datamodel/compbio/data/sequence/ConservationMethod.java

   1 /* Copyright (c) 2011 Peter Troshin
   2  *
   3  *  JAva Bioinformatics Analysis Web Services (JABAWS) @version: 2.0
   4  *
   5  *  This library is free software; you can redistribute it and/or modify it under the terms of the
   6  *  Apache License version 2 as published by the Apache Software Foundation
   7  *
   8  *  This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without
   9  *  even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache
  10  *  License for more details.
  11  *
  12  *  A copy of the license is in apache_license.txt. It is also available here:
  13  * @see: http://www.apache.org/licenses/LICENSE-2.0.txt
  14  *
  15  * Any republication or derived work distributed in source code form
  16  * must include this copyright and license notice.
  17  */
  18 package compbio.data.sequence;
  19
  20 /**
  21  * Enumeration listing of all the supported methods.
  22  *
  23  * @author Agnieszka Golicz & Peter Troshin
  24  */
  25 public enum ConservationMethod {
  26         KABAT, JORES, SCHNEIDER, SHENKIN, GERSTEIN, TAYLOR_GAPS, TAYLOR_NO_GAPS, ZVELIBIL, KARLIN, ARMON, THOMPSON, NOT_LANCET, MIRNY, WILLIAMSON, LANDGRAF, SANDER, VALDAR, SMERFS;
  27
  28         public static ConservationMethod getMethod(String meth) {
  29                 meth = meth.trim().toLowerCase();
  30                 if (meth.equalsIgnoreCase(KABAT.toString())) {
  31                         return KABAT;
  32                 }
  33                 if (meth.equalsIgnoreCase(JORES.toString())) {
  34                         return JORES;
  35                 }
  36                 if (meth.equalsIgnoreCase(SCHNEIDER.toString())) {
  37                         return SCHNEIDER;
  38                 }
  39                 if (meth.equalsIgnoreCase(SHENKIN.toString())) {
  40                         return SHENKIN;
  41                 }
  42                 if (meth.equalsIgnoreCase(GERSTEIN.toString())) {
  43                         return GERSTEIN;
  44                 }
  45                 if (meth.equalsIgnoreCase(TAYLOR_GAPS.toString())) {
  46                         return TAYLOR_GAPS;
  47                 }
  48                 if (meth.equalsIgnoreCase(TAYLOR_NO_GAPS.toString())) {
  49                         return TAYLOR_NO_GAPS;
  50                 }
  51                 if (meth.equalsIgnoreCase(ZVELIBIL.toString())) {
  52                         return ZVELIBIL;
  53                 }
  54                 if (meth.equalsIgnoreCase(KARLIN.toString())) {
  55                         return KARLIN;
  56                 }
  57                 if (meth.equalsIgnoreCase(ARMON.toString())) {
  58                         return ARMON;
  59                 }
  60                 if (meth.equalsIgnoreCase(THOMPSON.toString())) {
  61                         return THOMPSON;
  62                 }
  63                 if (meth.equalsIgnoreCase(NOT_LANCET.toString())) {
  64                         return NOT_LANCET;
  65                 }
  66                 if (meth.equalsIgnoreCase(MIRNY.toString())) {
  67                         return MIRNY;
  68                 }
  69                 if (meth.equalsIgnoreCase(WILLIAMSON.toString())) {
  70                         return WILLIAMSON;
  71                 }
  72                 if (meth.equalsIgnoreCase(LANDGRAF.toString())) {
  73                         return LANDGRAF;
  74                 }
  75                 if (meth.equalsIgnoreCase(SANDER.toString())) {
  76                         return SANDER;
  77                 }
  78                 if (meth.equalsIgnoreCase(VALDAR.toString())) {
  79                         return VALDAR;
  80                 }
  81                 if (meth.equalsIgnoreCase(SMERFS.toString())) {
  82                         return SMERFS;
  83                 }
  84                 return null;
  85         }
  86
  87 }