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batchprocessingwizard for 4d data

 

batchprocessingwizard for BrainVoyager

To process multiple 4-dimensional files, the batch processing wizard can be used.

Note 04-09-17: batchprocessingwizard v1.9 to appear within a few weeks. With this version, one can start at FMR creation and end with MTC creation in one process.

Use of wizard: place *.js/*.ui files in /Documents/BVExtensions/Scripts/. Start BrainVoyager. The format of batch files has changed: example. Any text before the separator ':' does not mattter. The filename is supposed to appear on the right hand side of the ':', except if this file will be created in the process or when this step is skipped; in those cases, please write 'none' on the right hand side.

 

FilesInBatchprocessingwizard v19 small

Figure: files for batchprocessingwizard v1.9 required in each stage. Green: always required, yellow: sometimes required.

Non-mosaic FMRs will still be in integer format in BV20.6 (not suitable for anatabacus) Float-based FMRs need to be created manually instead of via this wizard/scripting.

 

batchprocessingwizard_v12_preview

 

 

Note 27-09-16: a new version (1.8.3), with a fix for VTCs not being preprocessed in certain cases, is still being tested. Apologies for any inconvenience. Please note that creating non-mosaic FMRs and DMRs now works in BrainVoyager 20.2 (not in BV20.0), but not via scripting, hence not via this wizard.
 
Batch processing wizard v1.8  for Mac/Win/Linux (script only)
Description: this version contains the following change:
- Load *.uff file
Download: v1.8 (*.js/*.ui only, place in Documents/BVQXExtensions/Scripts, start via BrainVoyager QX Menu > Scripts > Edit > Run).
Latest update: 01-07-15
 
Batch processing wizard v1.7 beta2 for Mac/Win/Linux (script only still)
Description: this version contains the following change:
- A new tab (see picture below) which makes it possible to edit the filenames (please note: the extension '.fmr' needs to be added to the name)
Download: v1.7 beta (*.js/*.ui only, place in Documents/BVQXExtensions/Scripts, start via BrainVoyager QX Menu > Scripts > Edit > Run); please note: needs more testing, therefore still beta.
Latest update: 04-06-15
 
editfilenames small
 
Batch processing wizard v1.6 beta2 for Mac/Win/Linux (script only now)
Description: this version contains the following changes:
- Create FMR/DMR dialog: 3 instead of 2 decimals for manually specifying the pixelsize
- Create FMR/DMR dialog: files without extensions are now also allowed (for example for Bruker files) -> still being tested
- Preprocessing: Added mean intensity adjustment (MIA); see elsewhere on support site for more information
- Selecting source files: the number of selected files is indicated in the BrainVoyager QX Log tab
- Added slice scan time correction for multi-band EPI
Download: v1.6 beta (*.js/*.ui only, place in Documents/BVQXExtensions/Scripts, start via BrainVoyager QX Menu > Scripts > Edit > Run); please note: needs more testing, therefore still beta.
Latest update: 29-01-15

 

 
Batch processing wizard v1.5 for Windows 64-bit, Mac OS 10.6.8
This version supports the user-defined file format (*.uff) and the order of spatial smoothing and temporal filtering is reversed so that it has the same order as the BrainVoyager user interface. (The *.uff file should be saved in the BrainVoyager program directory.)
Added: 27-04-2014.

 

 
 
Batch processing wizard v1.4 for BrainVoyager QX 2.4.1 or higher: for Mac OS X, Windows 64-bit, Windows 32-bit, Windows 8, Linux 64-bit. In this version it is possible to determine VTC bounding box size numerically. Latest update: 17-07-2012.
Manual for v1.4: PDF Added: 11-07-2012.

 

Batch processing wizard v1.3 for BrainVoyager QX 2.4.1: for Mac OS X, Windows 32-bit*, Windows 64-bit, Linux 64-bit*. This version includes FMR temporal high-pass filtering with the "GLM approach". Latest update: 26-03-2012.
* Compiled only, not tested.
09-07-12: Fixed script for MTC creation (filenaming used same name, so just 1 file was produded): batchprocessingwizard_v13.js (zipped). Please replace with current file in /Documents/BVQXExtensions/Plugins/ (also because of creating VTC files, the variable to create bounding boxes with coordinate values had to be set for all reference spaces).

 

 
 
 
Batch processing wizard v1.2 for BrainVoyager QX 2.3 and higher: for Mac OS X, Windows 64-bit, Windows 32-bit, Linux 64-bit. With this version it is also possible to create multiple VTC or VDW files, to preprocess VTC files or to create multiple MTC files. Latest update: 21-12-2011
Manual for v1.2: PDF Added: 14-03-2012.