(LoadContext context, String lstLine, URI sourceURI)
| 70 | } |
| 71 | |
| 72 | @Override |
| 73 | public void parseLine(LoadContext context, String lstLine, URI sourceURI) |
| 74 | { |
| 75 | if (lstLine.startsWith("#")) |
| 76 | { |
| 77 | //Is a comment |
| 78 | return; |
| 79 | } |
| 80 | if (lstLine.startsWith("AGESET:")) |
| 81 | { |
| 82 | String line = lstLine.substring(7); |
| 83 | int pipeLoc = line.indexOf('|'); |
| 84 | if (pipeLoc == -1) |
| 85 | { |
| 86 | Logging.errorPrint( |
| 87 | "Found invalid AGESET " + "in Bio Settings " + sourceURI + ", was expecting a |: " + lstLine); |
| 88 | return; |
| 89 | } |
| 90 | String ageIndexString = line.substring(0, pipeLoc); |
| 91 | try |
| 92 | { |
| 93 | currentAgeSetIndex = Integer.parseInt(ageIndexString); |
| 94 | } |
| 95 | catch (NumberFormatException e) |
| 96 | { |
| 97 | Logging.errorPrint("Illegal Index for AGESET " + "in Bio Settings " + sourceURI + ": " + ageIndexString |
| 98 | + " was not an integer"); |
| 99 | } |
| 100 | StringTokenizer colToken = new StringTokenizer(line.substring(pipeLoc + 1), SystemLoader.TAB_DELIM); |
| 101 | AgeSet ageSet = new AgeSet(); |
| 102 | ageSet.setSourceURI(sourceURI); |
| 103 | ageSet.setAgeIndex(currentAgeSetIndex); |
| 104 | ageSet.setName(colToken.nextToken()); |
| 105 | while (colToken.hasMoreTokens()) |
| 106 | { |
| 107 | LstUtils.processToken(context, ageSet, sourceURI, |
| 108 | colToken.nextToken()); |
| 109 | } |
| 110 | |
| 111 | ageSet = bioSet.addToAgeMap(region, ageSet, sourceURI); |
| 112 | Integer oldIndex = bioSet.addToNameMap(ageSet); |
| 113 | if (oldIndex != null && oldIndex != currentAgeSetIndex) |
| 114 | { |
| 115 | Logging.errorPrint("Incompatible Index for AGESET " + "in Bio Settings " + sourceURI + ": " |
| 116 | + oldIndex + " and " + currentAgeSetIndex + " for " + ageSet.getDisplayName()); |
| 117 | } |
| 118 | |
| 119 | } |
| 120 | else if (lstLine.startsWith("REGION:")) |
| 121 | { |
| 122 | region = Optional.of(Region.getConstant(lstLine.substring(7))); |
| 123 | } |
| 124 | else if (lstLine.startsWith("RACENAME:")) |
| 125 | { |
| 126 | StringTokenizer colToken = new StringTokenizer(lstLine, SystemLoader.TAB_DELIM); |
| 127 | String raceName = colToken.nextToken().substring(9); |
| 128 | List<String> preReqList = null; |
| 129 |
nothing calls this directly
no test coverage detected