microscope_db.py

"""
Contains electron microscope constants.

# Author: Vladan Lucic (Max Planck Institute for Biochemistry)
# $Id$
"""

__version__ = "$Revision$"


#####################################################
#
# Initialize
#

# pixelsize (in pm) at the specimen level for different nominal magnifications 
pixelsize = {}

# physical CCD pixelsize (in um)
ccd_pixelsize = {}

# number of pixels on CCD
n_pixels = {}

# nominal magnification for different real magnifications
nominal_mag = {}

# number of counts per electron
conversion = {}


###################################################
#
# Titan 2 with K2 in counting mode recorded with SerialEM
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['titan-2_k2-count_sem'] = {}

# counts per electron
conversion['titan-2_k2-count_sem'] = 15


###################################################
#
# Polara 2 with K2 in counting mode recorded with SerialEM
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['polara-2_k2-count_sem'] = {}

# counts per electron
conversion['polara-2_k2-count_sem'] = 19

# CCD pixel size
#ccd_pixelsize['polara-2_01-09'] = 30000

# number of pixels at CCD
#n_pixels['polara-2_01-09'] = 2048


###################################################
#
# Polara 1 from 01.07
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['polara-1_01-07'] = { 18000 : 1230,
                                22500 : 979,
                                27500 : 805,
                                34000 : 661,
                                41000 : 545,
                                50000 : 446,
                                61000 : 364}

# counts per electron
conversion['polara-1_01-07'] = 5.91

# CCD pixel size
ccd_pixelsize['polara-1_01-07'] = 30000

# number of pixels at CCD
n_pixels['polara-1_01-07'] = 2048


###################################################
#
# Polara 1 from 01.09
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['polara-1_01-09'] = pixelsize['polara-1_01-07']

# counts per electron
conversion['polara-1_01-09'] = 2.3

# CCD pixel size
ccd_pixelsize['polara-1_01-09'] = 30000

# number of pixels at CCD
n_pixels['polara-1_01-09'] = 2048


###################################################
#
# Polara 2 from 01.09
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['polara-2_01-09'] = {9300 : 1372,
                               13500 : 956,
                               18000 : 713,
                               22500 : 572,
                               27500 : 468,
                               34000 : 381}

# counts per electron
conversion['polara-2_01-09'] = 8.1

# CCD pixel size
ccd_pixelsize['polara-2_01-09'] = 30000

# number of pixels at CCD
n_pixels['polara-2_01-09'] = 2048


###################################################
#
# Krios 2, Falcon detector from 09.2011
#

# screen up (nominal) magnification vs. pixel size [fm] (at specimen level)
pixelsize['krios-2_falcon_05-2011'] = {
    18000 : 475}

# counts per electron (JP 12.2011)
conversion['krios-2_falcon_05-2011'] = 134.

# CCD pixel size (not determined yet)
ccd_pixelsize['krios-2_falcon_05-2011'] = 1

# number of pixels at CCD
n_pixels['krios-2_falcon_05-2011'] = 4096


###################################################
#
# F20 eagle camera
#

# screen up (nominal) magnification vs. pixel size [fm] (at specimen level)
pixelsize['f20_eagle'] = {}

# counts per electron 
conversion['f20_eagle'] = 73.


###################################################
#
# CM 300
#

# screen up (nominal) magnification vs. pixel size (at specimen level)
pixelsize['cm300'] = { 13500 : 1147,
                       17500 : 821,
                       23000 : 682,
                       27500 : 547
                       }

nominal_mag['cm300'] = { 26157 : 13500,
                        36527 : 17500,
                        43974 : 23000,
                        54844 : 27500
                        }

# counts per electron
conversion['cm300'] = 5.5

# CCD pixel size
ccd_pixelsize['cm300'] = 30000

# number of pixels at CCD
n_pixels['cm300'] = 2048