Hi Sjors,
thanks a lot, "--dont_combine_weights_via_disc" worked!
Giulia
On 12/01/2015 22:02, Sjors Scheres wrote:
> Hi Giulia,
> 4Gb of RAM does not sound like a lot. That might be the limiting factor,
> though the program would crash rather than give non-sense. Have you tried
> to combine the results through the network instead of through the disc
> (--dont_combine_weights_via_disc)?
> Best,
> Sjors
>
>> Hi Sjors and everyone.
>>
>> I am having issues with 3D refinement in relion1.3. It runs fine until
>> the last step, producing nice looking 3D half maps.
>> After the final iteration I get the two _unfil.mrc maps, and they are
>> not right. Sometimes both of them, sometimes only one, they show weird
>> streaks, and obviously my final result does not make sense.
>>
>> This is remarkably similar to what Mike Cianfrocco had reported
>> previously in this thread, although he solved the issue by increasing
>> available disk space (temporary needs seem quite high for the last
>> refinement step). I have >1T of space left (and <2G of data) so that is
>> not my problem, also memory seems not to be the issue (I have 4G
>> available and the log file tells me >1.05G are needed for expectation
>> step).
>>
>> I started having this problem only when I started using a new cluster
>> for testing. The same dataset runs just fine on our local 48 core
>> machines. The main difference between the two systems is that our
>> machines (where refinement works) are AMD and the cluster (where I have
>> the problem), is Intel.
>> I should mention the cluster allows 2D and 3D classification to run to
>> the end with no problems.
>>
>> Any help with this would be greatly appreciated!
>>
>> Thanks!
>> Giulia
>>
>> --
>> Giulia Zanetti
>> ISMB, Birkbeck College
>> Malet St. London
>> WC1E 7HX
>> 02076316898
>>
>
--
Giulia Zanetti
ISMB, Birkbeck College
Malet St. London
WC1E 7HX
02076316898
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