On 8 Jun 2010, at 16:50, Nigel Metheringham wrote:
>
> You may be able to approach the speed of pure DBI if you use
> DBIx::Class::ResultClass::HashRefInflator
Thinking about this, if you are restricting the column set you
are using, you are strangling your objects in a nasty way anyhow,
so you
A loop over 100 million rows with multiple object inflation for each row is
going to suck a serious amount of CPU time.
[Even more horribly, if you are using some databases - for example DBD::Pg -
then you are almost certainly not using a cursor or chunk at a time approach
but instead sucking the
Hi Chris,
On 08/06/10 16:27, Chris Cole wrote:
> On 08/06/10 15:05, "Alex J. G. Burzyński" wrote:
>> Hi,
>>
>> On 08/06/10 14:09, Chris Cole wrote:
>>> Given the schema provided at the end, why is this code so slow?
>>>
>>
>>
>> As you are creating an object $hit (NgsMappings with it's relationshi
On 08/06/10 15:53, Nigel Metheringham wrote:
On 8 Jun 2010, at 15:17, Chris Cole wrote:
Which when run in an SQL client takes<1 sec to run and via 'normal' DBI the
full code still runs in ~1.5 min. So, there's nothing wrong with the SQL. There
seems to be something up with DBIC. This is DBIC
On 08/06/10 15:05, "Alex J. G. Burzyński" wrote:
Hi,
On 08/06/10 14:09, Chris Cole wrote:
Given the schema provided at the end, why is this code so slow?
sub getCounts ($) {
my $self = shift;
my $dataset = shift;
croak "ERROR - dataset name is required\n" unless ($dataset);
m
On 8 Jun 2010, at 15:17, Chris Cole wrote:
>
> Which when run in an SQL client takes <1 sec to run and via 'normal' DBI the
> full code still runs in ~1.5 min. So, there's nothing wrong with the SQL.
> There seems to be something up with DBIC. This is DBIC v0.08122 BTW.
How many rows are there
Thanks for the reply.
The SQL being executed is:
SELECT me.mp_strand, mp_ref_id.rs_name, me.mp_start, me.mp_end, me.mp_freq
FROM ngs_mappings me
JOIN ngs_map_exps mp_me_id ON mp_me_id.me_id = me.mp_me_id
JOIN ngs_ref_seqs mp_ref_id ON mp_ref_id.rs_id = me.mp_ref_id
WHERE ( me_sample LIKE 'WT_t%_r
On Tue, Jun 8, 2010 at 9:09 AM, Chris Cole wrote:
>
> # make SQL search both technical replicates at the same time
> $dataset =~ s/t\d/t%/;
> my $rs = $self->resultset('NgsMappings')->search(
> {
> 'me_sample' => {'like', $dataset},
> },
> {
> columns => [qw/mp
Hi,
On 08/06/10 14:09, Chris Cole wrote:
> Given the schema provided at the end, why is this code so slow?
>
> sub getCounts ($) {
>my $self = shift;
>my $dataset = shift;
>
>croak "ERROR - dataset name is required\n" unless ($dataset);
>
>my $nHits;
>
># make SQL search both t
Given the schema provided at the end, why is this code so slow?
sub getCounts ($) {
my $self = shift;
my $dataset = shift;
croak "ERROR - dataset name is required\n" unless ($dataset);
my $nHits;
# make SQL search both technical replicates at the same time
$dataset =~ s/t\d/t
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