Don't even need cat simply do grep PPC ref.pdb > tar_i.pdb
redirecting std out with > appends it directly to the file (after the last line) Cheers On 9/5/14 6:48 PM, James Starlight wrote: > Dear Pymol users! > > I've decided to open new topic focused on the implementation of the > common shell utilities like grep awk and sed for the structural > bioinformatics tasks like processing and editing of the large sets of pdbs. > > In my current task I need to copy all lipids from one pdb (called it > ref) to another call it tar_i.pdb (both files have the same 3D shape and > have been superimposed before that): so in that case I guess lipids > could be recognized by residue name in pdb file (PPC) as well as by its > #4 column number (what is actually do grep). So the algorithm might be: > select from the ref.pdb all strings where #4 column is PPC and merge it > (by means of CAT I guess) with the tar_i.pdb. Please show me some > example of the one-line method of this realization. > > Thanks, > > James > > > ------------------------------------------------------------------------------ > Slashdot TV. > Video for Nerds. Stuff that matters. > http://tv.slashdot.org/ > > > > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > -- Gianluca Santoni, Dynamop Group Institut de Biologie Structurale 6 rue Jules Horowitz 38027 Grenoble Cedex 1 France _________________________________________________________ Please avoid sending me Word or PowerPoint attachments. See http://www.gnu.org/philosophy/no-word-attachments.html ------------------------------------------------------------------------------ Slashdot TV. Video for Nerds. Stuff that matters. http://tv.slashdot.org/ _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
