Hello r-help!
My name is Dan McGoldrick, I am a statistical geneticist and I work with
ontologies, AI and general genetic data analysis.
I was wondering aabout the tryCatch function -- don't really understand the
implimentation...
What I would like to do is within an R API, test a mysql connection object for
an error (server has gone away) and if the connection is functional leave it
alone; otherwise, kill it if it is unattached, then refresh the connection and
continue with my program executions. I have tried making a simple dummy table
with one value and something like
EnsureCon<-function(){
conMissing<-0;
mytest<-try(sql("select * from ConTest"),silent=TRUE);
if(ConTestPass(mytest[[1]])==0) {
conMissing<-1;
SentientCon<-dbConnect(MySQL(), user="root", password="mypass",
host="localhost", dbname="mydatabase", port=3307);
print("attemping reconnect...")
}
else {print("connection intact")};
if (conMissing==1){
mytest<-try(sql("select * from ConTest"),silent=TRUE);
if(ConTestPass(mytest[[1]])==0) {
print("reconnect failed...check network and login details.")
# drop into a network scan process...
}}
else {print("connection re-established")};
return(SentientCon)
}
ConTestPass<-function(aconnecttest){
if(aconnecttest==1) return(1) else return(0);
}
I now have a lot of orphaned connections? because I get back
Error in mysqlNewConnection(drv, ...) : RS-DBI driver: (ΒΈ/&cannot allocate a
new connection -- maximum of 16 connections already opened)
So this means I need better control over the MySQL server connections within my
R API. I could execute SQL statements, and go into the system but would prefer
to stay within R if I can...A function EnsureRefreshCon would be my ultimate
goal. Perhaps a CleanServerConnections too?
I need some examples to get my head around this code.
So.. a long running algorithm might need to go away from MySQL and come back,
but by then the connect is orphaned?
Any pointers? (I have read the R-MySQL doc and a slide presentation by Luke
Tierney...) Helpful, but I need more explanation, and someone must have had
this problem before?
Peace out,
Daniel J McGoldrick Ph.D.
Sentient Solutions
[[alternative HTML version deleted]]
______________________________________________
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
