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Rosetta lack of necessary application

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Rosetta lack of necessary application
#1

Hi

    when i learn denovo_model_building from demos/public/electron_density_structure_refinement.In step 1 and step2 ,they ask for place_fragment_into_density.linuxgccrelease,  cal_overlap_score.static.linuxgccrelease,cal_nonoverlap_score.static.linuxgccrelease.In my rosetta 3.0 i can not find these application.I dont know why,thanks for help

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Wed, 2018-11-07 01:13
ylwang

Those applications actually shouldn't be needed anymore. The functionality has been rolled into the denovo_density application itself.

Please see https://faculty.washington.edu/dimaio/files/rosetta_density_tutorial_aug18.pdf  and https://faculty.washington.edu/dimaio/files/rosetta_density_demo_aug18.tgz for updated tutorials.

Thu, 2018-11-08 06:41
rmoretti

Thank you for your help.The file you offer i had download ,however,it mentions about denovo_density.macosclangrelease that rosetta does not exist.I use denovo_density.linuxgccrelease  instead and get some error in doing A_searsh.sh:

I get all .pdb file -- 50 for each pos-- but no silent file ,which said

protocols.electron_density.DockIntoDensityMover: Have 100 total solutions after refinement
./A_search.sh: 13: ./A_search.sh: -clust_radius: not found

im sure i set -clust_radiu 3 but it seems does not work

Tue, 2018-11-13 00:41
ylwang