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coatless-rpkg / sitmo

Sitmo parallel random number engine headers in an R package
http://r-pkg.thecoatlessprofessor.com/sitmo/
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Memory address error with RDsan #14

Closed billdenney closed 1 year ago

billdenney commented 2 years ago

I'm trying to test a different package with RDsan, and I get the following error. Unfortunately, I don't know enough about the C side of things to provide much more information.

To replicate it, I put the following into a Dockerfile and ran docker build -t sitmo-rdsan ..

Dockerfile:

# To build:
#  docker build -t sitmo-rdsan .

FROM wch1/r-debug

ENV PKGDEPS="pak::pkg_install('sitmo')"

RUN RDsan -q -e "${PKGDEPS}"

Error:

 ---> Running in f3da8c62b242
> pak::pkg_install('sitmo')
ℹ Loading metadata database
✔ Loading metadata database ... done

→ Will install 1 package.
→ Will download 1 CRAN package (132.96 kB).
+ sitmo   2.0.2 [bld][cmp][dl] (132.96 kB)
ℹ Getting 1 pkg (132.96 kB)
✔ Got sitmo 2.0.2 (source) (132.96 kB)
ℹ Building sitmo 2.0.2
✖ Failed to build sitmo 2.0.2

Error: <callr_remote_error: Failed to build source package 'sitmo'>
 in process 23
-->
Failed to build source package 'sitmo', stdout + stderr:

