elki

WeightedCorePredicate Implementation for ELKI - An example

由 喜夏-厌秋 提交于 2021-02-11 12:31:55
问题 I've recently tried to implement an example of the Weighted DBSCAN in ELKI by modifying the CorePredicate (For example, using the MinPointCorePredicate as the base to build on) and I was just wondering if anyone could critique whether this would be the right implementation in this situation: import de.lmu.ifi.dbs.elki.algorithm.clustering.gdbscan.*; import de.lmu.ifi.dbs.elki.algorithm.clustering.kmeans.KMeansLloyd; import de.lmu.ifi.dbs.elki.data.Cluster; import de.lmu.ifi.dbs.elki.data

sample_weight option in the ELKI implementation of DBSCAN

由 丶灬走出姿态 提交于 2021-02-05 08:50:07
问题 My goal is to find outliers in a dataset that contains many near-duplicate points and I want to use ELKI implementation of DBSCAN for this task. As I don't care about the clusters themselves just the outliers (which I assume are relatively far from the clusters), I want to speed up the runtime by aggregating/binning points on a grid and using the concept implemented in scikit-learn as sample_weight. Can you please show minimum code to do similar analysis in ELKI? Let's assume my dataset

Elki GDBSCAN Java/Scala - how to modify the CorePredicate

由 大城市里の小女人 提交于 2021-01-29 08:08:06
问题 How is the generalised dbscan (gdbscan) in elki implemented in Java/Scala? I am currently trying to find an efficient way to implement a weighted dbscan on elki to offset the inefficiencies coming from the sklearn implementation of the weighted dbscan. The reason I am doing this at the moment is because the sklearn simply sucks for implementing the dbscan on clusters on datasets on the terabyte scale (on the cloud, which in this case I am). For example, I have made the following code with the

ELK学习3 启动es常见错误或问题

由 自古美人都是妖i 提交于 2020-03-01 04:10:43
1：警告提示 [2016-11-06T16:27:21,712][WARN ][o.e.b.JNANatives ] unable to install syscall filter: java.lang.UnsupportedOperationException: seccomp unavailable: requires kernel 3.5+ with CONFIG_SECCOMPandCONFIG_SECCOMP_FILTERcompiledinatorg.elasticsearch.bootstrap.Seccomp.linuxImpl(Seccomp.java:349) ~[elasticsearch-5.0.0.jar:5.0.0] at org.elasticsearch.bootstrap.Seccomp.init(Seccomp.java:630) ~[elasticsearch-5.0.0.jar:5.0.0] 报了一大串错误，其实只是一个警告。 解决：使用心得linux版本，就不会出现此类问题了。 2：ERROR: bootstrap checks failed max file descriptors [4096] for elasticsearch process likely too low, increase to at least [65536]

How to use existing data in ELKI

由 老子叫甜甜 提交于 2020-01-25 08:43:14
问题 I keep stubbling upon ELKI these couple of days while searching for the most suitable density clustering tool and decided to try it. For DBSCAN, I've managed to reproduce successfully the test which clusters the file "3clusters-and-noise-2d.csv" and have also managed to print clusters metadata and points in each cluster all via ELKI code from github (latest version) IN java (I'm not really interested in cli or ui tool). Now, I want to use some kind of internal java structure to create a

ELKI - input distance matrix

由 ℡╲_俬逩灬. 提交于 2020-01-16 14:46:23
问题 I'm trying to use ELKI for outlier detection ; I have my custom distance matrix and I'm trying to input it to ELKI to perform LOF (for example, in a first time). I try to follow http://elki.dbs.ifi.lmu.de/wiki/HowTo/PrecomputedDistances but it is not very clear to me. What I do: I don't want to load data from database so I use: -dbc DBIDRangeDatabaseConnection -idgen.count 100 (where 100 is the number of objects I'll be analyzing) I use LOF algo and call the external distance file -algorithm

ELKI - Use List<String> of objects to populate the Database

由 醉酒当歌 提交于 2020-01-05 18:55:39
问题 Sorry for the naive question, but I got stuck while following all the pieces of tutorials available. So, is there a way to populate a Database db from a simple List rather than loading it reading a file? Basically what I'm looking for is something similar to: List objects = ... Database db = ClassGenericsUtil.parameterizeOrAbort(ArrayDatabase.class, params, objects); db.initialize(); Thanks in advance. 回答1: What are the contents of your String s? Same as understood by the ELKI parsers? This

ELKI - Use List<String> of objects to populate the Database

由 ￣綄美尐妖づ 提交于 2020-01-05 18:55:14
问题 Sorry for the naive question, but I got stuck while following all the pieces of tutorials available. So, is there a way to populate a Database db from a simple List rather than loading it reading a file? Basically what I'm looking for is something similar to: List objects = ... Database db = ClassGenericsUtil.parameterizeOrAbort(ArrayDatabase.class, params, objects); db.initialize(); Thanks in advance. 回答1: What are the contents of your String s? Same as understood by the ELKI parsers? This

ELKI DBSCAN R* tree index

由 六眼飞鱼酱① 提交于 2020-01-02 07:19:18
问题 In MiniGUi, I can see db.index . How do I set it to tree.spatial.rstarvariants.rstar.RStartTreeFactory via Java code? I have implemented: params.addParameter(AbstractDatabase.Parameterizer.INDEX_ID,tree.spatial.rstarvariants.rstar.RStarTreeFactory); For the second parameter of addParameter() function tree.spatial...RStarTreeFactory class not found // Setup parameters: ListParameterization params = new ListParameterization(); params.addParameter( FileBasedDatabaseConnection.Parameterizer.INPUT

How to index with ELKI - OPTICS clustering

由 跟風遠走 提交于 2019-12-25 14:24:10
问题 I'm an ELKI beginner, and I've been using it to cluster around 10K lat-lon points from a .csv file. Once I get my settings correct, I'd like to scale up to 1MM points. I'm using the OPTICSXi algorithm with LngLatDistanceFunction I keep reading about "enabling R*-tree index with STR bulk loading" in order to see vast improvements in performance. The tutorials haven't helped me much. Any tips on how I can implement this feature? 回答1: The suggested parameters for using a spatial R* index on 2
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