profphd_1.0.42-1_all.deb


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Description

profphd - secondary structure and solvent accessibility predictor

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe amd64
Package name: profphd
Package version: 1.0.42
Package release: 1
Package architecture: all
Package type: deb
Installed size: 25.58 KB
Download size: 4.33 MB
Official Mirror: archive.ubuntu.com
This package provides prof(1), the protein secondary structure, accessibility and transmembrane helix predictor from Burkhard Rost. Prediction is either done from protein sequence alone or from an alignment - the latter should be used for optimal performance. How well does prof(1) perform? * Secondary structure is predicted at an expected average accuracy > 72% for the three states helix, strand and loop. * Solvent accessibility is predicted at a correlation coefficient (correlation between experimentally observed and predicted relative solvent accessibility) of 0.54 * Transmembrane helix prediction has an expected per-residue accuracy of about 95%. The number of false positives, i.e., transmembrane helices predicted in globular proteins, is about 2%.

Alternatives

Conflicts

  • profphd-data
  • profphd-perl

Replaces

  • profphd-data
  • profphd-perl

    Download

    Binary package: profphd_1.0.42-1_all.deb
    Source package: profphd

    Install Howto

    1. Update the package index:
      # sudo apt-get update
    2. Install profphd deb package:
      # sudo apt-get install profphd

