SHRINE/shrine from bugfix/SHR... | | |
Marc-Danie Nazaire | 518a61c6b71 | SHRINE2020-1723 - Overdue query check does not work as expected in 4.3.0 - Possible fix | | |
Xav | d0afceb560b | SHRINE2020-1722 : remove all references to queryNotes and queryFaved from the adapter code | | |
Marc-Danie Nazaire | 3be61fe78dd | SHRINE2020-1722 - DB fixes for query notes feature - set default to null | | |
Marc-Danie Nazaire | e69e015f901 | SHRINE2020-1722 - DB fixes for query notes feature | | |
Xav | e9c50d0450d | SHRINE2020-890 : approach based on scala's maxBy function (not working) | | |
Xav | 6a954748e24 | SHRINE2020-890 : add "load" test (ignored by default) | | |
Xav | 340d380bcbb | SHRINE2020-890 : implement skip and limit | | |
Xav | 445ed68e53a | SHRINE2020-890 : clean-up | | |
Xav | 40160372dea | SHRINE2020-890 : re-implemented sorting | | |
Marc-Danie Nazaire | 37d5a1a62d1 | Fix for db error running QepServiceTest | | |
Marc-Danie Nazaire | 22778fa1232 | Get tests working and changes to allow building in Java 17 | | |
Xav | 66d0a94fac0 | SHRINE2020-890 : temporary branch so Marc-Danie can give me a hand | | |
Xav | 7cd1192cb3d | SHRINE2020-890 : when 2 or more results (more specifically more than one state transitions) occur for the same query ... | | |
 David Walend | aee4113d268 | Pull request #1545: SHRINE2020 1713 - hub overdue query fixes for SHRINE 4.3
Merge in SHRINE/shrine from feature/SHR... | | |
Xav | 496b1e56f50 | Merge branch 'develop' into feature/SHRINE2020-1668 | | |
Xav | ddf6943f307 | Merge branch 'develop' into feature/SHRINE2020-1698 | | |
Xav | a84dbaea66d | SHRINE2020-1668 : in the Docker set up scripts, remove references to no-longer-existing DBs on the adapter | | |
 Ankit Panchamia | 841e304ad5d | Pull request #1546: Feature/SHRINE2020 1661 testssopoc
Merge in SHRINE/shrine from feature/SHRINE2020-1661-testssopo... | | |
Xav | 3b1485ac3bf | SHRINE2020-1698 : improve input-validation messages | | |
Xav | d6e65a084a3 | SHRINE2020-1698 : minor clean-up | | |
Ankit Panchamia | d5aaed6736d | initial POC for multiple IdP: handle NPE case for authorization since the user has a landing page now which can make ... | | |
 dwalend | 63b391df037 | Review comment from Xav for SHRINE2020-1713 | | |
Xav | 5f7815bbc73 | Merge branch 'develop' into feature/SHRINE2020-1698 | | |
Xav | 4178e6ca4ae | SHRINE2020-1698 : integrate feedback from PR | | |
David Walend | 2a4474f22c6 | Pull request #1544: Needed to trigger some IOs to get errors into the database for SHRINE2020-1714
Merge in SHRINE/s... | | |
Xav | 892f4651ded | SHRINE2020-1698 : remove query notes and fave status fields from new queries; also allow query notes to be empty when... | | |
Ankit Panchamia | ecf5ba3358b | Merge branch 'develop' into feature/SHRINE2020-1661-testssopoc | | |
Ankit Panchamia | 8fd151385a2 | initial POC for multiple IdP: handle NPE case for authorization since the user has a landing page now which can make ... | | |
dwalend | 6826b46abcf | Putting back this config bit for SHRINE2020-1712 | | |
dwalend | 25354abaf86 | Scan the results table for overdue queries without locking the whole table for SHRINE2020-1712 | | |
