[3dem] EER home-made?

[Stahlberg Henning]

Dear Takanori,
This is for diffractive imaging using a hybrid pixel detector camera, running at 8000 fps or much faster (Dectris' ARINA will go up to 120000 fps). The frames are small and usually contain only few electrons.
Saving 512x512px @ 8bit with 8000 fps to disk will result in 4.2 Gigabytes per second, or 15 Terabytes per hour, of data that mostly contain zeros. EER is preferred. 
Best, Henning.

Henning Stahlberg
Laboratory of Biological Electron Microscopy
Institute of Physics, School of Basic Sciences, EPFL, and
Dep. of Fund. Microbiology, Faculty of Biology and Medicine, UNIL, 
Cubotron, BSP421, 1015 Lausanne, Switzerland
lbem.epfl.ch <https://urldefense.com/v3/__http://lbem.epfl.ch__;!!Mih3wA!B2yA4FQMh8LHBiA_4RL2NMcKgsMCnrwjPS3lAXkCaYOorh5aboWWgzCAe7pmQjrM7w4j1vZ7633nTw-SU3xDWill5BsS0Rg$  > ,   +41 21 693 45 07

On 27.10.22, 15:38, "3dem on behalf of Takanori Nakane" <3dem-bounces at ncmir.ucsd.edu on behalf of tnakane.protein at osaka-u.ac.jp> wrote:

    Hi,

    Why do you want to do this?

    EER is not an efficient format in terms of the compression ratio.

    Also note that RELION's EER parser is hard coded for 4096 pixels and does not accept
    other sizes.

    Best regards,

    Takanori Nakane

    On 2022/10/27 22:25, Stahlberg Henning wrote:
    > Hi,
    > 
    > Does anybody know if there is a public domain software available that can translate an EM image into a list of electron event recordings (EER file), 
    > assuming the image is mostly black and has only a hand-full of electron impacts on it?
    > 
    > Obviously, that should at least run on a GPU, if not more specialized hardware. Dark-field, flat-field and PSF should be refined on the fly.
    > 
    > Henning.
    > 
    > *Henning Stahlberg*
    > Laboratory of Biological Electron Microscopy
    > Institute of Physics, School of Basic Sciences, EPFL, and
    > Dep. of Fund. Microbiology, Faculty of Biology and Medicine, UNIL,
    > Cubotron, BSP421, 1015 Lausanne, Switzerland
    > lbem.epfl.ch 
    > <https://urldefense.com/v3/__http://lbem.epfl.ch__;!!Mih3wA!EgSsjtPxILdQGBLYCe6YvOsUEdERiq0QhPq_T9khPOdej8-aPP_32UVqQGh1YUX8Nm__I_Zq2QW4B9Tll2iUskEiAQTVUQc$>
    > 
    > 
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