    Files

    • /usr/bin/prof
    • /usr/share/doc/profphd/AUTHORS
    • /usr/share/doc/profphd/README.Debian
    • /usr/share/doc/profphd/README.gz
    • /usr/share/doc/profphd/changelog.Debian.gz
    • /usr/share/doc/profphd/copyright
    • /usr/share/man/man1/prof.1.gz
    • /usr/share/profphd/prof/prof
    • /usr/share/profphd/prof/prof.pl
    • /usr/share/profphd/prof/profconv
    • /usr/share/profphd/prof/embl/phd.pl
    • /usr/share/profphd/prof/embl/mat/Doc-phd-code.pl
    • /usr/share/profphd/prof/embl/mat/Maxhom_Blosum.metric
    • /usr/share/profphd/prof/embl/mat/Maxhom_GCG.metric
    • /usr/share/profphd/prof/embl/mat/Maxhom_McLachlan.metric
    • /usr/share/profphd/prof/embl/mat/Maxhom_Sec_Struc.metric
    • /usr/share/profphd/prof/embl/mat/Maxhom_Struc_IO.metric
    • /usr/share/profphd/prof/embl/mat/__THESE_METRIC_FILES_ARE_IDENTICAL_TO_THOSE_IN_PROF-MAT__
    • /usr/share/profphd/prof/embl/mat/abbrPhd3.txt
    • /usr/share/profphd/prof/embl/mat/abbrPhdAcc.txt
    • /usr/share/profphd/prof/embl/mat/abbrPhdBoth.txt
    • /usr/share/profphd/prof/embl/mat/abbrPhdHtm.txt
    • /usr/share/profphd/prof/embl/mat/abbrPhdRdb3.txt
    • /usr/share/profphd/prof/embl/mat/abbrPhdSec.txt
    • /usr/share/profphd/prof/embl/mat/headPhd3.txt
    • /usr/share/profphd/prof/embl/mat/headPhdAcc.txt
    • /usr/share/profphd/prof/embl/mat/headPhdBoth.txt
    • /usr/share/profphd/prof/embl/mat/headPhdConcise.txt
    • /usr/share/profphd/prof/embl/mat/headPhdHtm.txt
    • /usr/share/profphd/prof/embl/mat/headPhdSec.txt
    • /usr/share/profphd/prof/embl/mat/help-manual.txt
    • /usr/share/profphd/prof/embl/mat/help-options.txt
    • /usr/share/profphd/prof/embl/net/Exp152x-15rc.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-15rcc.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/Exp152x-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rccld-A1.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rcic-A1.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rcicld-A1.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-w9-15rccld-A1.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-w9-15rcicld-A1.DAT
    • /usr/share/profphd/prof/embl/net/Exp252x-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Exp317x-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp317x-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/Exp317x-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Exp317x-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/Exp317x-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/F252x-15pci.DAT
    • /usr/share/profphd/prof/embl/net/F252x-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/F317x-pci.DAT
    • /usr/share/profphd/prof/embl/net/F317x-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/S252x-pc-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-pcc-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-pccld-15pci.DAT
    • /usr/share/profphd/prof/embl/net/S252x-pccld-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/S252x-rc-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-rcc-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S252x-rccld-15pci.DAT
    • /usr/share/profphd/prof/embl/net/S252x-rccld-15pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-pc-pci.DAT
    • /usr/share/profphd/prof/embl/net/S317x-pc-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-pcc-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-pccld-pci.DAT
    • /usr/share/profphd/prof/embl/net/S317x-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-rc-pci.DAT
    • /usr/share/profphd/prof/embl/net/S317x-rc-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-rcc-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/S317x-rccld-pci.DAT
    • /usr/share/profphd/prof/embl/net/S317x-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/Stm69x-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/Stm69x-pccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Stm69x-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/Stm69x-rccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/Tm69x-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/Tm69x-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152a-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152b-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-w9-15rcc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152c-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152d-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152e-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152f-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-w9-15rc.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-w9-15rccld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-w9-15rcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Exp152g-w9-15rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152a-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152a-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152a-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152b-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152b-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152b-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152c-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152c-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152c-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152d-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152d-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152d-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152e-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152e-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152e-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152f-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152f-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152f-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152g-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152g-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/F152g-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152a-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152b-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152c-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152d-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152e-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152f-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15p-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15pc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15pc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15pc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15pcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15r-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15rc-15pc.