[3dem] Difference between ".box" co-ordinate files for EMAN1 and EMAN2

[Carlos Oscar Sorzano]

Dear Saikat,

if the only difference between EMAN1 and EMAN2 box files is an extra 
column at the end. You may simply change the line saying

if len(lista) == 5:

in http://xmipp.cnb.csic.es/twiki/pub/Xmipp/FAQ/Boxer2mark.py.txt by

if len(lista) == 6:

Please, let us know if this solved your problem.

Kind regards, Carlos Oscar

On 29/06/2011 1:01, Steven Ludtke wrote:
> As I recall, the last column is used in EMAN1 and EMAN2 when boxing 
> out long cylindrical objects
> (filaments) as a series of smaller boxes.  You can just ignore that 
> number. I can't help you fix XMIPP,
> but it sounds like about a 30 second job to fix ...
> ----------------------------------------------------------------------------
> Steven Ludtke, Ph.D.
> Associate Professor, Dept. of Biochemistry and Mol. Biol.      Those 
> who do
> Co-Director National Center For Macromolecular Imaging           ARE
> Baylor College of Medicine                                     The 
> converse
> sludtke at bcm.edu <mailto:sludtke at bcm.edu>  -or- 
> stevel at alumni.caltech.edu <mailto:stevel at alumni.caltech.edu>           
>     also applies
> http://ncmi.bcm.edu/~stevel <http://ncmi.bcm.edu/%7Estevel>
>
> On Jun 28, 2011, at 6:54 PM, SAIKAT CHOWDHURY wrote:
>
>> Hi,
>> I have recently encountered a problem with converting EMAN2 box 
>> co-ordinates into XMIPP ".pos" file using the Boxer2mark.py script 
>> from XMIPP (http://xmipp.cnb.csic.es/twiki/bin/view/Xmipp/FAQ). I 
>> realized that the ".box" files from EMAN2 has one column less than 
>> EMAN1 ".box" files. Does any body know what is the last column or 
>> additional column in EMAN1 for? Is there any way one can convert 
>> several EMAN2- ".box" files to EMAN1- ".box" files in batch mode?
>> Thanks
>> Saikat
>>
>> SAIKAT CHOWDHURY
>> Graduate Student(PhD)
>> 405 South Frear Laboratory
>> Department of Biochemistry & Molecular Biology
>> The Pennsylvania State University
>> University Park
>> PA 16802
>>
>>
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>
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-- 
------------------------------------------------------------------------
Carlos Oscar Sánchez Sorzano                  e-mail:   coss at cnb.csic.es
Biocomputing unit                             http://biocomp.cnb.csic.es
National Center of Biotechnology (CSIC)
c/Darwin, 3
Campus Universidad Autónoma (Cantoblanco)     Tlf: 34-91-585 4510
28049 MADRID (SPAIN)                          Fax: 34-91-585 4506
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