search for: do_gsub

...by 0x4005B9A: realloc (vg_replace_malloc.c:306) ==32503== by 0x80A5F92: parse_expression (regex.c:5202) ==32503== by 0x80A614F: parse_branch (regex.c:4707) ==32503== by 0x80A621A: parse_reg_exp (regex.c:4666) ==32503== by 0x80A6618: Rf_regcomp (regex.c:4635) ==32503== by 0x8110CB4: do_gsub (character.c:1355) ==32503== by 0x80654A4: do_internal (names.c:1135) ==32503== by 0x815F0EB: Rf_eval (eval.c:461) ==32503== by 0x8160DA7: do_begin (eval.c:1174) ==32503== by 0x815F0EB: Rf_eval (eval.c:461) ==32503== by 0x8162210: Rf_applyClosure (eval.c:667) ==32503== ... ignore 85...

...# [1] "\U3e3965" gsub("a", "", "\U3e3965", perl=TRUE) # Error in gsub("a", "", "\U3e3965", perl = TRUE) : # input string 1 is invalid UTF-8 The error message in the second command seems to come from src/main/grep.c:1640 (in do_gsub): if (!utf8Valid(s)) error(("input string %d is invalid UTF-8"), i+1); utf8Valid() relies on valid_utf8() from PCRE, whose behavior is described in src/extra/pcre/pcre_valid_utf8.c. Even more problematic/interesting is the fact that iconv() does not consider the above character as inv...

...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...

...by 0x4005B9A: realloc (vg_replace_malloc.c:306) ==28643== by 0x80A5E22: parse_expression (regex.c:5202) ==28643== by 0x80A5FDF: parse_branch (regex.c:4707) ==28643== by 0x80A60AA: parse_reg_exp (regex.c:4666) ==28643== by 0x80A64A8: Rf_regcomp (regex.c:4635) ==28643== by 0x8110AE0: do_gsub (character.c:1355) ==28643== by 0x80653BC: do_internal (names.c:1129) ==28643== by 0x815EF17: Rf_eval (eval.c:461) ==28643== by 0x8160BD3: do_begin (eval.c:1174) ==28643== by 0x815EF17: Rf_eval (eval.c:461) ==28643== by 0x816203C: Rf_applyClosure (eval.c:667) ==28643== ==28643== LEAK...

...(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) > ==95...

...vg_replace_malloc.c:306) > ==28643== by 0x80A5E22: parse_expression (regex.c:5202) > ==28643== by 0x80A5FDF: parse_branch (regex.c:4707) > ==28643== by 0x80A60AA: parse_reg_exp (regex.c:4666) > ==28643== by 0x80A64A8: Rf_regcomp (regex.c:4635) > ==28643== by 0x8110AE0: do_gsub (character.c:1355) > ==28643== by 0x80653BC: do_internal (names.c:1129) > ==28643== by 0x815EF17: Rf_eval (eval.c:461) > ==28643== by 0x8160BD3: do_begin (eval.c:1174) > ==28643== by 0x815EF17: Rf_eval (eval.c:461) > ==28643== by 0x816203C: Rf_applyClosure (eval.c:667)...

...ference to `pcre_assign_jit_stack' /genetics/data/software/R-devel/src/main/grep.c:106: undefined reference to `pcre_jit_stack_alloc' grep.o: In function `do_regexpr': /genetics/data/software/R-devel/src/main/grep.c:2832: undefined reference to `pcre_free_study' grep.o: In function `do_gsub': /genetics/data/software/R-devel/src/main/grep.c:2116: undefined reference to `pcre_free_study' grep.o: In function `do_grep': /genetics/data/software/R-devel/src/main/grep.c:1109: undefined reference to `pcre_free_study' grep.o: In function `do_strsplit': /genetics/data/softwa...

...2== by 0x4005271: realloc (vg_replace_malloc.c:306) ==8682== by 0x80B47EC: parse_expression (regex.c:5202) ==8682== by 0x80B4934: parse_branch (regex.c:4714) ==8682== by 0x80B49BF: parse_reg_exp (regex.c:4666) ==8682== by 0x80B5317: Rf_regcomp (regex.c:4635) ==8682== by 0x812A38F: do_gsub (character.c:1356) ==8682== by 0x806650A: do_internal (names.c:1129) ==8682== by 0x81855B0: Rf_eval (eval.c:463) ==8682== by 0x818631E: do_begin (eval.c:1172) ==8682== by 0x81855B0: Rf_eval (eval.c:463) ==8682== by 0x81879B4: Rf_applyClosure (eval.c:669) ==8682== ==8682== ==8682== 23...

Dear R-developers, I would appreciate any insights over compiling R 3.4 with Intel MKL -- I have been successful until R 3.3.3 but now it stops complaining about pcre though it worked without Intel MKL as follows, ./configure LDFLAGS=-L/genetics/data/software/lib CFLAGS=-fPIC -I/genetics/data/software/include --enable-R-shlib I have used, export MKL_NUM_THREADS=15 export

...CS file: /home/rcvs/src/R/src/main/names.h,v retrieving revision 1.51 diff -c -r1.51 names.h *** src/main/names.h 2000/01/21 17:54:06 1.51 --- src/main/names.h 2000/01/29 00:23:19 *************** *** 181,188 **** SEXP do_gray(SEXP, SEXP, SEXP, SEXP); SEXP do_grep(SEXP, SEXP, SEXP, SEXP); SEXP do_gsub(SEXP, SEXP, SEXP, SEXP); - SEXP do_hdf5save (SEXP, SEXP, SEXP, SEXP); - SEXP do_hdf5load (SEXP, SEXP, SEXP, SEXP); SEXP do_hsv(SEXP, SEXP, SEXP, SEXP); SEXP do_identify(SEXP, SEXP, SEXP, SEXP); SEXP do_if(SEXP, SEXP, SEXP, SEXP); --- 181,186 ---- Index: src/scripts/INSTALL.in ===============...