Hi,
Thanks for information.
The size indicates that EPU saves the gain reference
in super-resolution even when you are collecting in the
non-super resolution mode.
I don't know if this is intended behavior or a bug.
I also don't know what is the best way to down-size the
super-resolution gain reference into 5760 x 4092 pixels.
Fourier cropping? Or just summing 2x2 pixels in the real space?
Can somebody on the list comment? Or can you ask this to
Gatan and TF engineers?
Best regards,
Takanori Nakane
> Hi,
>
>
> No I don't use super resolution.
>
>
> The header from gain is:
>
> RO image file on unit 1 :
> FoilHole_6873894_Data_6874760_6874762_20190807_1659_gain.tiff Size=
> 68068 K
>
> This is a TIFF file.
>
> Number of columns, rows, sections ..... 11520 8184 1
> Map mode .............................. 0 (byte)
> Start cols, rows, sects, grid x,y,z ... 0 0 0 11520 8184
> 1
> Pixel spacing (Angstroms).............. 1.000 1.000 1.000
> 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
> Maximum density ....................... 255.00
> Mean density .......................... 127.50
> 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
>
> 0 Titles :
>
> The header from the movie is:
>
>
> RO image file on unit 1 :
> FoilHole_6873900_Data_6874760_6874762_20190807_1703_fractions.tiff
> Size= 158758 K
>
> This is a TIFF file.
>
> Number of columns, rows, sections ..... 5760 4092 37
> Map mode .............................. 0 (byte)
> Start cols, rows, sects, grid x,y,z ... 0 0 0 5760 4092
> 37
> Pixel spacing (Angstroms).............. 1.000 1.000 1.000
> 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
> Maximum density ....................... 255.00
> Mean density .......................... 127.50
> 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
>
> 0 Titles :
>
>
> ________________________________
> From: Takanori Nakane <[log in to unmask]>
> Sent: Thursday, August 8, 2019 2:51:43 PM
> To: Yehuda Halfon <[log in to unmask]>
> Cc: [log in to unmask] <[log in to unmask]>
> Subject: Re: [ccpem] The new embedded K3 in EPU gain reference file
>
> Hi,
>
> I need sample files to investigate this issue.
>
> Are you using super-resolution?
>
> Can you run IMOD's "header" command on both the gain reference
> and the movie from EPU?
>
> Best regards,
>
> Takanori Nakane
>
>> Hi all,
>>
>> We just got an update for EPU that let us work with K3.
>>
>> In it we can now save files in LZW tif without the gain. However the
>> gain
>> file is also in tiff and in its size (in pixels) is bigger but the ratio
>> is the same. Relion complains about it and won't do mcorr. So I resized
>> it
>> to the K3 size, converted it to mrc using tif2mrc, and now everything
>> works fine.
>>
>>
>> I have 2 questions:
>>
>> 1) Is the resizing it will make the mcorr run worst?
>>
>> 2) Anyone knows if I can save the gain file in mrc in the correct size?
>> (like from GMS?)
>>
>>
>> Thanks,
>>
>>
>> Yehuda Halfon
>>
>> ########################################################################
>>
>> To unsubscribe from the CCPEM list, click the following link:
>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1
>>
>
>
>
########################################################################
To unsubscribe from the CCPEM list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1
|