From tdhock5 @end|ng |rom gm@||@com  Wed Jun 10 01:21:00 2020
From: tdhock5 @end|ng |rom gm@||@com (Toby Hocking)
Date: Tue, 9 Jun 2020 16:21:00 -0700
Subject: [Rd] valgrind false positive on R startup?
Message-ID: <CALK03d1zKdgcwhnRfM-kNgVQvXGmzN_WitwuREsbwoJsDZpVkA@mail.gmail.com>

Hi all,

I'm on Ubuntu 18.04, running R-4.0.0 which I compiled from source, and
using valgrind I am always seeing the following message. Does anybody
else see that? Is that a known false positive? Any ideas how to
fix/suppress? Seems related to TRE, do I need to upgrade that?

(base) tdhock at maude-MacBookPro:~/R/binsegRcpp$ R --vanilla -d valgrind
-e 'extSoftVersion()'
==9565== Memcheck, a memory error detector
==9565== Copyright (C) 2002-2017, and GNU GPL'd, by Julian Seward et al.
==9565== Using Valgrind-3.13.0 and LibVEX; rerun with -h for copyright info
==9565== Command: /home/tdhock/lib/R/bin/exec/R --vanilla -e extSoftVersion()
==9565==
==9565== Conditional jump or move depends on uninitialised value(s)
==9565==    at 0x55AB9E0: __wcsnlen_sse4_1 (strlen.S:147)
==9565==    by 0x5598EC1: wcsrtombs (wcsrtombs.c:104)
==9565==    by 0x551EB20: wcstombs (wcstombs.c:34)
==9565==    by 0x50BAA07: wcstombs (stdlib.h:154)
==9565==    by 0x50BAA07: tre_parse_bracket_items (tre-parse.c:336)
==9565==    by 0x50BAA07: tre_parse_bracket (tre-parse.c:453)
==9565==    by 0x50BAA07: tre_parse (tre-parse.c:1380)
==9565==    by 0x50B2498: tre_compile (tre-compile.c:1920)
==9565==    by 0x50AFBE0: tre_regcompb (regcomp.c:150)
==9565==    by 0x4FA9F42: do_gsub (grep.c:2023)
==9565==    by 0x4F79045: bcEval (eval.c:7090)
==9565==    by 0x4F8572F: Rf_eval (eval.c:723)
==9565==    by 0x4F8754E: R_execClosure (eval.c:1888)
==9565==    by 0x4F88316: Rf_applyClosure (eval.c:1814)
==9565==    by 0x4F85902: Rf_eval (eval.c:846)
==9565==

R version 4.0.0 (2020-04-24) -- "Arbor Day"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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

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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
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Type 'q()' to quit R.

> extSoftVersion()
                                zlib                                bzlib
                            "1.2.11"                 "1.0.6, 6-Sept-2010"
                                  xz                                 PCRE
                             "5.2.2"                   "10.31 2018-02-12"
                                 ICU                                  TRE
                              "60.2"            "TRE 0.8.0 R_fixes (BSD)"
                               iconv                             readline
                        "glibc 2.27"                                "7.0"
                                BLAS
"/home/tdhock/lib/R/lib/libRblas.so"
>
>
==9565==
==9565== HEAP SUMMARY:
==9565==     in use at exit: 40,492,919 bytes in 9,170 blocks
==9565==   total heap usage: 19,784 allocs, 10,614 frees, 62,951,535
bytes allocated
==9565==
==9565== LEAK SUMMARY:
==9565==    definitely lost: 0 bytes in 0 blocks
==9565==    indirectly lost: 0 bytes in 0 blocks
==9565==      possibly lost: 0 bytes in 0 blocks
==9565==    still reachable: 40,492,919 bytes in 9,170 blocks
==9565==                       of which reachable via heuristic:
==9565==                         newarray           : 4,264 bytes in 1 blocks
==9565==         suppressed: 0 bytes in 0 blocks
==9565== Rerun with --leak-check=full to see details of leaked memory
==9565==
==9565== For counts of detected and suppressed errors, rerun with: -v
==9565== Use --track-origins=yes to see where uninitialised values come from
==9565== ERROR SUMMARY: 46 errors from 1 contexts (suppressed: 0 from 0)
(base) tdhock at maude-MacBookPro:~/R/binsegRcpp$



[Rd] valgrind false positive on R startup?
Toby Hocking