96 merged pull requests as part of the LORIS Neuroimaging Platform team

Hello fellow Utopians, as part of the LORIS Neuroimaging Platform team, I have successfully got 96 pull requests merged over a two year period.

It was a great experience working on an open source project and contributing to the development of neuroscience research tools.

As quoted from the LORIS website:

(Longitudinal Online Research and Imaging System) is a web-based data and project management software for neuroimaging research studies. It is an OPEN SOURCE framework for storing and processing behavioural, clinical, neuroimaging and genetic data. LORIS also makes it easy to manage large datasets acquired over time in a longitudinal study, or at different locations in a large multi-site study.

If you want run a scientific study with patients across many time points, you have many instruments (questionnaires) and maybe you have MRI scans, this is the system you need.

On the website, you can also find their collaborators, organisations that uses LORIS for their studies.

Most of my contributions, that are represented by some 150 commits where done in PHP, SQL, javascript & react.

Here is the breakdown of all merged 96 pull request, from the oldest, to the newest.

1. improved test plan, visit_status sets to nothing, View imaging data sets link works
2. Imaging Browser Results=0 Bug7889
3. Sync volumes 'check box' does not style correctly if checked or not
4. Changed email templates - Bug8526 & Bug8524
5. Corrected so that the only valid values are 1 or 2. - Bug7988
6. getGroupValues to use $_REQUEST - Bug7988
7. Overlay/Blend Option - need to put volumes together
8. makes sure QCStatus=1 will show as minimum
9. expanded getSubprojectList to filter for projectID
10. added self:: for expanded getSubprojectList
11. added toggleLayer script back in LORIS
12. Filtering by N/A now returns data.
13. Database name is hardcoded in 3 places in instrument manager display errors
14. Current year is dynamically inserted
15. Added AND Study_site = 'Y' for clarity for 15.10
16. Reason is not required for setting participant status to inactive or incomplete
17. added "to be"
18. Study Description is now config setting
19. more PEAR::isError removed
20. Removed isError and throw new LorisException
21. phpcs clean up of module timepoint_flag
22. added phpoffice/phpexcel to composer
23. Integrate new release of bb into loris version 2.4.0
24. code cleanup
25. should be conflicts_resolved not conflicts_unresolved table
26. Visit label as argument can now be used
27. Ordering has been updated to be consistent as the file names
28. BB 2.4.0 for 15.10
29. replaced old methods of getting projectlist and subproject list
30. Couch db get subproject and get project
31. Aligned Participant_Status Assumption to front end. NULL => Active
32. allow DCC to create profiles
33. _checkDate( to Utility::_checkDate(
34. study_consent_withdrawal either null or 0000-00-00 will work
35. Added $baseurl to module specific css
36. New gray scale file
37. helper function and integration test
38. added $ExtraProject_Criteria to query
39. file name check
40. Count every 200, then commit to couchdb
41. Removes double slashes from URL
42. added the missing "es" to the server_process_manager item
43. DQT moving study consent & study consent withdrawal from where clause to fields drop down
44. changed test plan for brainbrowser for voxel 0, 0, 0
45. removed Transfer Status if showTransferStatus is false
46. Open Profile Button Doesn't Work
47. Show button setting instrument filter to "No instrument for this visit" therefore no results
48. Test plan updates for datadict module
49. Brainbrowser test plan and css updated
50. Transfer mri violations to resolved tab in bulk
51. datadict could not insert special characters
52. Survey Module: right form name used, BaseURL fixed, JS re-submit handling
53. Project and Subproject help sql
54. readd pagination to imaging uploader
55. Bring release patch in line with schema and patch
56. replace split with explode
57. Imaging browser undef variables and missing prepare array
58. rename variable workaround fixes PHP bug
59. remove double quote from Active
60. DICOM Archive: fixed the under incremented rowData index for links
61. add extension information to fileType variable so it can be inserted
62. new brainbrowser files 2.4.1 with auto-resize
63. removed overlay arrow of brainbrowser
64. Data Dictionary Builder: added userid to history insert and fixed select to pselect queries
65. un-relying on js getting automatically loaded
66. tarchive_files: Add new field TarchiveSeriesID to schema (Redmine 10519)
67. imaging browser: false will show as caveat if selected (Redmine 10517)
68. examiner: Could not reset certification to N/A (Redmine: 10612)
69. [Image Uploader] fix naming convention check
70. Tools: fixed warning and deprecated function (Redmine 9054)
71. [core] Now using the proper column for distinguishing between scanners and humans
72. [CouchDB] Add date of birth to Demographics
73. [core] Enable project libraries override
74. Merging 16.1.1 into Master
75. [CouchDB] make MRI_Importer runnable and fix select warning
76. [MRI Violated scans] Have the minc file linked to brainbrowser (Redmine 10928)
77. [Imaging Browser] Ordering of scans in imaging browser - Louis request (Redmine 9894)
78. [Configuration] add error message if adding duplicate (sub)Project Name (Redmine 9622)
79. add AND s.Active = 'Y'
80. set blank file type to the file extension
81. [Instruments] replaced deprecated call_user_method by call_user_func
82. [Tools] Prepared statements and added single quotes
83. [Radiological review module] because sql_mode=only_full_group_by on mysql 5.7 (redmine 11703)
84. [Core] Make Loris Version Visible To The Front End
85. [core] removed symbol & since it breaks URLs
86. [Core] Fix bug where $val=0 would pass as blank!
87. [media] mediaPath not getting populated when uploading
88. [LorisForm] allow files to validate
89. [candidate_parameters] Making the Proband Info Tab extensible
90. [survey_accounts] Add polyfill dates for Firefox on Surveys
91. [tools] CouchDB Importer Integrity not removing inactive candidates
92. [CouchDB] Unset Testdate and ORDER BY SessionID
93. [mri_violations ]Bring back clickable images
94. Minc brainbrowser
95. [imaging_browser] Now relying on getSetting->tblScanTypes for the New Data column
96. [tools] php7 fix for fix_timepoint_date_problems.php