Xav | 841ab0afa9a | SHRINE2020-1698 : finish making query notes an Option (which fixes the bug in the previous commit) | | |
dwalend | 17a720c7537 | Needed to trigger some IOs to get errors into the database for SHRINE2020-1714 | | |
Xav | fb5dd515dff | SHRINE2020-1698 : this code doesn not compile but I want to be able to share it | | |
David Walend | 53dce8f53d1 | Pull request #1543: Feature/SHRINE2020 1711
Merge in SHRINE/shrine from feature/SHRINE2020-1711 to release/3.3.2
* ... | | |
Xav | 7c8e16b00e3 | SHRINE2020-1698 : reinstate @Ignore'd unit test, remove Ignore from imports | | |
Xav | 344dd661f6a | SHRINE2020-1698 : make query notes optional; rewrite query name/notes validation | | |
David Walend | 0560771d3ed | Pull request #1541: Removing six empty database files for SHRINE2020-1667
Merge in SHRINE/shrine from feature/SHRINE... | | |
dwalend | 710fc370e7a | QEP test fixes from Marc-Danie to try to get SHRINE2020-1711 building on bamboo | | |
dwalend | 68a7ae5e404 | More fixes for ontology tests to get 3.3.2 building | | |
dwalend | eed17c01e29 | Changes Marc-Danie recommended from 77b9bc09a01 as a fix for some brittle lucene tests | | |
dwalend | c7cd5e75afe | A more involved test for SHRINE2020-1711 | | |
dwalend | a68d22dd8c9 | Find overdue results without locking the whole RESULTS table for SHRINE2020-1711 | | |
Xav | cebbefac078 | SHRINE2020-1698 : merge from develop | | |
Xav | 244398613bb | SHRINE2020-1698 : fix regression due to code clean-up | | |
dwalend | 2cf930bf680 | Removing six empty database files for SHRINE2020-1667 | | |
Xav | d831b5fa3cb | SHRINE2020-1698 : some code clean-up | | |
Xav | a87bf02492c | SHRINE2020-1698 : make a new changeDate the default when repeatedly clicking the "favorite/star" icon in the queries ... | | |
David Walend | d5c5220cffa | Pull request #1540: Feature/SHRINE2020 1672
Merge in SHRINE/shrine from feature/SHRINE2020-1672 to develop
* commit... | | |
Xav | 10be0ad034c | SHRINE2020-1698 : fix the sorting by "faved" status | | |
Xav | c3bd8cde30b | SHRINE2020-1698 : fix the index on the previousQueries.queryFaved column, in all 3 database dialects | | |
Xav | 1acd4059888 | SHRINE2020-1698 : midway to being able to star/unstar a query | | |
Xav | c6a99b0fd03 | SHRINE2020-1698 : add missing js snapshot | | |
dwalend | bfaa4c0ec89 | See what this looks like with just byte arrays now that I know about Oracle's Raw type for SHRINE2020-1672 | | |
David Walend | 2539e428803 | Pull request #1539: Feature/SHRINE2020 1439
Merge in SHRINE/shrine from feature/SHRINE2020-1439 to develop
* commit... | | |
dwalend | c2e4d6a9c0b | don't need to read the tasty symbols for SHRINE2020-1439 | | |
Xav | e3d702e78f1 | SHRINE2020-1698 : add back query id in name/notes dialog | | |
Xav | 4a2c26fa18a | SHRINE2020-1698 : round-trip query notes | | |
dwalend | f43ab56e620 | Try out the RAW type in Oracle for SHRINE2020-1672 | | |
dwalend | 946845c7a07 | Setting up the oracle bug for SHRINE2020-1672 | | |
Xav | f5a13978e91 | SHRINE2020-1698 : clean-up | | |
Xav | 5a1d0b77335 | SHRINE2020-1698 : fix bug when creating a new query by passing an empty string for query notes | | |
Xav | bc44ea0c9b8 | SHRINE2020-1698 : round-trips changes made to query name and notes. Notes get reset to empty string when the dialog i... | | |
