Hello all,
(Thank for your reply)
I have a web-application in Apache Tomcat, when i start R in this
application,
I used packe RSJava
Code
ROmegahatInterpreter interp;
String [] rargs = {"--no-save"};
REvaluator e;
interp = new ROmegahatInterpreter (
ROmegahatInterpreter.fixArgs(rargs),false );
e =new REvaluator ();
Errors
===============R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
*** caught segfault ***
address 0x4, cause 'memory not mapped'
Warning: stack imbalance in 'if', 153 then 154
Warning: stack imbalance in '{', 151 then 152
Warning: stack imbalance in '<-', 145 then 146
Warning: stack imbalance in 'if', 143 then 145
Warning: stack imbalance in '{', 141 then 142
Warning: stack imbalance in '<-', 135 then 137
Warning: stack imbalance in 'if', 146 then 148
Warning: stack imbalance in 'is.list', 163 then 164
Warning: stack imbalance in '{', 144 then 145
Warning: stack imbalance in '<-', 138 then 139
Warning: stack imbalance in 'if', 136 then 143
Warning: stack imbalance in 'lazyLoadDBfetch', 140 then 138
Warning: stack imbalance in '{', 147 then 146
Warning: stack imbalance in '||', 140 then 139
Warning: stack imbalance in 'if', 138 then 137
Warning: stack imbalance in '{', 133 then 135
Warning: stack imbalance in 'if', 127 then 129
Warning: stack imbalance in '{', 125 then 127
Warning: stack imbalance in '[', 142 then 146
Warning: stack imbalance in 'lazyLoadDBfetch', 128 then 138
Warning: stack imbalance in 'lazyLoadDBfetch', 87 then 88
Warning: stack imbalance in 'if', 112 then 111
Warning: stack imbalance in 'inherits', 122 then 121
Warning: stack imbalance in '.Internal', 121 then 120
Warning: stack imbalance in 'if', 111 then 110
Warning: stack imbalance in 'match', 110 then 108
Warning: stack imbalance in '.Internal', 109 then 107
Warning: stack imbalance in '<-', 103 then 100
Warning: stack imbalance in '>', 109 then 110
Warning: stack imbalance in '&&', 102 then 103
Warning: stack imbalance in 'if', 100 then 101
Warning: stack imbalance in '{', 101 then 98
Warning: stack imbalance in 'if', 99 then 97
Warning: stack imbalance in '<-', 84 then 85
Warning: stack imbalance in '{', 82 then 84
Warning: stack imbalance in 'if', 80 then 82
Traceback:
1: .getClassFromCache(Class, where)
2: getClassDef(cl)
3: methods:::is(genfun, "genericFunction")
4: registerS3methods(nsInfo$S3methods, package, env)
5: loadNamespace(package, c(which.lib.loc, lib.loc), keep.source keep.source)
6: doTryCatch(return(expr), name, parentenv, handler)
7: tryCatchOne(expr, names, parentenv, handlers[[1L]])
8: tryCatchList(expr, classes, parentenv, handlers)
9: tryCatch(expr, error = function(e) { call <- conditionCall(e) if
(!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch)))
call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix
<-
paste("Error in", dcall, ": ") LONG <- 75L
msg <-
conditionMessage(e) sm <- strsplit(msg, "\n")[[1L]] w
<- 14L +
nchar(dcall, type = "w") + nchar(sm[1L], type = "w")
if (is.na(w))
w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L],
type "b") if (w > LONG) prefix <-
paste(prefix, "\n ", sep "") } else prefix <-
"Error : " msg <- paste(prefix,
conditionMessage(e), "\n", sep = "")
.Internal(seterrmessage(msg[1L]))
if (!silent && identical(getOption("show.error.messages"),
TRUE)) {
cat(msg, file = stderr()) .Internal(printDeferredWarnings()) }
invisible(structure(msg, class = "try-error"))})
10: try({ ns <- loadNamespace(package, c(which.lib.loc, lib.loc),
keep.source = keep.source) dataPath <- file.path(which.lib.loc, package,
"data") env <- attachNamespace(ns, pos = pos, dataPath =
dataPath)})
11: library(package, lib.loc = lib.loc, character.only = TRUE,
logical.return = TRUE, warn.conflicts = warn.conflicts, keep.source
keep.source)
12: require(pkg, quietly = TRUE, warn.conflicts = FALSE, character.only TRUE,
save = FALSE)
13: .First.sys()
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
*** caught segfault ***
address 0x4, cause 'memory not mapped'
Traceback:
1: nchar(dcall, type = "w")
2: value[[3L]](cond)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: tryCatch(expr, error = function(e) { call <- conditionCall(e) if
(!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch)))
call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix
<-
paste("Error in", dcall, ": ") LONG <- 75L
msg <-
conditionMessage(e) sm <- strsplit(msg, "\n")[[1L]] w
<- 14L +
nchar(dcall, type = "w") + nchar(sm[1L], type = "w")
if (is.na(w))
w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L],
type "b") if (w > LONG) prefix <-
paste(prefix, "\n ", sep "") } else prefix <-
"Error : " msg <- paste(prefix,
conditionMessage(e), "\n", sep = "")
.Internal(seterrmessage(msg[1L]))
if (!silent && identical(getOption("show.error.messages"),
TRUE)) {
cat(msg, file = stderr()) .Internal(printDeferredWarnings()) }
invisible(structure(msg, class = "try-error"))})
6: try({ ns <- loadNamespace(package, c(which.lib.loc, lib.loc),
keep.source = keep.source) dataPath <- file.path(which.lib.loc, package,
"data") env <- attachNamespace(ns, pos = pos, dataPath =
dataPath)})
7: library(package, lib.loc = lib.loc, character.only = TRUE,
logical.return = TRUE, warn.conflicts = warn.conflicts, keep.source
keep.source)
8: require(pkg, quietly = TRUE, warn.conflicts = FALSE, character.only TRUE,
save = FALSE)
9: .First.sys()
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Error in get(Info[i, 1], envir = env) : invalid 'inherits' argument
During startup - Warning message:
package stats in options("defaultPackages") was not found
Selection: readline: readline_callback_read_char() called with no handler!
