Mercurial > repos > yufei-luo > s_mart
comparison commons/core/sql/ITableSeqAdaptator.py @ 6:769e306b7933
Change the repository level.
| author | yufei-luo |
|---|---|
| date | Fri, 18 Jan 2013 04:54:14 -0500 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| 5:ea3082881bf8 | 6:769e306b7933 |
|---|---|
| 1 # Copyright INRA (Institut National de la Recherche Agronomique) | |
| 2 # http://www.inra.fr | |
| 3 # http://urgi.versailles.inra.fr | |
| 4 # | |
| 5 # This software is governed by the CeCILL license under French law and | |
| 6 # abiding by the rules of distribution of free software. You can use, | |
| 7 # modify and/ or redistribute the software under the terms of the CeCILL | |
| 8 # license as circulated by CEA, CNRS and INRIA at the following URL | |
| 9 # "http://www.cecill.info". | |
| 10 # | |
| 11 # As a counterpart to the access to the source code and rights to copy, | |
| 12 # modify and redistribute granted by the license, users are provided only | |
| 13 # with a limited warranty and the software's author, the holder of the | |
| 14 # economic rights, and the successive licensors have only limited | |
| 15 # liability. | |
| 16 # | |
| 17 # In this respect, the user's attention is drawn to the risks associated | |
| 18 # with loading, using, modifying and/or developing or reproducing the | |
| 19 # software by the user in light of its specific status of free software, | |
| 20 # that may mean that it is complicated to manipulate, and that also | |
| 21 # therefore means that it is reserved for developers and experienced | |
| 22 # professionals having in-depth computer knowledge. Users are therefore | |
| 23 # encouraged to load and test the software's suitability as regards their | |
| 24 # requirements in conditions enabling the security of their systems and/or | |
| 25 # data to be ensured and, more generally, to use and operate it in the | |
| 26 # same conditions as regards security. | |
| 27 # | |
| 28 # The fact that you are presently reading this means that you have had | |
| 29 # knowledge of the CeCILL license and that you accept its terms. | |
| 30 | |
| 31 | |
| 32 ## Interface for TableSeqAdaptator | |
| 33 # | |
| 34 class ITableSeqAdaptator(object): | |
| 35 | |
| 36 ## Retrieve all the distinct accession names in a list. | |
| 37 # | |
| 38 # @return lAccessions list of accessions | |
| 39 # | |
| 40 # @warning old name was getListAccession | |
| 41 # | |
| 42 def getAccessionsList( self ): | |
| 43 pass | |
| 44 | |
| 45 ## Save sequences in a fasta file from a list of accession names. | |
| 46 # | |
| 47 # @param lAccessions list of accessions | |
| 48 # @param outFileName string Fasta file | |
| 49 # | |
| 50 # @warning old name saveListAccessionInFastaFile | |
| 51 # | |
| 52 def saveAccessionsListInFastaFile( self, lAccessions, outFileName ): | |
| 53 pass | |
| 54 | |
| 55 ## insert bioseq instance | |
| 56 # | |
| 57 # @param seq bioseq | |
| 58 # @param delayed boolean must the insert be delayed | |
| 59 # | |
| 60 # @warning old name was insASeq | |
| 61 # | |
| 62 def insert(self, seq, delayed = False): | |
| 63 pass |