Please try val parsedData3 = data3.repartition(12).map(_.split("\t")).map(_.toDouble).cache()
and check the storage and driver/executor memory in the WebUI. Make sure the data is fully cached. -Xiangrui On Thu, Jul 17, 2014 at 5:09 AM, Ravishankar Rajagopalan <viora...@gmail.com> wrote: > Hi Xiangrui, > > Yes I am using Spark v0.9 and am not running it in local mode. > > I did the memory setting using "export SPARK_MEM=4G" before starting the > Spark instance. > > Also previously, I was starting it with -c 1 but changed it to -c 12 since > it is a 12 core machine. It did bring down the time taken to less than 200 > seconds from over 700 seconds. > > I am not sure how to repartition the data to match the CPU cores. How do I > do it? > > Thank you. > > Ravi > > > On Thu, Jul 17, 2014 at 3:17 PM, Xiangrui Meng <men...@gmail.com> wrote: >> >> Is it v0.9? Did you run in local mode? Try to set --driver-memory 4g >> and repartition your data to match number of CPU cores such that the >> data is evenly distributed. You need 1m * 50 * 8 ~ 400MB to storage >> the data. Make sure there are enough memory for caching. -Xiangrui >> >> On Thu, Jul 17, 2014 at 1:48 AM, Ravishankar Rajagopalan >> <viora...@gmail.com> wrote: >> > I am trying to use MLlib for K-Means clustering on a data set with 1 >> > million >> > rows and 50 columns (all columns have double values) which is on HDFS >> > (raw >> > txt file is 28 MB) >> > >> > I initially tried the following: >> > >> > val data3 = sc.textFile("hdfs://...inputData.txt") >> > val parsedData3 = data3.map( _.split('\t').map(_.toDouble)) >> > val numIterations = 10 >> > val numClusters = 200 >> > val clusters = KMeans.train(parsedData3, numClusters, numIterations) >> > >> > This took me nearly 850 seconds. >> > >> > I tried using persist with MEMORY_ONLY option hoping that this would >> > significantly speed up the algorithm: >> > >> > val data3 = sc.textFile("hdfs://...inputData.txt") >> > val parsedData3 = data3.map( _.split('\t').map(_.toDouble)) >> > parsedData3.persist(MEMORY_ONLY) >> > val numIterations = 10 >> > val numClusters = 200 >> > val clusters = KMeans.train(parsedData3, numClusters, numIterations) >> > >> > This resulted in only a marginal improvement and took around 720 >> > seconds. >> > >> > Is there any other way to speed up the algorithm further? >> > >> > Thank you. >> > >> > Regards, >> > Ravi > >