Xav | 8b1ea002ef4 | SHRINE2020-1698 : builds + all tests pass | | |
Ankit Panchamia | 315a0a04d4f | Pull request #1538: initial POC for multiple IdP
Merge in SHRINE/shrine from feature/SHRINE2020-1661-testssopoc to d... | | |
Ankit Panchamia | 8b7d19cde90 | initial POC for multiple IdP | | |
Xav | 41824dc5448 | SHRINE2020-1698 : straggler: part-way commit; unit tests for QEP service fail on a SQL bug that I cannot make sense o... | | |
Xav | b2135392fb2 | SHRINE2020-1698 : part-way commit; unit tests for QEP service fail on a SQL bug that I cannot make sense of. Committi... | | |
dwalend | 351857a32db | My own review of SHRINE2020-1439 | | |
dwalend | 544d2758ad0 | Merge remote-tracking branch 'origin/develop' into feature/SHRINE2020-1439 | | |
dwalend | 0a3a7adc8a7 | Restored the relevant tests for SHRINE2020-1439 | | |
dwalend | c4ab65c2e8c | Rename and cleanup for SHRINE2020-1439 | | |
dwalend | dc52a8ebdfd | Got a test working with the new test framework for SHRINE2020-1439 | | |
Xav | b3127463ac8 | SHRINE2020-1696 : commit part-way changes in order to check out a-fresh in a new workspace | | |
Xav | 6276cf07165 | SHRINE2020-1696 : Only update the QEP and the Hub (not the adapter) when editing a query's name | | |
Xav | c02ef7d8275 | SHRINE2020-1633, 1643 : remove unused & incorrect port mapping | | |
Xav | 891f00e41d0 | SHRINE2020-1633, 1643 : remove stale comment | | |
Xav | 587beb7eb49 | SHRINE2020-1633, 1643 : add details/warning comment | | |
Xav | 13b02dff2de | SHRINE2020-1633, 1643 : make JSON/object round-trip tests somewhat less brittle and more readable by allowing the JSO... | | |
Xav | 73cc00ec9b4 | SHRINE2020-1633, 1643 : merge develop | | |
David Walend | 4f059bc10c9 | Pull request #1536: Some fixes while writing the docs for SHRINE2020-1670
Merge in SHRINE/shrine from feature/SHRINE... | | |
Xav | 7ad842fda61 | SHRINE2020-1633, 1643 : rollback incorrect changes; formatted json data | | |
Xav | 9754a82d80d | SHRINE2020-1633, 1643 : fix reinstated test | | |
Xav | 4931318a8b1 | SHRINE2020-1633, 1643 : still a dependency on aim3 -- commenting it out for now | | |
Xav | 542a555ceb0 | Revert "SHRINE2020-1633, 1643 : still a dependency on aim3 -- commenting it out for now"
This reverts commit 5d0ce2c... | | |
Xav | 5d0ce2c6e57 | SHRINE2020-1633, 1643 : still a dependency on aim3 -- commenting it out for now | | |
Xav | bb745fcc430 | SHRINE2020-1633, 1643 : update test class name | | |
Xav | f573fcd942e | SHRINE2020-1633, 1643 : fix inadvertent reverse commit | | |
Xav | 7ac768af007 | SHRINE2020-1633, 1643 : address PR feedback | | |
Xav | 20ba0d748e6 | Revert "SHRINE2020-1633, 1643 : PR feedback"
This reverts commit f9638e2a7948c2a72d164611aaf73c8f7f1f0ad9. | | |
Xav | 80a592dcae2 | SHRINE2020-1633, 1643 : merge develop branch | | |
dwalend | 02aaad603b8 | Stray 3 | | |
dwalend | 5d4cd242124 | Cleared out more stray aim3 references. This should fix the build for SHRINE2020-1670 | | |
Xav | 66f95bec882 | SHRINE2020-1633, 1643 : further merge develop branch | | |
dwalend | 0b25cc0f632 | Messing with the demo for SHRINE2020-1695 | | |
dwalend | 276ad715b07 | Some fixes while writing the docs for SHRINE2020-1670 | | |
| Next → |
