Converting Raw Data into Images

The Raw Converter allows the conversion of raw binary data into one of the supported multi-slice image formats.

To convert images select Raw Data Converter ... from the File menu: file_raw_converter.

The Raw Converter window will now appear:

raw_converter_frame

The Raw Converter allows you to create one single-slice or multi-slice image from one or more input files. Each of the input files may contain pixel values for one or more slices of the output image.

First, select the input file(s) from which the pixel values will be extracted by pressing the select_files_button button. A file chooser will now pop up. To select more than one input file, follow the instructions in the file chooser description.

Next select the type of binary data in your input files. If you select the wrong type for your data, the resulting images will be unusable. Choose:

Next select the byte order for the input data, either:

Note: the actual byte order depends not only on the type of computer, but also on the software it runs to produce the image data. If you not sure of the binary format or byte order of your data, contact the person from whom the data originated, or the manufacturer of the equipment that produced the data (or just experiment with Jim).

If the pixel values do not start at the beginning of your binary input files, or if there is additional data between the data for individual slices, then enter the data offsets (in bytes) in the Data offset fields:

raw_data_offsets

In the example above, the data for the first slice of the image starts at an offset of 1024 bytes into the input files(s), and there are 512 bytes of non-image data between slices in the input file(s). If each file contains only one slice of image data, then the second offset value is ignored.

Now tell the Raw Converter how to combine the input data into images. Specify:

Now choose the format of the image to be created. Select:

When ready, press the convert_button button to begin conversion of your raw data files.

Depending on whether your selection load_save, the converted image will either be loaded into Jim, or a file chooser will pop up for you to enter an file name for the new image.

Depending on the datatype you have selected for the output image, you may receive a pop-up message warning that the input data may need to be clipped to fit into the data range of the output image. For example, if you select Short as the input datatype, and UByte as the output pixel type, then you will see:

clip_or_cancel

Since short (16-bit) values range from -32768 to 32767, it is not possible to store these within the range of unsigned byte values (range: 0 to 255). If "Clip if necessary" is selected, the pixel values in the input data above 255 will be set to a value of 255, and those below 0 will be set to 0 in the output image.

Click the done_button button when you have finished with the Raw Converter.

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