Hi Alex,
I'm re-build the tomograms in Etomo but I'm having an issue after scanning the header since the Tilt axis angle is missing the after unpacking. Here are the two header :
raw data header:
RO image file on unit 1 : Cc_mutant8a.mrc Size= 1519161 K
Number of columns, rows, sections ..... 5760 4092 33
Map mode .............................. 1 (16-bit integer)
Start cols, rows, sects, grid x,y,z ... 0 0 0 5760 4092 33
Pixel spacing (Angstroms).............. 3.360 3.360 3.360
Cell angles ........................... 90.000 90.000 90.000
Fast, medium, slow axes ............... X Y Z
Origin on x,y,z ....................... 0.000 0.000 0.000
Minimum density ....................... -47.000
Maximum density ....................... 915.00
Mean density .......................... 175.89
tilt angles (original,current) ........ 0.0 0.0 0.0 0.0 0.0 0.0
Space group,# extra bytes,idtype,lens . 0 5120 0 0
SerialEM: Acquired by K3 on Caltech Krios 07-Aug-19 21:11:53
Tilt axis angle = 85.5, binning = 1 spot = 5 camera = 0 bidir = 0.0
jpeg unpacked header:
RO image file on unit 1 : packed_Cc_mutant8a.mrc_header.npy.mrc Size= 759578 K
Number of columns, rows, sections ..... 5760 4092 33
Map mode .............................. 0 (bytes - signed in file)
Start cols, rows, sects, grid x,y,z ... 0 0 0 5760 4092 1
Pixel spacing (Angstroms).............. 3.360 3.360 110.9
Cell angles ........................... 90.000 90.000 90.000
Fast, medium, slow axes ............... X Y Z
Origin on x,y,z ....................... 0.000 0.000 0.000
Minimum density ....................... 0.0000 ( -128.00 in file)
Maximum density ....................... 248.00 ( 120.00 in file)
Mean density .......................... 58.578 ( -69.422 in file)
RMS deviation from mean................ 19.526
tilt angles (original,current) ........ 0.0 0.0 0.0 0.0 0.0 0.0
Space group,# extra bytes,idtype,lens . 0 0 0 0
Created by mrcfile.py 2024-10-03 11:06:27
Do you have an idea of the problem?
Best,
Stefano
Hi Alex,
I'm re-build the tomograms in Etomo but I'm having an issue after scanning the header since the Tilt axis angle is missing the after unpacking. Here are the two header :
raw data header:
RO image file on unit 1 : Cc_mutant8a.mrc Size= 1519161 K
Number of columns, rows, sections ..... 5760 4092 33
Map mode .............................. 1 (16-bit integer)
Start cols, rows, sects, grid x,y,z ... 0 0 0 5760 4092 33
Pixel spacing (Angstroms).............. 3.360 3.360 3.360
Cell angles ........................... 90.000 90.000 90.000
Fast, medium, slow axes ............... X Y Z
Origin on x,y,z ....................... 0.000 0.000 0.000
Minimum density ....................... -47.000
Maximum density ....................... 915.00
Mean density .......................... 175.89
tilt angles (original,current) ........ 0.0 0.0 0.0 0.0 0.0 0.0
Space group,# extra bytes,idtype,lens . 0 5120 0 0
SerialEM: Acquired by K3 on Caltech Krios 07-Aug-19 21:11:53
Tilt axis angle = 85.5, binning = 1 spot = 5 camera = 0 bidir = 0.0
jpeg unpacked header:
RO image file on unit 1 : packed_Cc_mutant8a.mrc_header.npy.mrc Size= 759578 K
Number of columns, rows, sections ..... 5760 4092 33
Map mode .............................. 0 (bytes - signed in file)
Start cols, rows, sects, grid x,y,z ... 0 0 0 5760 4092 1
Pixel spacing (Angstroms).............. 3.360 3.360 110.9
Cell angles ........................... 90.000 90.000 90.000
Fast, medium, slow axes ............... X Y Z
Origin on x,y,z ....................... 0.000 0.000 0.000
Minimum density ....................... 0.0000 ( -128.00 in file)
Maximum density ....................... 248.00 ( 120.00 in file)
Mean density .......................... 58.578 ( -69.422 in file)
RMS deviation from mean................ 19.526
tilt angles (original,current) ........ 0.0 0.0 0.0 0.0 0.0 0.0
Space group,# extra bytes,idtype,lens . 0 0 0 0
Created by mrcfile.py 2024-10-03 11:06:27
Do you have an idea of the problem?
Best,
Stefano