I apologize if the file posted below is the wrong log. I start up R 4.4.0 on my iMac 13.5.2 , type 'library(dplyr)' and r.app gui crashes immediately. Same for ggplot2, gert, stringr, and others . I have verified that I've updated every R library in my system. I can successfully load other libs, e.g., Rmpfr,knitr, MASS, so I doubt it's a directory or permissions problem.
R 4.4 crashes loading dplyr
3 messages · Carl Witthoft, Peter Dalgaard
Hmm, worx4me. At least from a fresh source build.
I am suspicious of the "4.2" in a number of entries in your log, e.g.
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"arch" : "x86_64",
"base" : 5029900288,
"size" : 3260416,
"uuid" : "c3e6d895-7059-3865-aa61-a941ea1c4569",
"path" :
"\/Library\/Frameworks\/R.framework\/Versions\/4.2\/Resources\/lib\/libR.dylib",
"name" : "libR.dylib"
},
which suggests that you may be mixing incompatible binaries. Do you have an older private library on your search path? That has bitten me at some point.
- pd.
On 30 Apr 2024, at 00:55 , Carl Witthoft <cellocgw at gmail.com> wrote:
I apologize if the file posted below is the wrong log.
I start up R 4.4.0 on my iMac 13.5.2 , type 'library(dplyr)' and r.app
gui crashes immediately. Same for ggplot2, gert, stringr, and others .
I have verified that I've updated every R library in my system. I can
successfully load other libs, e.g., Rmpfr,knitr, MASS, so I doubt it's a
directory or permissions problem.
From the command line:
library(dplyr)
*** caught segfault ***
address 0x406e0, cause 'memory not mapped'
Traceback:
1: fun(libname, pkgname)
2: doTryCatch(return(expr), name, parentenv, handler)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: tryCatch(fun(libname, pkgname), error = identity)
6: runHook(".onLoad", env, package.lib, package)
7: loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck =
vI[[j]])
8: asNamespace(ns)
9: namespaceImportFrom(ns, loadNamespace(j <- i[[1L]], c(lib.loc,
.libPaths()), versionCheck = vI[[j]]), i[[2L]], from = package)
10: loadNamespace(package, lib.loc)
11: doTryCatch(return(expr), name, parentenv, handler)
12: tryCatchOne(expr, names, parentenv, handlers[[1L]])
13: tryCatchList(expr, classes, parentenv, handlers)
14: tryCatch({ attr(package, "LibPath") <- which.lib.loc ns <-
loadNamespace(package, lib.loc) env <- attachNamespace(ns, pos = pos,
deps, exclude, include.only)}, error = function(e) { P <- if
(!is.null(cc <- conditionCall(e))) paste(" in", deparse(cc)[1L])
else "" msg <- gettextf("package or namespace load failed for %s%s:\n
%s", sQuote(package), P, conditionMessage(e)) if (logical.return
&& !quietly) message(paste("Error:", msg), domain = NA) else
stop(msg, call. = FALSE, domain = NA)})
15: library(dplyr)
---- ~/library/logs/diagnosticreports file pasted below --
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--
Carl Witthoft
[[alternative HTML version deleted]]
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Peter Dalgaard, Professor, Center for Statistics, Copenhagen Business School Solbjerg Plads 3, 2000 Frederiksberg, Denmark Phone: (+45)38153501 Office: A 4.23 Email: pd.mes at cbs.dk Priv: PDalgd at gmail.com
Thanks, Peter! The funny thing is that I had kept R 4.2 around in the Frameworks directory, but didn't expect a new installation of R4.4 to choose that path for libs. I removed R4.2 , then reinstalled R4.4 and now the correct libs are invoked. I guess some config macro file must have remained in the list of startup items. FWIW, after removing R4.2 but before reinstalling R4.4, I tried 'library(dplyr)' , which didn't crash but failed with the error msgs shown here. Error: package or namespace load failed for ?dplyr? in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/magrittr/libs/magrittr.so': dlopen(/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/magrittr/libs/magrittr.so, 0x0006): Library not loaded: /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libR.dylib Referenced from: <B6E9C258-16F0-31E8-AF63-50207542C35F> /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/magrittr/libs/magrittr.so Reason: tried: '/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libR.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libR.dylib' (no such file), '/Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libR.dylib' (no such file), '/usr/local/lib/libR.dylib' (no such file), '/usr/lib/libR.dylib' (no such file, not in dyld cac regards, Carl
On Tue, Apr 30, 2024 at 4:48?AM peter dalgaard <pdalgd at gmail.com> wrote:
Hmm, worx4me. At least from a fresh source build.
I am suspicious of the "4.2" in a number of entries in your log, e.g.
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"arch" : "x86_64",
"base" : 5029900288,
"size" : 3260416,
"uuid" : "c3e6d895-7059-3865-aa61-a941ea1c4569",
"path" :
"\/Library\/Frameworks\/R.framework\/Versions\/4.2\/Resources\/lib\/libR.dylib",
"name" : "libR.dylib"
},
which suggests that you may be mixing incompatible binaries. Do you have
an older private library on your search path? That has bitten me at some
point.
- pd.
On 30 Apr 2024, at 00:55 , Carl Witthoft <cellocgw at gmail.com> wrote:
I apologize if the file posted below is the wrong log.
I start up R 4.4.0 on my iMac 13.5.2 , type 'library(dplyr)' and r.app
gui crashes immediately. Same for ggplot2, gert, stringr, and others .
I have verified that I've updated every R library in my system. I can
successfully load other libs, e.g., Rmpfr,knitr, MASS, so I doubt it's a
directory or permissions problem.
From the command line:
library(dplyr)
*** caught segfault ***
address 0x406e0, cause 'memory not mapped'
Traceback:
1: fun(libname, pkgname)
2: doTryCatch(return(expr), name, parentenv, handler)
3: tryCatchOne(expr, names, parentenv, handlers[[1L]])
4: tryCatchList(expr, classes, parentenv, handlers)
5: tryCatch(fun(libname, pkgname), error = identity)
6: runHook(".onLoad", env, package.lib, package)
7: loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck =
vI[[j]])
8: asNamespace(ns)
9: namespaceImportFrom(ns, loadNamespace(j <- i[[1L]], c(lib.loc,
.libPaths()), versionCheck = vI[[j]]), i[[2L]], from = package)
10: loadNamespace(package, lib.loc)
11: doTryCatch(return(expr), name, parentenv, handler)
12: tryCatchOne(expr, names, parentenv, handlers[[1L]])
13: tryCatchList(expr, classes, parentenv, handlers)
14: tryCatch({ attr(package, "LibPath") <- which.lib.loc ns <-
loadNamespace(package, lib.loc) env <- attachNamespace(ns, pos = pos,
deps, exclude, include.only)}, error = function(e) { P <- if
(!is.null(cc <- conditionCall(e))) paste(" in", deparse(cc)[1L])
else "" msg <- gettextf("package or namespace load failed for %s%s:\n
%s", sQuote(package), P, conditionMessage(e)) if
(logical.return
&& !quietly) message(paste("Error:", msg), domain = NA) else
stop(msg, call. = FALSE, domain = NA)})
15: library(dplyr)
---- ~/library/logs/diagnosticreports file pasted below --
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--
Carl Witthoft
[[alternative HTML version deleted]]
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
-- Peter Dalgaard, Professor, Center for Statistics, Copenhagen Business School Solbjerg Plads 3, 2000 Frederiksberg, Denmark Phone: (+45)38153501 Office: A 4.23 Email: pd.mes at cbs.dk Priv: PDalgd at gmail.com