[EEG] EEG uploader module

Author: laemtl

SQL/0000-00-01-Modules.sql

@@ -51,5 +51,6 @@ INSERT INTO modules (Name, Active) VALUES ('timepoint_list', 'Y');
 INSERT INTO modules (Name, Active) VALUES ('user_accounts', 'Y');
 INSERT INTO modules (Name, Active) VALUES ('electrophysiology_browser', 'Y');
 INSERT INTO modules (Name, Active) VALUES ('dqt', 'Y');
+INSERT INTO modules (Name, Active) VALUES ('electrophysiology_uploader', 'Y');
 
 ALTER TABLE issues ADD CONSTRAINT `fk_issues_7` FOREIGN KEY (`module`) REFERENCES `modules` (`ID`);

SQL/0000-00-03-ConfigTables.sql

@@ -78,6 +78,8 @@ INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType,
 INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber) SELECT 'MINCToolsPath', 'Path to the MINC tools', 1, 0, 'web_path', ID, 'Path to the MINC tools', 12 FROM ConfigSettings WHERE Name="paths";
 INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber) SELECT 'documentRepositoryPath', 'Path to uploaded document repository files', 1, 0, 'web_path', ID, 'Document Repository Upload Path', 13 FROM ConfigSettings WHERE Name="paths";
 INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber) SELECT 'dataReleasePath', 'Path to uploaded data release files', 1, 0, 'web_path', ID, 'Data release Upload Path', 14 FROM ConfigSettings WHERE Name="paths";
+INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber) SELECT 'EEGUploadIncomingPath', 'Path to the upload directory for incoming EEG studies', 1, 0, 'text', ID, 'EEG Incoming Directory', 7 FROM ConfigSettings WHERE Name="paths";
+
 
 
 INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, Label, OrderNumber) VALUES ('gui', 'Settings related to the overall display of LORIS', 1, 0, 'GUI', 3);
@@ -289,4 +291,4 @@ INSERT INTO Config (ConfigID, Value) SELECT ID, ''  FROM ConfigSettings WHERE Na
 INSERT INTO Config (ConfigID, Value) SELECT ID, '' FROM ConfigSettings WHERE Name='bids_dataset_authors';
 INSERT INTO Config (ConfigID, Value) SELECT ID, '' FROM ConfigSettings WHERE Name='bids_acknowledgments_text';
 INSERT INTO Config (ConfigID, Value) SELECT ID, '' FROM ConfigSettings WHERE Name='bids_readme_text';
-INSERT INTO Config (ConfigID, Value) SELECT ID, '' FROM ConfigSettings WHERE Name='bids_validator_options_to_ignore';
+INSERT INTO Config (ConfigID, Value) SELECT ID, '' FROM ConfigSettings WHERE Name='bids_validator_options_to_ignore';

SQL/0000-00-05-ElectrophysiologyTables.sql

@@ -481,6 +481,21 @@ CREATE TABLE `physiological_annotation_rel` (
         REFERENCES `physiological_annotation_file` (`AnnotationFileID`)
 ) ENGINE=InnoDB DEFAULT CHARSET=utf8;
 
+-- Create EEG upload table
+CREATE TABLE `electrophysiology_uploader` (
+    `UploadID` int(10) unsigned NOT NULL AUTO_INCREMENT,
+    `UploadedBy` varchar(255) NOT NULL DEFAULT '',
+    `UploadDate` DateTime DEFAULT NULL,
+    `UploadLocation` varchar(255) NOT NULL DEFAULT '',
+    `Status` enum('Not Started', 'In Progress', 'Complete', 'Failed') DEFAULT 'Not Started',
+    `SessionID` int(10) unsigned NOT NULL default '0',
+    `MetaData` TEXT default NULL,
+    PRIMARY KEY (`UploadID`),
+    KEY (`SessionID`),
+    CONSTRAINT `FK_eegupload_SessionID`
+        FOREIGN KEY (`SessionID`) REFERENCES `session` (`ID`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8;
+
 -- Insert into physiological_output_type
 INSERT INTO physiological_output_type
   (`OutputTypeName`, `OutputTypeDescription`)

SQL/New_patches/2023-02-24-electrophysiology_uploader.sql

@@ -0,0 +1,21 @@
+-- Create EEG upload table
+CREATE TABLE `electrophysiology_uploader` (
+    `UploadID` int(10) unsigned NOT NULL AUTO_INCREMENT,
+    `UploadedBy` varchar(255) NOT NULL DEFAULT '',
+    `UploadDate` DateTime DEFAULT NULL,
+    `UploadLocation` varchar(255) NOT NULL DEFAULT '',
+    `Status` enum('Not Started', 'In Progress', 'Complete', 'Failed') DEFAULT 'Not Started',
+    `SessionID` int(10) unsigned NOT NULL default '0',
+    `MetaData` TEXT default NULL,
+    PRIMARY KEY (`UploadID`),
+    KEY (`SessionID`),
+    CONSTRAINT `FK_eegupload_SessionID`
+        FOREIGN KEY (`SessionID`) REFERENCES `session` (`ID`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8;
+
+-- Add to module table
+INSERT INTO modules (Name, Active) VALUES ('electrophysiology_uploader', 'Y');
+
+-- Add new configurations for eeg uploader
+INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber) SELECT 'EEGUploadIncomingPath', 'Path to the upload directory for incoming EEG studies', 1, 0, 'text', ID, 'EEG Incoming Directory', 7 FROM ConfigSettings WHERE Name="paths";
+

SQL/New_patches/2023-03-22-electrophysiology-uploader.sql

@@ -0,0 +1,22 @@
+-- Create EEG upload table
+CREATE TABLE `electrophysiology_uploader` (
+  `UploadID` int(10) unsigned NOT NULL AUTO_INCREMENT,
+  `UploadedBy` varchar(255) NOT NULL DEFAULT '',
+  `UploadDate` DateTime DEFAULT NULL,
+  `UploadLocation` varchar(255) NOT NULL DEFAULT '',
+  `Status` enum('Not Started', 'In Progress', 'Complete', 'Failed') DEFAULT 'Not Started',
+  `SessionID` int(10) unsigned NOT NULL default '0',
+  PRIMARY KEY (`UploadID`),
+  KEY (`SessionID`),
+  CONSTRAINT `FK_eegupload_SessionID`
+    FOREIGN KEY (`SessionID`) REFERENCES `session` (`ID`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8;
+
+-- Add to module table
+INSERT INTO modules (Name, Active) VALUES ('electrophysiology_uploader', 'Y');
+
+-- Add new configurations for eeg uploader
+INSERT INTO ConfigSettings (Name, Description, Visible, AllowMultiple, DataType, Parent, Label, OrderNumber)
+  SELECT 'EEGUploadIncomingPath', 'Path to the upload directory for incoming EEG studies', 1, 0, 'text', ID, 'EEG Incoming Directory', 7
+  FROM ConfigSettings
+  WHERE Name="paths";

modules/electrophysiology_uploader/.gitignore

@@ -0,0 +1 @@
+js/*