labblouin.homstrad module

A library to manage interfacing with the Homstrad database raw files.

homstrad Python Library / May 22, 2013 / Alex Safatli

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

E-mail: safatli@cs.dal.ca Dependencies: IO (LabBlouinTools)

labblouin.homstrad.hasNoFolders(path)

class labblouin.homstrad.homstradDatabase(dbpath, traverse=True)

getFailedCount()

getFolders()

getPath()

getSucceededCount()

traverse()

class labblouin.homstrad.homstradFolder(foldrname)

Model a single Homstrad folder or set.

getAlignedPDB()

getAlignmentLength()

getFASTA()

getFASTAfor(names)

getFiles()

getNames()

getNumSequences()

getPDBfor(name)

getPDBs()

getPath()

getSequenceLength()

getSequences()

writeFASTA(fi, names=None)