[InterMine Dev] Logging messages from the rgd annotation parser

Vallejos, Andrew avallejos at mcw.edu
Fri Oct 21 19:23:02 BST 2011


My code is pretty strait forward.  I simply uncommented line 193 and
commented line 194. (Those are the lines in the GoConverter.java
anyway.)

-----Original Message-----
From: dev-bounces at intermine.org [mailto:dev-bounces at intermine.org] On
Behalf Of Julie Sullivan
Sent: Thursday, October 20, 2011 2:59 AM
To: dev at intermine.org
Subject: Re: [InterMine Dev] Logging messages from the rgd annotation
parser

Andrew

Your syntax is correct.  You might not have your logger set to be
"verbose", eg. 
it only prints the important messages.  Try either setting the priority
to show 
all messages, or use a higher level of message:

	 LOG.error("TYPE " + type);

http://logging.apache.org/log4j/1.2/manual.html has a list of the levels
in order:

	TRACE,
	DEBUG,
	INFO,
	WARN,
	ERROR and
	FATAL

However, if you are testing the GO annotation loader, it might be
quicker and 
easier to use the test in go-annotation/test.  You can print out log
messages 
directly to the console as well as view the objects the loader created.

Cheers
Julie

On 19/10/11 22:05, Vallejos, Andrew wrote:
> Hi,
>
>
>
> I'm trying to get the annotation loader to use the 12th column to
> determine the type.  Unfortunately, the annotation loader just loads
> everything as a gene.  Also, I cannot get the annotation java file to
> log any messages.
>
>
>
> // LOG is the Logger object
>
> // type is a String value from array[11], or the 12th column of the
data
> line being processed.
>
> LOG.info("TYPE " + type); yields no TYPE messages in my interine.log
> file or screen output.
>
>
>
> How do I send messages to the log file?
>
>
>
> Thanks,
>
>
>
> Andrew
>
>
>
> ======================
>
> Andrew Vallejos M.S.
>
> Web Developer II
>
> Biotechnology and Bioengineering Center
>
> Medical College of Wisconsin
>
> 414-955-4104
>
> avallejos at mcw.edu
>
>
>
>
>
>
>
> _______________________________________________
> dev mailing list
> dev at intermine.org
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