Hi,
> the particle picking less accurate.
In practice, the difference is very small.
I always use shrink = 0.
Best regards,
Takanori Nakane
> Hi,
>
> It resolved the issue but just interested to know how does shrink=0
> affects
> autopicking. As mentioned in relion 2.1 manual, it suggests that keeping
> shrink=0 makes the particle picking less accurate. From what I understand,
> there seems to a kind of tradeoff between accurate particle picking and
> memory needed. I used shrink=1 in another dataset that I have and it
> perfectly ended with gpu in very less time (and practically very good
> picking). Has anyone practical experience of trying and actually checking
> the quality of picking in both the cases.?
>
> Thanks & Regards
> ================
>
> Haaris Ahsan Safdari <https://www.linkedin.com/feed/?trk=>,
>
> PhD student (Pre-Doctoral Fellow)
> C/o Dr Somnath Dutta <http://www.duttasn.com/>,
> Molecular Biophysics Unit <http://mbu.iisc.ac.in/>,
> Indian Institute of Science <http://iisc.ac.in/>
> Bengaluru- 560012, India
> Email: [log in to unmask]
>
> Mob: +91-8218170297
>
>
> [image: Mailtrack]
> <https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&>
> Sender
> notified by
> Mailtrack
> <https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&>
> 10/23/18,
> 10:14:36 PM
>
> On Tue, Oct 23, 2018 at 6:39 PM Takanori Nakane
> <[log in to unmask]>
> wrote:
>
>> Hi,
>>
>> As the error message suggests, try setting 'Shrink factor' (in
>> the autopicking tab) to 0.
>>
>> Also, please paste errors as TEXT, not as screenshot.
>> Images are bigger and cannot be searched.
>>
>> Best regards,
>>
>> Takanori Nakane
>>
>> > Hi,
>> >
>> > Please find attached the full error log.
>> >
>> > Thanks & Regards
>> > ================
>> >
>> > Haaris Ahsan Safdari <https://www.linkedin.com/feed/?trk=>,
>> >
>> > PhD student (Pre-Doctoral Fellow)
>> > C/o Dr Somnath Dutta <http://www.duttasn.com/>,
>> > Molecular Biophysics Unit <http://mbu.iisc.ac.in/>,
>> > Indian Institute of Science <http://iisc.ac.in/>
>> > Bengaluru- 560012, India
>> > Email: [log in to unmask]
>> >
>> > Mob: +91-8218170297
>> >
>> > [image: Mailtrack]
>> > <
>> https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&
>> >
>> > Sender
>> > notified by
>> > Mailtrack
>> > <
>> https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&
>> >
>> > 10/23/18,
>> > 5:32:51 PM
>> >
>> > On Tue, Oct 23, 2018 at 5:27 PM Takanori Nakane
>> > <[log in to unmask]>
>> > wrote:
>> >
>> >> Hi,
>> >>
>> >> Please paste your FULL error log as text.
>> >> Screenshot shows only the last few lines.
>> >>
>> >> In addition, please try RELION 3.0 beta as well.
>> >> It might be a bug already fixed in the latest version.
>> >>
>> >> Best regards,
>> >>
>> >> Takanori Nakane
>> >>
>> >> > Hi,
>> >> >
>> >> > I tried to run autopicking job with gpu but it crashed and is not
>> >> running.
>> >> > I checked this thing by typing "top" in linux terminal.
>> >> > The screenshot of error is attached herewith. Can anyone please
>> >> suggest
>> >> > possible solution for this?
>> >> >
>> >> > Thanks & Regards
>> >> > ================
>> >> >
>> >> > Haaris Ahsan Safdari <https://www.linkedin.com/feed/?trk=>,
>> >> >
>> >> > PhD student (Pre-Doctoral Fellow)
>> >> > C/o Dr Somnath Dutta <http://www.duttasn.com/>,
>> >> > Molecular Biophysics Unit <http://mbu.iisc.ac.in/>,
>> >> > Indian Institute of Science <http://iisc.ac.in/>
>> >> > Bengaluru- 560012, India
>> >> > Email: [log in to unmask]
>> >> >
>> >> > Mob: +91-8218170297
>> >> >
>> >> > [image: Mailtrack]
>> >> > <
>> >>
>> https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&
>> >> >
>> >> > Sender
>> >> > notified by
>> >> > Mailtrack
>> >> > <
>> >>
>> https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality5&
>> >> >
>> >> > 10/23/18,
>> >> > 5:02:25 PM
>> >> >
>> >> >
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