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Re: THREDDS performance [was Re: THREDDS and grib]
- Subject: Re: THREDDS performance [was Re: THREDDS and grib]
- Date: Mon, 23 Jun 2008 13:20:15 -0700
Hi John -
I've attached a few examples of the files that are getting cached for
the JoinExisting aggregation, as well as the config info for a few of
the JoinExisting agg's and the Union aggregation....
Let me know if there's anything else that would help..
thanks -
kev
John Caron wrote:
Kevin O'Brien wrote:
Hi John
John Caron wrote:
- can you send me the cache file for the test dataset?
Would I find this in the $TOMCAT_HOME/content/thredds/cacheAged
directory? Because what I see in there are the cache files for the
JoinExisting aggregations, which then get put into a Union
aggregation, and it is the Union aggregation URL that is being
accessed and is slow. There doesn't seem to be any cache entries, in
that directory anyway, representing the Union aggregation. Are they
somewhere else?
only the joinExisting aggs get cached.
- can yuo give me approximate times of what you see vs what you
would expect ?
On example took 3 minutes and 40 seconds to open up the dataset html
page through the OPeNDAP html interface. That particular example was
a Union aggregation of 47 JoinExisting aggregations. Maybe that's
just the time it should take? And if that is the case, then I think
we can live with it on the first access, but then the question is why
not use the cached info after a tomcat restart?
that seems ok for the first time, but then it should use the cache and
be much faster.
im guessing theres some other problem i dont see yet.
can you send me the ncml for the union, and also one or more of the
aggExisting cached files.
kev
Kevin O'Brien wrote:
Hi John -
I installed the version 3.16.37 of the server and unfortunately, it
doesn't seem to make the problem go away. It did kind of seem like
things were a bit quicker at times, but it was hard to accurately
assess. Of course, the initial access of these large aggregations
is still pretty slow, and then subsequent accesses are faster.
However, it does seem like a restart of the tomcat server somehow
erases the cache information and so every initial access after a
tomcat reboot is slow.
Is there anything else I can do to help further debug the problem?
thanks -
Kevin
John Caron wrote:
Hi Kevin: I made a small fix that looks like it would affect your
case, but im not convinced it really would cause a huge slowdown.
anyway, i wonder if you would give it a try and let me know?
Its TDS release 3.16.37.
thanks for your patience
Kevin O'Brien wrote:
Hi John -
Not to be a pest - but I was wondering if you'd had a chance to
look at these performance issues, or even been able to recreate
them?
Thanks -
kevin
John Caron wrote:
these are all good questions - there have been similar reports
of the agg cache not working like it should. i will have to
reproduce to see whats happening.
Kevin O'Brien wrote:
Hi John -
I tried what you suggested and it didn't seem to have a
significant effect in making the initial access of the
aggregated dataset quicker. It still took over a minute and a
half to open the dataset. I've pasted the xml config that I
used to define the new aggregation below. To be honest, I'm
actually kind of glad because I wasn't looking forward to
modifying the guts of the application which generates the xml
config automatically.... :-)
I guess I can understand and probably even accept the fact that
for the first time the dataset is accessed, things will be a
little slow. After that, I presume the dataset is available in
the cache, and of course subsequent accesses prove that it is
because the response is quite quick. However, if the tomcat
server is restarted, it seems like whatever is in the cache is
ignored and the cache entries have to be rebuilt. I have my
aggregation cache set like so:
<AggregationCache>
<dir>/home/pmel/DataPortal/apache-tomcat-5.5.25/content/thredds/cacheAged/</dir>
<scour>24 hours</scour>
<maxAge>90 days</maxAge>
</AggregationCache> Does that seem correct? Also, as an
aside, you mention that you thought this would be quicker
because it avoids the OPeNDAP URL's....Shouldn't there be some
client side caching done w/ the OPeNDAP datasets? For example,
if I access a remote dataset with ncdump (or Ferret), and my
OPeNDAP caching is turned on my ~/.dodsrc file, it will cache
the response in the ~/.dods_cache directory. Does any of that
happen when OPeNDAP URL's are accessed through TDS???