1
bash: 1: command not found
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On 02/08/2010 12:51 AM, Jiiindo wrote:> > Hello all, > (Thank for your reply) > I have a web-application in Apache Tomcat, when i start R in this > application, > I used packe RSJava > Code > ROmegahatInterpreter interp; > String [] rargs = {"--no-save"}; > REvaluator e; > interp = new ROmegahatInterpreter ( > ROmegahatInterpreter.fixArgs(rargs),false ); > e =new REvaluator (); > > > Errors > ===============> R version 2.10.1 (2009-12-14) > Copyright (C) 2009 The R Foundation for Statistical Computing > ISBN 3-900051-07-0 > > R is free software and comes with ABSOLUTELY NO WARRANTY. > You are welcome to redistribute it under certain conditions. > Type 'license()' or 'licence()' for distribution details. > > Natural language support but running in an English locale > > R is a collaborative project with many contributors. > Type 'contributors()' for more information and > 'citation()' on how to cite R or R packages in publications. > > Type 'demo()' for some demos, 'help()' for on-line help, or > 'help.start()' for an HTML browser interface to help. > Type 'q()' to quit R. > > > *** caught segfault *** > address 0x4, cause 'memory not mapped' > Warning: stack imbalance in 'if', 153 then 154> Warning: stack imbalance in '{', 151 then 152Probably additional information is needed. What version of SJava? In an R session: > library(SJava) > sessionInfo() Try to start R with fewer packages (and more quietly) with String rargs[] = {"--quiet", "--vanilla"}; Can you get as far as String [] rargs = {"--quiet", "--vanilla"}; ROmegahatInterpreter interp = new ROmegahatInterpreter ( ROmegahatInterpreter.fixArgs(rargs),false ); REvaluator e =new REvaluator (); tryCatch({ e.voidEval("library(SJava)"); e.voidEval("print(sessionInfo())"); } catch (Exception ex) { e.printStackTrack(); } ? Martin> Warning: stack imbalance in '<-', 145 then 146 > Warning: stack imbalance in 'if', 143 then 145 > Warning: stack imbalance in '{', 141 then 142 > Warning: stack imbalance in '<-', 135 then 137 > Warning: stack imbalance in 'if', 146 then 148 > Warning: stack imbalance in 'is.list', 163 then 164 > Warning: stack imbalance in '{', 144 then 145 > Warning: stack imbalance in '<-', 138 then 139 > Warning: stack imbalance in 'if', 136 then 143 > Warning: stack imbalance in 'lazyLoadDBfetch', 140 then 138 > Warning: stack imbalance in '{', 147 then 146 > Warning: stack imbalance in '||', 140 then 139 > Warning: stack imbalance in 'if', 138 then 137 > Warning: stack imbalance in '{', 133 then 135 > Warning: stack imbalance in 'if', 127 then 129 > Warning: stack imbalance in '{', 125 then 127 > Warning: stack imbalance in '[', 142 then 146 > Warning: stack imbalance in 'lazyLoadDBfetch', 128 then 138 > Warning: stack imbalance in 'lazyLoadDBfetch', 87 then 88 > Warning: stack imbalance in 'if', 112 then 111 > Warning: stack imbalance in 'inherits', 122 then 121 > Warning: stack imbalance in '.Internal', 121 then 120 > Warning: stack imbalance in 'if', 111 then 110 > Warning: stack imbalance in 'match', 110 then 108 > Warning: stack imbalance in '.Internal', 109 then 107 > Warning: stack imbalance in '<-', 103 then 100 > Warning: stack imbalance in '>', 109 then 110 > Warning: stack imbalance in '&&', 102 then 103 > Warning: stack imbalance in 'if', 100 then 101 > Warning: stack imbalance in '{', 101 then 98 > Warning: stack imbalance in 'if', 99 then 97 > Warning: stack imbalance in '<-', 84 then 85 > Warning: stack imbalance in '{', 82 then 84 > Warning: stack imbalance in 'if', 80 then 82 > > Traceback: > 1: .getClassFromCache(Class, where) > 2: getClassDef(cl) > 3: methods:::is(genfun, "genericFunction") > 4: registerS3methods(nsInfo$S3methods, package, env) > 5: loadNamespace(package, c(which.lib.loc, lib.loc), keep.source > keep.source) > 6: doTryCatch(return(expr), name, parentenv, handler) > 7: tryCatchOne(expr, names, parentenv, handlers[[1L]]) > 8: