Copying Data

paths

  • grep /nfs/ on all code in Rfam to get a list of distinct paths in the code

  • Rfam.conf

  • rfam-family-pipeline/Rfam/Conf/rfam_local.conf

  • rfamprod .bashrc

  • all aliases

  • rh74 all

  • soft all

  • rfamprod folder

datamover queue

  • need to use the datamover queue to transfer between noah and codon, e.g.

bsub -n 4 -q datamover "/hps/software/copytools/msrsync/msrsync 
hps/nobackup/production/xfam/rfam/RELEASES /nfs/production/agb/rfam/"

folders to copy

  • folders to copy in to /nfs/production/agb/rfam

    • /hps/ebi/nobackup/production/xfam/rfam/RELEASES

    • /nfs/ebi/production/xfam/users/rfamprod

    • /hps/ebi/nobackup/production/xfam/rfam/

    • /hps/ebi/nobackup2/production/xfam/rfam/

    • /nfs/ebi/production/xfam/rfam/rfamseq

  • Copying data from all aliases

    • alias cd_prod=’cd /nfs/production/xfam/users/rfamprod’

    • alias cd_rh74=’cd /nfs/production/xfam/rfam/rfam_rh74’

    • /nfs/production/agb/rfam/software = rh74 stuff

    • alias cd_rfamp=’cd /nfs/production/xfam/users/rfamprod/rfamp/’

    • alias cd_rfam=’cd /nfs/production/xfam/rfam/rfam_rh74/production_software/rfam_production/rfam-family-pipeline/Rfam’

    • alias cd_soft=’cd /nfs/production/xfam/rfam/rfam_rh74/software’

    • alias cd_lib=’cd /nfs/production/xfam/rfam/rfam_rh74/production_software/rfam_production/rfam-family-pipeline/Rfam/Lib/Bio/Rfam’

    • alias cd_hps=’cd /hps/nobackup/production/xfam/rfam’

    • alias cd_gpfs=’cd /gpfs/nobackup/xfam/rfam’ - no such file or directory

    • alias cd_code=’cd /nfs/production/xfam/users/rfamprod/code’

    • alias cd_rel=’cd /hps/nobackup/production/xfam/rfam/RELEASES’

    • alias cd_main=’cd /nfs/production/xfam/rfam’

    • alias cd_gens=’cd /hps/nobackup/production/xfam/rfam/genome_datasets’

    • alias cd_rfamseq=’cd /nfs/production/xfam/rfam/rfamseq’

    • alias cd_megs=’cd /hps/nobackup/production/xfam/rfam/METAGENOMICS’

    • alias cd_hps2=’cd /hps/nobackup2/production/rfam’

    • alias cd_mir=’cd /hps/nobackup/production/xfam/rfam/RELEASES/14.3’

    • alias cd_ftp=’cd /ebi/ftp/pub/databases/Rfam’

    • alias search_dumps=’cd /nfs/production/xfam/rfam/search_dumps’

    • /nfs/ftp/public/databases/Rfam/

    • /nfs/ftp/pub/databases/Rfam/.preview/