EMAN2 uses a unique name to reference each image header attribute. The following table lists the conventions:
Attribute Name | Data Type | Attribute Description |
---|---|---|
apix_x | float | pixel x size in Å |
apix_y | float | pixel y size in Å |
apix_z | float | pixel z size in Å |
nx | int | image x-direction size in number of pixels |
ny | int | image y-direction size in number of pixels |
nz | int | image z-direction size in number of pixels |
origin_row | float | origin location along row (x) in number of pixels |
origin_col | float | origin location along column (y) in number of pixels |
origin_sec | float | origin location along section (z) in number of pixels |
minimum | float | minimum pixel density value in the image |
maximum | float | maximum pixel density value in the image |
mean | float | mean pixel density value in the image |
sigma | float | sigma pixel density value in the image |
square_sum | float | sum of the squares of each pixel density value in the image |
mean_nonzero | float | mean pixel density value in the image, ignoring pixel whose value =0. |
sigma_nonzero | float | sigma pixel density value in the image, ignoring pixel whose value =0. |
kurtosis | float | kurtosis pixel density value in the image |
skewness | float | skewness pixel density value in the image |
orentation_convention | string | Euler orientation Convention, "EMAN", "MRC", etc |
rot_alt | float | EMAN convention: alt |
rot_az | float | EMAN convention: az |
rot_phi | float | EMAN convention: phi |
datatype | int | pixel data type in the image physical file (e.g., float, int, double, etc). This is an enumeration type. |
is_complex | int | 1 if this image is a complex image. 0 if it is a real image. |
is_ri | int | 1 if this is a complex image and is in real/imaginary format; 0 otherwise. |
avgnimg | int | If the image is the result of averaging, avgnimg is the number of images used in averaging. Otherwise, avgnimg is 0. |
label | string | user-defined label for this image. It is like 'name' in EMAN1. |
image_filename | string | the physical image filename where this image comes from. |
image_index | int | image number in file pointed to by path. |
DM3.exposure_number | int | DM3 image only. exposure number. |
DM3.exposure_time | double | DM3 image only. exposure time in seconds. |
DM3.zoom | double | zoom |
DM3.antiblooming | int | antiblooming |
DM3.magnification | double | Indicated magnification |
DM3.frame_type | string | frame_type |
DM3.camera_x | int | DM3 image only. camera size along x direction in number of pixels. |
DM3.camera_y | int | DM3 image only. camera size along y direction in number of pixels. |
DM3.binning_x | int | DM3 image only. Binning #0 |
DM3.binning_y | int | DM3 image only. Binning #1 |
MRC.nlabels | int | MRC image only. Number of comment labels in a MRC image. |
MRC.labelN | string | MRC image only. The Nth label, where N is an integer from 1 to 10. |
LST.filenum | int | LIST image only, file number in FileSystem server |
LST.reffile | string | LIST image only, reference file |
LST.refn | int | LIST image only, reference image number |
LST.comment | string | LIST image only, comment |
micrograph_id | string | Micrograph ID. |
particle_center_x | float | x coordinate of particle location in the micrograph |
partcle_center_y | float | y coordinate of particle location in the micrograph |
ctf_dimension | int | CTF dimension, nD, where n is 1, 2, or 3. |