[phenixbb] sequence file error in phenix map-to-model

[Raja Dey]

Sorry, the error message is
D41-st-Trx-sequence.txt is not a known sequence type.

Can someone help solving this problem?

Best regards,
Raja

On Mon, Dec 20, 2021 at 12:02 PM Raja Dey <rddey80 at gmail.com> wrote:

> Hi,
> I am getting an error with the sequence file attached. Could you please
> tell me what's wrong with this file? The error is enclosed below:
> Starting phenix
> on Mon Dec 20 11:45:46 2021 by rdey
>
> ===============================================================================
>
> Processing files:
>
> -------------------------------------------------------------------------------
>
>   Found phil,
> /atavium/home/jfrench/rdey/st_JF/.phenix/project_data/map_to_model_8.eff
>
> Processing PHIL parameters:
>
> -------------------------------------------------------------------------------
>
>   Adding PHIL files:
>   ------------------
>
> /atavium/home/jfrench/rdey/st_JF/.phenix/project_data/map_to_model_8.eff
>
> Processing files from PHIL:
>
> -------------------------------------------------------------------------------
>
>   Found real_map,
> /atavium/home/jfrench/rdey/st_JF/cryosparc_P11_J139_008_volume_map_half_A.mrc
>
>   Files not used by program:
>   --------------------------
>   /atavium/home/jfrench/rdey/st_JF/D41-st-Trx-sequence.txt
>   /atavium/home/jfrench/rdey/st_JF/p11_j140_sharpened-map_box.ncs_spec
>
> Final processed PHIL parameters:
>
> -------------------------------------------------------------------------------
>   data_manager {
>     real_map_files =
> "/atavium/home/jfrench/rdey/st_JF/cryosparc_P11_J139_008_volume_map_half_A.mrc"
>     default_real_map =
> "/atavium/home/jfrench/rdey/st_JF/cryosparc_P11_J139_008_volume_map_half_A.mrc"
>     phil_files =
> "/atavium/home/jfrench/rdey/st_JF/.phenix/project_data/map_to_model_8.eff"
>     default_phil =
> "/atavium/home/jfrench/rdey/st_JF/.phenix/project_data/map_to_model_8.eff"
>   }
>   input_files {
>     map_file =
> /atavium/home/jfrench/rdey/st_JF/cryosparc_P11_J139_008_volume_map_half_A.mrc
>     seq_file = /atavium/home/jfrench/rdey/st_JF/D41-st-Trx-sequence.txt
>     ncs_file =
> /atavium/home/jfrench/rdey/st_JF/p11_j140_sharpened-map_box.ncs_spec
>   }
>   reconstruction_symmetry {
>     symmetry = """D2"""
>   }
>   control {
>     nproc = 2
>   }
>   job_title = """D41-st-Trx-19Dec21"""
>
>
> Starting job
>
> ===============================================================================
> Validating inputs
>
>
> Thanks a lot for your time.
> Regards,
> Raja
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://phenix-online.org/pipermail/phenixbb/attachments/20211220/9dd59e30/attachment.htm>