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15rc-15pci.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15rc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/S152g-15rcc-15pcic.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69a-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69a-pccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69a-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69a-rccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69b-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69b-pccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69b-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69b-rccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69c-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69c-pccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69c-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69c-rccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69d-pccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69d-pccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69d-rccld-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Stm69d-rccld-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69a-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69a-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69b-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69b-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69c-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69c-rcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69d-pcicld.DAT
    • /usr/share/profphd/prof/embl/net/cross/Tm69d-rcicld.DAT
    • /usr/share/profphd/prof/embl/para/Para-exp152x-mar94.com
    • /usr/share/profphd/prof/embl/para/Para-exp252-apr94.com
    • /usr/share/profphd/prof/embl/para/Para-exp317-apr94.com
    • /usr/share/profphd/prof/embl/para/Para-exp450-oct94.com
    • /usr/share/profphd/prof/embl/para/Para-exptest.com
    • /usr/share/profphd/prof/embl/para/Para-exptmp.com
    • /usr/share/profphd/prof/embl/para/Para-htm69-aug94.com
    • /usr/share/profphd/prof/embl/para/Para-htmtest.com
    • /usr/share/profphd/prof/embl/para/Para-magma.com
    • /usr/share/profphd/prof/embl/para/Para-sec317-may94.com
    • /usr/share/profphd/prof/embl/para/Para-test.com
    • /usr/share/profphd/prof/embl/para/Para-tmp.com
    • /usr/share/profphd/prof/embl/para/cross/List152a-train
    • /usr/share/profphd/prof/embl/para/cross/List152b-train
    • /usr/share/profphd/prof/embl/para/cross/List152c-train
    • /usr/share/profphd/prof/embl/para/cross/List152d-train
    • /usr/share/profphd/prof/embl/para/cross/List152e-train
    • /usr/share/profphd/prof/embl/para/cross/List152f-train
    • /usr/share/profphd/prof/embl/para/cross/List152g-train
    • /usr/share/profphd/prof/embl/para/cross/List152x-train
    • /usr/share/profphd/prof/embl/para/cross/List252x-train
    • /usr/share/profphd/prof/embl/para/cross/List317x-train
    • /usr/share/profphd/prof/embl/para/cross/List69a-train
    • /usr/share/profphd/prof/embl/para/cross/List69b-train
    • /usr/share/profphd/prof/embl/para/cross/List69c-train
    • /usr/share/profphd/prof/embl/para/cross/List69d-train
    • /usr/share/profphd/prof/embl/para/cross/List69x-train
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152a.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152b.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152c.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152d.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152e.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152f.com
    • /usr/share/profphd/prof/embl/para/cross/Para-cic-152g.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152a.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152b.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152c.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152d.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152e.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152f.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152g.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp-152n.com
    • /usr/share/profphd/prof/embl/para/cross/Para-exp317-may94.com
    • /usr/share/profphd/prof/embl/para/cross/Para-htm69-aug94.com
    • /usr/share/profphd/prof/embl/para/cross/Para-htm69a.com
    • /usr/share/profphd/prof/embl/para/cross/Para-htm69b.com
    • /usr/share/profphd/prof/embl/para/cross/Para-htm69c.com
    • /usr/share/profphd/prof/embl/para/cross/Para-htm69d.com
    • /usr/share/profphd/prof/embl/para/cross/Para-sec317-may94.com
    • /usr/share/profphd/prof/embl/para/cross/list_trainlists_all
    • /usr/share/profphd/prof/embl/para/cross/list_trainlists_htm
    • /usr/share/profphd/prof/embl/para/cross/list_trainlists_secacc
    • /usr/share/profphd/prof/embl/scr/conv_phd2ascii.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2casp2.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2casp4.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2dssp.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2hssp.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2html.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2html2000.pl
    • /usr/share/profphd/prof/embl/scr/conv_phd2msf.pl
    • /usr/share/profphd/prof/embl/scr/conv_rdb2pred.pl
    • /usr/share/profphd/prof/embl/scr/ctime.pl
    • /usr/share/profphd/prof/embl/scr/lib-col.pl
    • /usr/share/profphd/prof/embl/scr/lib-phd.pl
    • /usr/share/profphd/prof/embl/scr/lib-phdhtml.pm
    • /usr/share/profphd/prof/embl/scr/pdbid_sort.pl
    • /usr/share/profphd/prof/embl/scr/phd-mergeRdbSecAcc.pl
    • /usr/share/profphd/prof/embl/scr/phd_htmfil.pl
    • /usr/share/profphd/prof/embl/scr/phd_htmref.pl
    • /usr/share/profphd/prof/embl/scr/phd_htmtop.pl
    • /usr/share/profphd/prof/embl/scr/pvmgetarch.sh
    • /usr/share/profphd/prof/embl/scr/rdb_tokg.pl
    • /usr/share/profphd/prof/embl/scr/test-install.pl
    • /usr/share/profphd/prof/embl/scr/tlphd-add-nali2rdb.pl
    • /usr/share/profphd/prof/embl/scr/lib/all5.pl
    • /usr/share/profphd/prof/embl/scr/lib/br.pl
    • /usr/share/profphd/prof/embl/scr/lib/cgi-lib.pl
