datamodel/compbio/data/sequence/ConservationMethod.java

   1 /*
   2  * Copyright (c) 2010 Agnieszka Golicz & Peter Troshin
   3  *
   4  * Amino Acid Conservation @version: 1.0
   5  *
   6  * This library is free software; you can redistribute it and/or
   7  * modify it under the terms of the Apache License version 2 as published by the
   8  * Apache Software Foundation This library is distributed in the hope that it
   9  * will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty
  10  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache
  11  * License for more details. A copy of the license is in apache_license.txt. It
  12  * is also available here: http://www.apache.org/licenses/LICENSE-2.0.txt
  13  * Any republication or derived work distributed in source code form must
  14  * include this copyright and license notice.
  15  *
  16  */
  17 package compbio.data.sequence;
  18
  19 /**
  20  * Enumeration listing of all the supported methods.
  21  *
  22  * @author Agnieszka Golicz & Peter Troshin
  23  */
  24 public enum ConservationMethod {
  25         KABAT, JORES, SCHNEIDER, SHENKIN, GERSTEIN, TAYLOR_GAPS, TAYLOR_NO_GAPS, ZVELIBIL, KARLIN, ARMON, THOMPSON, NOT_LANCET, MIRNY, WILLIAMSON, LANDGRAF, SANDER, VALDAR, SMERFS;
  26
  27         public static ConservationMethod getMethod(String meth) {
  28                 meth = meth.trim().toLowerCase();
  29                 if (meth.equalsIgnoreCase(KABAT.toString())) {
  30                         return KABAT;
  31                 }
  32                 if (meth.equalsIgnoreCase(JORES.toString())) {
  33                         return JORES;
  34                 }
  35                 if (meth.equalsIgnoreCase(SCHNEIDER.toString())) {
  36                         return SCHNEIDER;
  37                 }
  38                 if (meth.equalsIgnoreCase(SHENKIN.toString())) {
  39                         return SHENKIN;
  40                 }
  41                 if (meth.equalsIgnoreCase(GERSTEIN.toString())) {
  42                         return GERSTEIN;
  43                 }
  44                 if (meth.equalsIgnoreCase(TAYLOR_GAPS.toString())) {
  45                         return TAYLOR_GAPS;
  46                 }
  47                 if (meth.equalsIgnoreCase(TAYLOR_NO_GAPS.toString())) {
  48                         return TAYLOR_NO_GAPS;
  49                 }
  50                 if (meth.equalsIgnoreCase(ZVELIBIL.toString())) {
  51                         return ZVELIBIL;
  52                 }
  53                 if (meth.equalsIgnoreCase(KARLIN.toString())) {
  54                         return KARLIN;
  55                 }
  56                 if (meth.equalsIgnoreCase(ARMON.toString())) {
  57                         return ARMON;
  58                 }
  59                 if (meth.equalsIgnoreCase(THOMPSON.toString())) {
  60                         return THOMPSON;
  61                 }
  62                 if (meth.equalsIgnoreCase(NOT_LANCET.toString())) {
  63                         return NOT_LANCET;
  64                 }
  65                 if (meth.equalsIgnoreCase(MIRNY.toString())) {
  66                         return MIRNY;
  67                 }
  68                 if (meth.equalsIgnoreCase(WILLIAMSON.toString())) {
  69                         return WILLIAMSON;
  70                 }
  71                 if (meth.equalsIgnoreCase(LANDGRAF.toString())) {
  72                         return LANDGRAF;
  73                 }
  74                 if (meth.equalsIgnoreCase(SANDER.toString())) {
  75                         return SANDER;
  76                 }
  77                 if (meth.equalsIgnoreCase(VALDAR.toString())) {
  78                         return VALDAR;
  79                 }
  80                 if (meth.equalsIgnoreCase(SMERFS.toString())) {
  81                         return SMERFS;
  82                 }
  83                 return null;
  84         }
  85
  86 }