Hi, I have done some work on the Serialization issue and I'm pretty confident that you can safely serialize a sequence by sending it to an object output stream which creates a binary stream which you can write to a file. Not exactly a flat file but it retains the object structure.
- mark > -----Original Message----- > From: pootle monster [mailto:[EMAIL PROTECTED]] > Sent: Monday, 29 April 2002 9:31 p.m. > To: [EMAIL PROTECTED] > Subject: [Biojava-l] Quick EMBL Loading? > > > > I am using the method below to load an EMBL file > > BufferedReader br = new BufferedReader(new > FileReader(emblFile)); stream = SeqIOTools.readEmbl(br); > while (stream.hasNext()){ > seq = stream.nextSequence(); > } > > > The problem is that this takes about 10 seconds > > I often use the same EMBL files and only want the CDS Features > > I feel that there must be a quicker way to do this > > As Sequence is Serializable can I save the Sequence to a flat > file and load that instead? is that possible? would this be > quicker? would it be more efficient if I removed the features > I did not want? > > > I realise a database might be the way to go - but I dont want > to go that way > at the moment. > > Simon > > _________________________________________________________________ > Join the world's largest e-mail service with MSN Hotmail. > http://www.hotmail.com > > _______________________________________________ > 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