Anyway - here's the xml config I used as per your suggestion:
<dataset ID="CM2.1U-D4_1PctTo2X_I1 atmos daily all vars
00010101-02201231_2" name="CM2.1U-D4_1PctTo2X_I1 atmos daily
all vars 00010101-02201231_2"
urlPath="ipcc_ar4_CM2.1_R1_1to2x-1_daily_atmos_00010101-02201231_2">
<serviceName>thisDODS3</serviceName>
<netcdf
xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation type="union">
<netcdf
xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/pr_A2.00010101-01001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/pr_A2.01010101-02001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/pr_A2.02010101-02201231.nc"
ncoords="7300" />
</aggregation>
</netcdf>
<netcdf
xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmax_A2.00010101-01001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmax_A2.01010101-02001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmax_A2.02010101-02201231.nc"
ncoords="7300" />
</aggregation>
</netcdf>
<netcdf
xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmin_A2.00010101-01001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmin_A2.01010101-02001231.nc"
ncoords="36500" />
<netcdf
location="file:/data/gfdl_cm2_1/CM2.1U-D4_1PctTo2X_I1/pp/atmos/ts/daily/tasmin_A2.02010101-02201231.nc"
ncoords="7300" />
</aggregation>
</netcdf>
</aggregation>
</netcdf>
</dataset>
I'm open to any suggestions or ideas!
thanks -
kevin
John Caron wrote:
Hi Kevin:
I havent had time to reproduce this yet, but im guessing one
source of the slowdown is using opendap URLS in the compound
aggregation. It would be interesting to time 1) the single
aggregations, 2) the compound agg as it exists, and 3) the
compound agg, but replace the opendap URLs with direct netcdf
files,
see attached file
--
Kevin O'Brien UW/JISAO
Research Scientist NOAA/PMEL/TMAP
206-526-6751 http://tmap.pmel.noaa.gov
"The contents of this message are mine personally and do
not necessarily reflect any position of the Government
or the National Oceanic and Atmospheric Administration."
<dataset ID="hfls_monthly_1to2x-0_R1_00010101-02801231" name="hfls"
urlPath="hfls_monthly_1to2x-0_R1_00010101-02801231">
<serviceName>thisDODS</serviceName>
<netcdf xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hfls_A1.000101-028012.nc"
ncoords="3360" />
</aggregation>
</netcdf>
</dataset>
<dataset ID="hfss_monthly_1to2x-0_R1_00010101-02801231" name="hfss"
urlPath="hfss_monthly_1to2x-0_R1_00010101-02801231">
<serviceName>thisDODS</serviceName>
<netcdf xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hfss_A1.000101-028012.nc"
ncoords="3360" />
</aggregation>
</netcdf>
</dataset>
<dataset ID="hur_monthly_1to2x-0_R1_00010101-02801231" name="hur"
urlPath="hur_monthly_1to2x-0_R1_00010101-02801231">
<serviceName>thisDODS</serviceName>
<netcdf xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation dimName="time" type="joinExisting">
<netcdf
location="file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hur_A1.000101-010012.nc"
ncoords="1200" />
<netcdf
location="file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hur_A1.010101-020012.nc"
ncoords="1200" />
<netcdf
location="file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hur_A1.020101-028012.nc"
ncoords="960" />
</aggregation>
</netcdf>
</dataset>
<dataset ID="ipcc_ar4 CM2Q-d2_1PctTo2x_i1 atmos monthly all vars "
name="ipcc_ar4 CM2Q-d2_1PctTo2x_i1 atmos monthly all vars ">
<dataset ID="CM2Q-d2_1PctTo2x_i1 atmos monthly all vars
00010101-02801231" name="CM2Q-d2_1PctTo2x_i1 atmos monthly all vars
00010101-02801231"
urlPath="ipcc_ar4_CM2.0_R1_1to2x-0_monthly_atmos_00010101-02801231">
<serviceName>thisDODS</serviceName>
<netcdf xmlns="http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2";>
<aggregation type="union">
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/cl_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/clivi_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/clt_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/clwvi_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/hfls_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/hfss_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/hur_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/hus_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/pr_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/prc_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/prsn_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/prw_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/ps_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/psl_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlds_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rldscs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlntp_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlntpcs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlus_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlut_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rlutcs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsds_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsdscs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsdt_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsntp_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsntpcs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsus_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsuscs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsut_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rsutcs_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/rtmt_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/ta_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/tas_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/tauu_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/tauv_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/tro3_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/ts_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/ua_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/uas_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/va_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/vas_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/wap_monthly_1to2x-0_R1_00010101-02801231";
/>
<netcdf
location="http://data1.gfdl.noaa.gov:8780/thredds/dodsC/zg_monthly_1to2x-0_R1_00010101-02801231";
/>
</aggregation>
</netcdf>
</dataset>
</dataset>
</dataset>
<?xml version='1.0' encoding='UTF-8'?>
<aggregation xmlns='http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2'
version='1' type='joinExisting' dimName='time' >
<netcdf
location='file:/data/gfdl_cm2_0/CM2Q-d2_1PctTo2x_i1/pp/atmos/ts/monthly/hfls_A1.000101-028012.nc'
ncoords='3360' coordValue='15.5 45.0 74.5 105.0 135.5 166.0 196.5 227.5 258.0
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</aggregation>
From:
address@hidden (PMEL users)
Date:
Mon, 23 Jun 2008 16:07:58 -0400 (EDT)
To:
Kevin.M.O'address@hidden
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