Hi - The error is coming from the 64th line of your program (at T_Zscore.main(T_Zscore.java:64))
I can see two places that the error might be coming from but I need to know which line is the 64th line of the program. Is it: ProfileHMM model = (ProfileHMM) ois_md.readObject(); Or is it: dp[i] = DPFactory.DEFAULT.createDP(model); > -----Original Message----- > From: Tisanai [mailto:[EMAIL PROTECTED]] > Sent: Tuesday, 8 October 2002 2:40 a.m. > To: [EMAIL PROTECTED] > Subject: [Biojava-l] Create DP object from profileHMM class file > > > Hi > > By this code I would like to create DP object from several > phmm file. > > for(int i=0;i<md_out_lst.align.length;i++){ > String model_out_name = md_out_lst.align[i]; > File md_file = new File(model_out_name); > > FileInputStream fis_md = new FileInputStream(md_file); > ObjectInputStream ois_md = new ObjectInputStream(fis_md); > ProfileHMM model = (ProfileHMM) ois_md.readObject(); > ois_md.close(); > dp[i] = DPFactory.DEFAULT.createDP(model); > } > > I found that it always stuck at the second file (i=2). If > there is only one file in my list this code will work fine. > But if there is more than one file in the list when it try to > create the second dp object (dp[1]). This kind of error will > shown out: > > org.biojava.bio.BioError: State d-15 is known in > states but is not listed in the transFrom table > at > org.biojava.bio.dp.SimpleMarkovModel.transitionsFrom(SimpleMar > kovModel.java:227) > at > org.biojava.bio.dp.DP$HMMOrderByTransition.transitionsTo(DP.java:599) > at > org.biojava.bio.dp.DP$HMMOrderByTransition.compare(DP.java:586) > at org.biojava.bio.dp.DP.stateList(DP.java:123) > at org.biojava.bio.dp.DP.update(DP.java:353) > at org.biojava.bio.dp.onehead.SingleDP.update(SingleDP.java:49) > at org.biojava.bio.dp.DP.<init>(DP.java:377) > at org.biojava.bio.dp.onehead.SingleDP.<init>(SingleDP.java:41) > at > org.biojava.bio.dp.DPFactory$DefaultFactory.createDP(DPFactory .java:53) > at T_Zscore.main(T_Zscore.java:64) > > How can I fix my code? > > Thank > Tisanai > > _______________________________________________ > Biojava-l mailing list - [EMAIL PROTECTED] > http://biojava.org/mailman/listinfo/biojava-l > ======================================================================= Attention: The information contained in this message and/or attachments from AgResearch Limited is intended only for the persons or entities to which it is addressed and may contain confidential and/or privileged material. Any review, retransmission, dissemination or other use of, or taking of any action in reliance upon, this information by persons or entities other than the intended recipients is prohibited by AgResearch Limited. If you have received this message in error, please notify the sender immediately. ======================================================================= _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