tryCatchList(expr, classes, parentenv, handlers) > 9: tryCatch(expr, error = function(e) { call <- conditionCall(e) if > (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) > call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix <- > paste("Error in", dcall, ": ") LONG <- 75L msg <- > conditionMessage(e) sm <- strsplit(msg, "\n")[[1L]] w <- 14L + > nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) > w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type > "b") if (w > LONG) prefix <- paste(prefix, "\n ", sep > "") } else prefix <- "Error : " msg <- paste(prefix, > conditionMessage(e), "\n", sep = "") .Internal(seterrmessage(msg[1L])) > if (!silent && identical(getOption("show.error.messages"), TRUE)) { > cat(msg, file = stderr()) .Internal(printDeferredWarnings()) } > invisible(structure(msg, class = "try-error"))}) > 10: try({ ns <- loadNamespace(package, c(which.lib.loc, lib.loc), > keep.source = keep.source) dataPath <- file.path(which.lib.loc, package, > "data") env <- attachNamespace(ns, pos = pos, dataPath = dataPath)}) > 11: library(package, lib.loc = lib.loc, character.only = TRUE, > logical.return = TRUE, warn.conflicts = warn.conflicts, keep.source > keep.source) > 12: require(pkg, quietly = TRUE, warn.conflicts = FALSE, character.only > TRUE, save = FALSE) > 13: .First.sys() > > Possible actions: > 1: abort (with core dump, if enabled) > 2: normal R exit > 3: exit R without saving workspace > 4: exit R saving workspace > > *** caught segfault *** > address 0x4, cause 'memory not mapped' > > Traceback: > 1: nchar(dcall, type = "w") > 2: value[[3L]](cond) > 3: tryCatchOne(expr, names, parentenv, handlers[[1L]]) > 4: tryCatchList(expr, classes, parentenv, handlers) > 5: tryCatch(expr, error = function(e) { call <- conditionCall(e) if > (!is.null(call)) { if (identical(call[[1L]], quote(doTryCatch))) > call <- sys.call(-4L) dcall <- deparse(call)[1L] prefix <- > paste("Error in", dcall, ": ") LONG <- 75L msg <- > conditionMessage(e) sm <- strsplit(msg, "\n")[[1L]] w <- 14L + > nchar(dcall, type = "w") + nchar(sm[1L], type = "w") if (is.na(w)) > w <- 14L + nchar(dcall, type = "b") + nchar(sm[1L], type > "b") if (w > LONG) prefix <- paste(prefix, "\n ", sep > "") } else prefix <- "Error : " msg <- paste(prefix, > conditionMessage(e), "\n", sep = "") .Internal(seterrmessage(msg[1L])) > if (!silent && identical(getOption("show.error.messages"), TRUE)) { > cat(msg, file = stderr()) .Internal(printDeferredWarnings()) } > invisible(structure(msg, class = "try-error"))}) > 6: try({ ns <- loadNamespace(package, c(which.lib.loc, lib.loc), > keep.source = keep.source) dataPath <- file.path(which.lib.loc, package, > "data") env <- attachNamespace(ns, pos = pos, dataPath = dataPath)}) > 7: library(package, lib.loc = lib.loc, character.only = TRUE, > logical.return = TRUE, warn.conflicts = warn.conflicts, keep.source > keep.source) > 8: require(pkg, quietly = TRUE, warn.conflicts = FALSE, character.only > TRUE, save = FALSE) > 9: .First.sys() > > Possible actions: > 1: abort (with core dump, if enabled) > 2: normal R exit > 3: exit R without saving workspace > 4: exit R saving workspace > Error in get(Info[i, 1], envir = env) : invalid 'inherits' argument > During startup - Warning message: > package stats in options("defaultPackages") was not found > Selection: readline: readline_callback_read_char() called with no handler! > 1 > bash: 1: command not found >-- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793
Thanks for your answer,
I can run it with an application Java normal. In my web-application, when i
need, i start R et calling R function (new REvaluator).eval("1+1") to
calcule an expression "1+1"example.
And output of your code:
Loading RInterpreter library
Load the Java VM with .JavaInit()
R version 2.10.1 (2009-12-14)
i686-pc-linux-gnu
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=C LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] SJava_0.72.0
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