* using log directory ‘/data/blackswan/ripley/R/packages/tests-devel/APML.Rcheck’ * using R Under development (unstable) (2022-05-27 r82411) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * checking for file ‘APML/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘APML’ version ‘0.0.5’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘APML’ can be installed ... OK * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking dependencies in R code ... NOTE Namespace in Imports field not imported from: ‘survival’ All declared Imports should be used. * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [12s/12s] OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking examples ... OK * checking examples with --run-donttest ... [13s/54s] ERROR Running examples in ‘APML-Ex.R’ failed The error most likely occurred in: > ### Name: splits_selection > ### Title: Split dataset and select variables > ### Aliases: splits_selection > > ### ** Examples > > ## No test: > library(survival) > library(h2o) ---------------------------------------------------------------------- Your next step is to start H2O: > h2o.init() For H2O package documentation, ask for help: > ??h2o After starting H2O, you can use the Web UI at http://localhost:54321 For more information visit https://docs.h2o.ai ---------------------------------------------------------------------- Attaching package: ‘h2o’ The following objects are masked from ‘package:stats’: cor, sd, var The following objects are masked from ‘package:base’: %*%, %in%, &&, apply, as.factor, as.numeric, colnames, colnames<-, ifelse, is.character, is.factor, is.numeric, log, log10, log1p, log2, round, signif, trunc, || > library(performanceEstimation) > data("lung") Warning in data("lung") : data set ‘lung’ not found > attach(lung) > data <- datatrans(lung,factor_dummy = 'dummy',rescale = TRUE) Attention: Make sure only numbers in data. No characters. drop missing variables rescaling numeric variables > data <- data[,c(3,1,2,4:14)] > h2o.init() H2O is not running yet, starting it now... Note: In case of errors look at the following log files: /tmp/Rtmp81nFSq/working_dir/Rtmp1luuzP/file333d7918d3f6be/h2o_ripley_started_from_r.out /tmp/Rtmp81nFSq/working_dir/Rtmp1luuzP/file333d793071e9ee/h2o_ripley_started_from_r.err openjdk version "11.0.15" 2022-04-19 OpenJDK Runtime Environment 18.9 (build 11.0.15+10) OpenJDK 64-Bit Server VM 18.9 (build 11.0.15+10, mixed mode, sharing) Starting H2O JVM and connecting: .... Connection successful! R is connected to the H2O cluster: H2O cluster uptime: 2 seconds 794 milliseconds H2O cluster timezone: Europe/London H2O data parsing timezone: UTC H2O cluster version: 3.36.1.2 H2O cluster version age: 1 day H2O cluster name: H2O_started_from_R_ripley_ydg016 H2O cluster total nodes: 1 H2O cluster total memory: 29.97 GB H2O cluster total cores: 32 H2O cluster allowed cores: 32 H2O cluster healthy: TRUE H2O Connection ip: localhost H2O Connection port: 54321 H2O Connection proxy: NA H2O Internal Security: FALSE R Version: R Under development (unstable) (2022-05-27 r82411) > selection <- splits_selection(data,imbalance = 'SMOTE') the first column is used as response variable initialing... | | | 0% | |======================================================================| 100% | | | 0% | |======================================================================| 100% | | | 0% ERROR: Unexpected HTTP Status code: 400 Bad Request (url = http://localhost:54321/3/Jobs/$03017f00000132d4ffffffff$_95c98a88c04f959fc2bd5e47808b4626) java.lang.IllegalArgumentException [1] "java.lang.IllegalArgumentException: Job is missing" [2] " water.Job.tryGetDoneJob(Job.java:498)" [3] " water.api.JobsHandler.fetch(JobsHandler.java:39)" [4] " java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)" [5] " java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)" [6] " java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)" [7] " java.base/java.lang.reflect.Method.invoke(Method.java:566)" [8] " water.api.Handler.handle(Handler.java:60)" [9] " water.api.RequestServer.serve(RequestServer.java:472)" [10] " water.api.RequestServer.doGeneric(RequestServer.java:303)" [11] " water.api.RequestServer.doGet(RequestServer.java:225)" [12] " javax.servlet.http.HttpServlet.service(HttpServlet.java:687)" [13] " javax.servlet.http.HttpServlet.service(HttpServlet.java:790)" [14] " org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:865)" [15] " org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:535)" [16] " org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:255)" [17] " org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1317)" [18] " org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:203)" [19] " org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:473)" [20] " org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:201)" [21] " org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1219)" [22] " org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:144)" [23] " org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:126)" [24] " org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)" [25] " water.webserver.jetty9.Jetty9ServerAdapter$LoginHandler.handle(Jetty9ServerAdapter.java:130)" [26] " org.eclipse.jetty.server.handler.HandlerCollection.handle(HandlerCollection.java:126)" [27] " org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:132)" [28] " org.eclipse.jetty.server.Server.handle(Server.java:531)" [29] " org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:352)" [30] " org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:260)" [31] " org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:281)" [32] " org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:102)" [33] " org.eclipse.jetty.io.ChannelEndPoint$2.run(ChannelEndPoint.java:118)" [34] " org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:333)" [35] " org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:310)" [36] " org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:168)" [37] " org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:126)" [38] " org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:366)" [39] " org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:762)" [40] " org.eclipse.jetty.util.thread.QueuedThreadPool$2.run(QueuedThreadPool.java:680)" [41] " java.base/java.lang.Thread.run(Thread.java:829)" Error in .h2o.doSafeREST(h2oRestApiVersion = h2oRestApiVersion, urlSuffix = urlSuffix, : ERROR MESSAGE: Job is missing [1] "Job is no longer exists: \n\nERROR MESSAGE:\n\nJob is missing\n\n" Error in h2o.get_job(job_key, jobPollSuccess, jobIsRecoverable) : Error in .h2o.doSafeREST(h2oRestApiVersion = h2oRestApiVersion, urlSuffix = urlSuffix, : ERROR MESSAGE: Job is missing Calls: splits_selection ... tryCatchList -> tryCatchOne -> doTryCatch -> h2o.get_job Execution halted * checking PDF version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * checking for new files in some other directories ... OK * DONE Status: 1 ERROR, 1 NOTE See ‘/data/blackswan/ripley/R/packages/tests-devel/APML.Rcheck/00check.log’ for details. Command exited with non-zero status 1 Time 2:02.00, 69.86 + 8.95