    • /usr/share/profphd/prof/embl/scr/lib/comp.pl
    • /usr/share/profphd/prof/embl/scr/lib/ctime.pl
    • /usr/share/profphd/prof/embl/scr/lib/file.pl
    • /usr/share/profphd/prof/embl/scr/lib/formats.pl
    • /usr/share/profphd/prof/embl/scr/lib/hssp.pl
    • /usr/share/profphd/prof/embl/scr/lib/hssp_new.pl
    • /usr/share/profphd/prof/embl/scr/lib/molbio.pl
    • /usr/share/profphd/prof/embl/scr/lib/prot.pl
    • /usr/share/profphd/prof/embl/scr/lib/scr.pl
    • /usr/share/profphd/prof/embl/scr/lib/sys.pl
    • /usr/share/profphd/prof/embl/scr/pack/copf.pm
    • /usr/share/profphd/prof/embl/scr/pack/hssp_filter.pm
    • /usr/share/profphd/prof/embl/scr/pack/phd_htmfil.pm
    • /usr/share/profphd/prof/embl/scr/pack/phd_htmref.pm
    • /usr/share/profphd/prof/embl/scr/pack/phd_htmtop.pm
    • /usr/share/profphd/prof/exa/1ppt.f
    • /usr/share/profphd/prof/exa/1ppt.f.rdbProf
    • /usr/share/profphd/prof/exa/1ppt.hssp
    • /usr/share/profphd/prof/exa/1ppt.hssp.prof
    • /usr/share/profphd/prof/exa/1ppt.phdNotHtm
    • /usr/share/profphd/prof/exa/1ppt.phdPred
    • /usr/share/profphd/prof/exa/1ppt.phdRdb
    • /usr/share/profphd/prof/exa/256b.dssp
    • /usr/share/profphd/prof/exa/2ppt.fastamul
    • /usr/share/profphd/prof/exa/2ppt.profSec
    • /usr/share/profphd/prof/exa/2ppt.rdbProf
    • /usr/share/profphd/prof/exa/2ppt.rdbProfSec
    • /usr/share/profphd/prof/exa/3ppt.gcg
    • /usr/share/profphd/prof/exa/8rnt.msf
    • /usr/share/profphd/prof/exa/8rnt.profSec
    • /usr/share/profphd/prof/exa/8rnt.rdbProfSec
    • /usr/share/profphd/prof/exa/8rntSec.prof
    • /usr/share/profphd/prof/exa/8rnt_prof.html
    • /usr/share/profphd/prof/exa/9rnt.profSec
    • /usr/share/profphd/prof/exa/9rnt.rdbProfSec
    • /usr/share/profphd/prof/exa/9rnt.saf
    • /usr/share/profphd/prof/exa/PSA2_HUMAN.safFil
    • /usr/share/profphd/prof/exa/ReadMe
    • /usr/share/profphd/prof/exa/paho_chick
    • /usr/share/profphd/prof/exa/paho_chick.f
    • /usr/share/profphd/prof/exa/paho_chick.profSec
    • /usr/share/profphd/prof/exa/paho_chick.rdbProfSec
    • /usr/share/profphd/prof/exa/tsnap_query.fasta
    • /usr/share/profphd/prof/exa/tsnap_query.rdbProf.goldstandard_yachdav_SNAP_prof
    • /usr/share/profphd/prof/mat/Blast_blosum62.metric
    • /usr/share/profphd/prof/mat/DOTncbirc
    • /usr/share/profphd/prof/mat/Maxhom_Blosum.metric
    • /usr/share/profphd/prof/mat/Maxhom_GCG.metric
    • /usr/share/profphd/prof/mat/Maxhom_McLachlan.metric
    • /usr/share/profphd/prof/mat/Maxhom_Sec_Struc.metric
    • /usr/share/profphd/prof/mat/Maxhom_Struc_IO.metric
    • /usr/share/profphd/prof/net/ACChssp1_13ball.jct
    • /usr/share/profphd/prof/net/ACChssp1_13bsumh.jct
    • /usr/share/profphd/prof/net/ACChssp1_13uall.jct
    • /usr/share/profphd/prof/net/ACChssp1_13usumh.jct
    • /usr/share/profphd/prof/net/ACChssp3_13ball.jct
    • /usr/share/profphd/prof/net/ACChssp3_13bsumh.jct
    • /usr/share/profphd/prof/net/ACChssp3_13uall.jct
    • /usr/share/profphd/prof/net/ACChssp3_13usumh.jct
    • /usr/share/profphd/prof/net/HTMhssp1_21ball.jct
    • /usr/share/profphd/prof/net/HTMhssp1_21uall.jct
    • /usr/share/profphd/prof/net/PROFacc.par
    • /usr/share/profphd/prof/net/PROFacc_best.par
    • /usr/share/profphd/prof/net/PROFacc_fast.par
    • /usr/share/profphd/prof/net/PROFacc_good.par
    • /usr/share/profphd/prof/net/PROFacc_tst.jct
    • /usr/share/profphd/prof/net/PROFboth.par
    • /usr/share/profphd/prof/net/PROFboth_best.par
    • /usr/share/profphd/prof/net/PROFboth_fast.par
    • /usr/share/profphd/prof/net/PROFboth_good.par
    • /usr/share/profphd/prof/net/PROFboth_tst.par
    • /usr/share/profphd/prof/net/PROFsec.par
    • /usr/share/profphd/prof/net/PROFsec_best.par
    • /usr/share/profphd/prof/net/PROFsec_fast.par
    • /usr/share/profphd/prof/net/PROFsec_good.par
    • /usr/share/profphd/prof/net/PROFsec_tst.jct
    • /usr/share/profphd/prof/net/SEChssp1_17ball.jct
    • /usr/share/profphd/prof/net/SEChssp1_17uall.jct
    • /usr/share/profphd/prof/net/SEChssp1_21ball.jct
    • /usr/share/profphd/prof/net/SEChssp1_21uall.jct
    • /usr/share/profphd/prof/net/SEChssp2_17bball.jct
    • /usr/share/profphd/prof/net/SEChssp2_17bball.par
    • /usr/share/profphd/prof/net/SEChssp2_17buall.jct
    • /usr/share/profphd/prof/net/SEChssp2_17buall.par
    • /usr/share/profphd/prof/net/SEChssp2_17uball.jct
    • /usr/share/profphd/prof/net/SEChssp2_17uball.par
    • /usr/share/profphd/prof/net/SEChssp2_17uuall.jct
    • /usr/share/profphd/prof/net/SEChssp2_17uuall.par
    • /usr/share/profphd/prof/net/SEChssp2_21bball.jct
    • /usr/share/profphd/prof/net/SEChssp2_21bball.par
    • /usr/share/profphd/prof/net/SEChssp2_21buall.jct
    • /usr/share/profphd/prof/net/SEChssp2_21buall.par
    • /usr/share/profphd/prof/net/SEChssp2_21uball.jct
    • /usr/share/profphd/prof/net/SEChssp2_21uball.par
    • /usr/share/profphd/prof/net/SEChssp2_21uuall.jct
    • /usr/share/profphd/prof/net/SEChssp2_21uuall.par
    • /usr/share/profphd/prof/net/SEChssp3_17b.jct
    • /usr/share/profphd/prof/net/SEChssp3_17u.jct
    • /usr/share/profphd/prof/net/SEChssp3_21b.jct
    • /usr/share/profphd/prof/net/SEChssp3_21b.par
    • /usr/share/profphd/prof/net/SEChssp3_21u.jct
    • /usr/share/profphd/prof/net/SEChssp3_21u.par
    • /usr/share/profphd/prof/scr/CONFprof.pl
    • /usr/share/profphd/prof/scr/conv_prof.pl
    • /usr/share/profphd/prof/scr/conv_prof2hssp.pl
    • /usr/share/profphd/prof/scr/prof.pl
    • /usr/share/profphd/prof/scr/pvmgetarch.sh
    • /usr/share/profphd/prof/scr/test-install.pl
    • /usr/share/profphd/prof/scr/tlprof_blastmat2hssp.pl
    • /usr/share/profphd/prof/scr/tlprof_htmfil.pl
    • /usr/share/profphd/prof/scr/tlprof_htmref.pl
    • /usr/share/profphd/prof/scr/tlprof_htmtop.pl
    • /usr/share/profphd/prof/scr/tlprof_jury.pl
    • /usr/share/profphd/prof/scr/tlprof_ri-sigma.pl
    • /usr/share/profphd/prof/scr/lib/dead_code.pl
    • /usr/share/profphd/prof/scr/lib/dead_code_tmp.pl
    • /usr/share/profphd/prof/scr/lib/lib-col.pl
    • /usr/share/profphd/prof/scr/lib/lib-prof.pl
    • /usr/share/profphd/prof/scr/lib/lib-proferr.pl
    • /usr/share/profphd/prof/scr/lib/lib-profhtml.pl
    • /usr/share/profphd/prof/scr/lib/lib-profwrt.pl
    • /usr/share/profphd/prof/scr/lib/prof.pm
    • /usr/share/profphd/prof/scr/pack/tlprof_htmfil.pm
    • /usr/share/profphd/prof/scr/pack/tlprof_htmref.pm
    • /usr/share/profphd/prof/scr/pack/tlprof_htmtop.pm

