Update Filenames and data organization authored by Gorka Fraga Gonzalez's avatar Gorka Fraga Gonzalez
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Here a description of file names fields Here a description of file names fields
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## Filenaming convention
### Reconstructed images
The following scheme was inferred from the filenames of the image-files starting with "JP\*". The metadata table was created accordingly. Future versions should specify the remaining files or create a separate table for the other type of files available.
_\<field\>_ indicates this is a required field; _\<(field)\>_ fields in brackets are optional and may not appear in every file name; _str_ refers to strings; _num_ to numeric values.
#### Convention
`<specID>-<status>-<number of scans>-<(desc)>_<rec><.ext>`
#### Label description
`specID`: _str + num_, specimen ID (e.g., JP01)
`status`: _str_, specimen status (dead | invivo | dying)
`scanID`: _num + str_, scan number (e.g., 1scan or scan1)
`desc`: OPTIONAL _str + num_, additional description of number of scans, anatomy, state, version, etc. (e.g., v3, phase1-injection)
`seq`: _num_, sequence number (e.g., 003)
`rec`: _str + num_, reconstruction info (rec0749 = slice 749 taken from reconstruction slice )
`.ext`: _str_, extension indicating file format (e.g, .jpg for compressed pictures for preview)
## Folder organization
#### Data folders (not shared in this hub)
Note: each data package may follow different filename conventions (see corresponding ORD wiki section)
```plaintext
SPring-8
├── JP12-dying-10scan-phase1-injection
│ └── raw
│ ├──a.HIS
│ ├──conv.bat
│ ├──output.log
│ ├── 001
│ │ ├── raw
│ │ │ ├──dark.img
│ │ │ ├──q0001.img
│ │ │ ├──...
│ │ │ ├──q1804.img
│ │ │ └──rec00750.tiff
│ │ └── rec
│ │ ├──...
│ │ ├──rec00748.tiff
│ │ ├──rec00749.tiff
│ │ ├──rec00750.tiff
│ │ └──...
│ ├── 002
│ │ ├── raw
│ │ │ ├──dark.img
│ │ │ ├──q0001.img
│ │ │ ├──...
│ │ │ ├──q1804.img
│ │ │ └──rec00750.tiff
│ │ └── rec
│ │ ├──...
│ │ ├──rec00748.tiff
│ │ ├──rec00749.tiff
│ │ ├──rec00750.tiff
│ │ └──...
│ ...
├── JP05-dead-1scan
│ ├── raw
│ │ ├──a.HIS
│ │ ├──conv.bat
│ │ ├──output.log
│ │ ├──dark.img
│ │ ├──q0001.img
│ │ ├──...
│ │ ├──q1804.img
│ │ └──rec00750.tiff
│ └── rec
│ ├──...
│ ├──rec00749.tiff
│ ├──rec00750.tiff
│ └──...
...
```
#### Preview data folder(content shared)
```plaintext
Preview
├──JP12-dying-10scan-phase1-injection_010_rec00749.jpg
├──JP05-dead-1scan_rec00749.jpg
└──...
```
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