File types in Flywheel

  • Updated

In Flywheel certain file types are "known" and assigned to a given file in the database (during import/upload) by virtue of that file's extension. For example, if you import a file with an extension of ".nii", or ".nii.gz", Flywheel will automatically "type" that file as a NIfTI file.

Making use of File Type

By virtue of having a type a given file will be findable using custom searches or finder expressions that reference file type.

Flywheel also uses file type to provide the user with options for which data you want to be part of a given download. Type information is used in this context with the Web UI, SDK, and CLI.

Web UI

Within the Web UI, when you download a given container you can choose which file types are downloaded.

Screen_Shot_2019-11-05_at_9.31.07_AM.png

Command-line Interface

Using the CLI you can choose to `include` only nifti, bvec, and bval file types in your download, like so:

fw download [source-path] -i nifti -i bvec -i bval

File Types

The full list of known file types, and associated extensions is shown below.

{
"bval":         [ ".bval", ".bvals" ],
"bvec":         [ ".bvec", ".bvecs" ],
"dicom":        [ ".dcm", ".dcm.zip", ".dicom.zip" ],
"eeg":          [ ".eeg.zip" ],
"eeg data":     [ ".eeg" ],
"eeg marker":   [ ".vmrk" ],
"eeg header":   [ ".vhdr"],
"gephysio":     [ ".gephysio.zip" ],
"HDF5":         [ ".h5", ".hdf5" ],
"MATLAB data":  [ ".mat" ],
"MGH data":     [ ".mgh", ".mgz", ".mgh.gz" ],
"nifti":        [ ".nii.gz", ".nii" ],
"ParaVision":   [ ".pv5.zip", ".pv6.zip" ],
"parrec":       [ ".parrec.zip", ".par-rec.zip" ],
"pfile":        [ ".7.gz", ".7", ".7.zip" ],
"PsychoPy data":  [ ".psydat" ],
"qa":           [ ".qa.png", ".qa.json", ".qa.html" ],

"archive":      [ ".zip", ".tbz2", ".tar.gz", ".tbz", ".tar.bz2", ".tgz", ".tar", ".txz", ".tar.xz" ],
"document":     [ ".docx", ".doc" ],
"image":        [ ".jpg", ".tif", ".jpeg", ".gif", ".bmp", ".png", ".tiff" ],
"markup":       [ ".html", ".htm", ".xml"  ],
"markdown":     [ ".md", ".markdown"  ],
"log":          [ ".log" ],
"pdf":          [ ".pdf" ],
"presentation": [ ".ppt", ".pptx" ],
"source code":  [ ".c", ".py", ".cpp", ".js", ".m", ".json", ".java", ".php", ".css", ".toml", ".yaml", ".yml", ".sh" ],
"spreadsheet":  [ ".xls", ".xlsx" ],
"tabular data": [ ".csv.gz", ".csv", ".tsv.gz", ".tsv" ],
"text":         [ ".txt" ],
"video":        [ ".mpeg", ".mpg", ".mov", ".mp4", ".m4v", ".mts" ],

"3D Object":        [ ".obj" ],
"Material Library": [ ".mtl" ],
"Cinema 4D Model":  [ ".c4d" ],
"CG Resource":      [ ".cgresource.zip" ]
}