    Changelog

    2015-07-31 - Andreas Tille <tille@debian.org> profphd (1.0.42-1) unstable; urgency=medium * Moved debian/upstream to debian/upstream/metapackages * remove redundant stuff from d/watch * debhelper 9 * Priority: optional * short dh instead of cdbs * cme fix dpkg-control * DEP5 fix

    2013-08-29 - Andreas Tille <tille@debian.org> profphd (1.0.40-1) unstable; urgency=low [ Laszlo Kajan ] * New upstream release. [ Gregor Herrmann ] * Fix "FTBFS with perl 5.18: POD failure": add patch to fix POD (Closes: #720497) [ Andreas Tille ] * cme fix dpkg-control * anonscm in Vcs fields

    2012-08-14 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.39-1) unstable; urgency=low [ Andreas Tille ] * debian/upstream: Make author field BibTeX compliant [ Laszlo Kajan ] * New upstream release. (Closes: #684857)

    2011-10-26 - Andreas Tille <tille@debian.org> profphd (1.0.38-1) unstable; urgency=low [ Laszlo Kajan ] * New upstream release [ Andreas Tille ] * debian/control: Added rsync to Build-Depends Closes: #646662 * debian/watch: Stripped unneeded comments * debian/patches: Deleted empty dir

    2011-09-28 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.37-1) unstable; urgency=low * Initial release in Debian (Closes: #643324) * New upstream release

    2011-09-28 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.36-1) UNRELEASED; urgency=low * New upstream release

    2011-09-27 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.35-1) UNRELEASED; urgency=low * added Replaces and Conflicts to control file for profphd-perl and profphd-data

    2011-05-20 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.34) unstable; urgency=low * fixed "HTMTOP_RID :-10.942" bug in src/prof/scr/lib/lib-prof.pl

    2011-03-01 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.33) unstable; urgency=low * use warnings in phd.pl

    2010-11-26 - Laszlo Kajan <lkajan@rostlab.org> profphd (1.0.32) unstable; urgency=low * copyright corrected to GPL

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