[Bioperl-pipeline] Hi, there! Just ignore this message.
shawnh at fugu-sg.org
Wed Mar 12 17:41:45 EST 2003
Hi Chul Choi,
thanks for looking into biopipe. I interested to know what kinda
pipeline you are trying to do.
For starters it may be best to start with the website, especially the
for a feel of how it works. Delving into the innards of biopipe I must
confess is brave of you
as some parts are rather grisly. This is also because its still heavily
under development and we haven't really documented the design
in detail. We are writing up a short paper that describes this which I
will put on the web the next
few days once editing is done.
> After a long investigation into biopipe source, I have fallen into
> deep depression.
> Is it difficult for me to understand biopipe? Yes, it was and is.
> Maybe it will be.
> Database schema, database adaptor classes, various core classes such
> as Job,
> Input, Manager, ...
> My last door to understanding of biopipe is:
> "How does RunnableDB work?"
> It involves RunnableI, RunnableI derived classes (DataMonger,
> RepeatMasker, Blast),
> again Job, Input,...
> Plus, I don't know what rule of jobs mean: COPY_ID, COPY_INPUT,
> CREATE_INPUT (not implemented yet),
> UPDATE, WAITFORALL, WAITFORALL_AND_UPDATE.
> I am very tired with these pipeline sources. I want to just give up.
> But, I will NOT do that, because pipeline has wonderful
> Sincerely yours,
> good night!
> Sang Chul Choi
> bioperl-pipeline mailing list
> bioperl-pipeline at bioperl.org
More information about the bioperl-pipeline