[Gusdev-gusdev] Error in Building

[jinal j. <jh...@us...>]

Hi,

I am getting following error while building GUS. It seems like BLATAlignment_Row, and ... files are missing in the current CVS download. Can anyone has an insight into why this could have happened?

Created dir: /home/gus/gushome/doc/GUS/Model
    [mkdir] Created dir: /home/gus/projects/GUS/Model/classes
    [javac] Compiling 3 source files to /home/gus/projects/GUS/Model/classes
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:26: cannot resolve symbol
    [javac] symbol  : class BLATAlignment_Row 
    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
    [javac] public class BLATAlignment extends BLATAlignment_Row {
    [javac]                                    ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/NASequence.java:26: cannot resolve symbol
    [javac] symbol  : class NASequence_Row 
    [javac] location: class org.gusdb.model.DoTS.NASequence
    [javac] public class NASequence extends NASequence_Row {
    [javac]                                 ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/SRes/Taxon.java:16: cannot resolve symbol
    [javac] symbol  : class Taxon_Row 
    [javac] location: class org.gusdb.model.SRes.Taxon
    [javac] public class Taxon extends Taxon_Row {
    [javac]                            ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:34: cannot resolve symbol
    [javac] symbol  : method getQstarts ()
    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
    [javac]     String starts = getQstarts();
    [javac]                         ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:39: cannot resolve symbol
    [javac] symbol  : method getBlocksizes ()
    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
    [javac]     String lengths = getBlocksizes();
    [javac]                          ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/BLATAlignment.java:44: cannot resolve symbol
    [javac] symbol  : method getTstarts ()
    [javac] location: class org.gusdb.model.DoTS.BLATAlignment
    [javac]     String tStarts = getTstarts();
    [javac]                          ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/NASequence.java:42: cannot resolve symbol
    [javac] symbol  : method getSequenceLobLength ()
    [javac] location: class org.gusdb.model.DoTS.NASequence
    [javac]     return this.getSequenceAsSymbolList(1, this.getSequenceLobLength().longValue());
    [javac]                                                ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/DoTS/NASequence.java:53: cannot resolve symbol
    [javac] symbol  : method getSequence (long,long)
    [javac] location: class org.gusdb.model.DoTS.NASequence
    [javac]     char seqData[] = this.getSequence(start, end);
    [javac]                          ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/SRes/Taxon.java:34: cannot resolve symbol
    [javac] symbol  : method getTaxonNameList (boolean)
    [javac] location: class org.gusdb.model.SRes.Taxon
    [javac]         Vector allTaxonNames = getTaxonNameList(false);
    [javac]                                    ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/SRes/Taxon.java:57: cannot resolve symbol
    [javac] symbol  : method getTaxonNameList (boolean)
    [javac] location: class org.gusdb.model.SRes.Taxon
    [javac]         kids = this.getTaxonNameList(true);
    [javac]                    ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/SRes/Taxon.java:66: cannot resolve symbol
    [javac] symbol  : class TaxonName 
    [javac] location: class org.gusdb.model.SRes.Taxon
    [javac]         TaxonName tn = (TaxonName)(kids.elementAt(i));
    [javac]             ^
    [javac] /home/gus/projects/GUS/Model/src/java/org/gusdb/model/SRes/Taxon.java:66: cannot resolve symbol
    [javac] symbol  : class TaxonName 
    [javac] location: class org.gusdb.model.SRes.Taxon
    [javac]         TaxonName tn = (TaxonName)(kids.elementAt(i));
    [javac]                             ^
    [javac] 12 errors


thanks
--Jinal