OE> * installing *source* package ‘sitmo’ ...
OE> ** package ‘sitmo’ successfully unpacked and MD5 sums checked
OE> staged installation is only possible with locking
OE> ** using non-staged installation
OE> ** libs
OE> g++ -fsanitize=address,undefined,bounds-strict -fno-omit-frame-pointer -std=gnu++14 -I"/usr/local/RDsan/lib/R/include" -DNDEBUG -I../inst/include/ -I'/usr/local/RDsan/lib/R/site-library/Rcpp/include' -I/usr/local/include -DSWITCH_TO_REFCNT  -fpic  -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -O0 -Wall -Wall -pedantic  -Wall -pedantic -c RcppExports.cpp -o RcppExports.o
OE> g++ -fsanitize=address,undefined,bounds-strict -fno-omit-frame-pointer -std=gnu++14 -I"/usr/local/RDsan/lib/R/include" -DNDEBUG -I../inst/include/ -I'/usr/local/RDsan/lib/R/site-library/Rcpp/include' -I/usr/local/include -DSWITCH_TO_REFCNT  -fpic  -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -O0 -Wall -Wall -pedantic  -Wall -pedantic -c sitmo_demo.cpp -o sitmo_demo.o
OE> g++ -fsanitize=address,undefined,bounds-strict -fno-omit-frame-pointer -std=gnu++14 -I"/usr/local/RDsan/lib/R/include" -DNDEBUG -I../inst/include/ -I'/usr/local/RDsan/lib/R/site-library/Rcpp/include' -I/usr/local/include -DSWITCH_TO_REFCNT  -fpic  -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -O0 -Wall -Wall -pedantic  -Wall -pedantic -c sitmo_parallel.cpp -o sitmo_parallel.o
OE> g++ -fsanitize=address,undefined,bounds-strict -fno-omit-frame-pointer -std=gnu++14 -I"/usr/local/RDsan/lib/R/include" -DNDEBUG -I../inst/include/ -I'/usr/local/RDsan/lib/R/site-library/Rcpp/include' -I/usr/local/include -DSWITCH_TO_REFCNT  -fpic  -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -O0 -Wall -Wall -pedantic  -Wall -pedantic -c sitmo_runif.cpp -o sitmo_runif.o
OE> sitmo_parallel.cpp: In function ‘Rcpp::NumericVector sitmo_parallel(unsigned int, Rcpp::NumericVector&)’:
OE> sitmo_parallel.cpp:37:16: warning: unused variable ‘ncores’ [-Wunused-variable]
OE>    37 |   unsigned int ncores = seeds.size();
OE>       |                ^~~~~~
OE> g++ -fsanitize=address,undefined,bounds-strict -fno-omit-frame-pointer -std=gnu++14 -shared -L/usr/local/RDsan/lib/R/lib -L/usr/local/lib -o sitmo.so RcppExports.o sitmo_demo.o sitmo_parallel.o sitmo_runif.o -L/usr/local/RDsan/lib/R/lib -lRlapack -L/usr/local/RDsan/lib/R/lib -lRblas -L/usr/lib/gcc/x86_64-linux-gnu/9 -lgfortran -lm -lquadmath -L/usr/local/RDsan/lib/R/lib -lR
OE> installing to /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs
OE> ** R
OE> ** inst
OE> ** byte-compile and prepare package for lazy loading
OE> ** help
OE> *** installing help indices
OE> ** building package indices
OE> ** installing vignettes
OE> ** testing if installed package can be loaded
OE> ==101==Shadow memory range interleaves with an existing memory mapping. ASan cannot proceed correctly. ABORTING.
OE> ==101==ASan shadow was supposed to be located in the [0x00007fff7000-0x10007fff7fff] range.
OE> ==101==This might be related to ELF_ET_DYN_BASE change in Linux 4.12.
OE> ==101==See https://github.com/google/sanitizers/issues/856 for possible workarounds.
OE> ==101==Process memory map follows:
OE>     0x00007fff7000-0x00008fff7000
OE>     0x00008fff7000-0x02008fff7000
OE>     0x02008fff7000-0x10007fff8000
OE>     0x5612db615000-0x5612db616000   /usr/local/RDsan/lib/R/bin/exec/R
OE>     0x5612db616000-0x5612db617000   /usr/local/RDsan/lib/R/bin/exec/R
OE>     0x5612db617000-0x5612db618000   /usr/local/RDsan/lib/R/bin/exec/R
OE>     0x5612db618000-0x5612db619000   /usr/local/RDsan/lib/R/bin/exec/R
OE>     0x5612db619000-0x5612db61a000   /usr/local/RDsan/lib/R/bin/exec/R
OE>     0x600000000000-0x602000000000
OE>     0x602000000000-0x602000020000
OE>     0x602000020000-0x602e00000000
OE>     0x602e00000000-0x602e00010000
OE>     0x602e00010000-0x603000000000
OE>     0x603000000000-0x603000020000
OE>     0x603000020000-0x603e00000000
OE>     0x603e00000000-0x603e00010000
OE>     0x603e00010000-0x604000000000
OE>     0x604000000000-0x604000010000
OE>     0x604000010000-0x604e00000000
OE>     0x604e00000000-0x604e00010000
OE>     0x604e00010000-0x606000000000
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OE>     0x606000010000-0x606e00000000
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OE>     0x607000010000-0x607e00000000
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OE>     0x60de00000000-0x60de00010000
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OE>     0x60e000010000-0x60ee00000000
OE>     0x60ee00000000-0x60ee00010000
OE>     0x60ee00010000-0x60f000000000
OE>     0x60f000000000-0x60f000010000
OE>     0x60f000010000-0x60fe00000000
OE>     0x60fe00000000-0x60fe00010000
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OE>     0x611e00010000-0x612000000000
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OE>     0x612000150000-0x612e00000000
OE>     0x612e00000000-0x612e00010000
OE>     0x612e00010000-0x613000000000
OE>     0x613000000000-0x613000070000
OE>     0x613000070000-0x613e00000000
OE>     0x613e00000000-0x613e00010000
OE>     0x613e00010000-0x614000000000
OE>     0x614000000000-0x614000190000
OE>     0x614000190000-0x614e00000000
OE>     0x614e00000000-0x614e00010000
OE>     0x614e00010000-0x615000000000
OE>     0x615000000000-0x615000060000
OE>     0x615000060000-0x615e00000000
OE>     0x615e00000000-0x615e00010000
OE>     0x615e00010000-0x616000000000
OE>     0x616000000000-0x6160000b0000
OE>     0x6160000b0000-0x616e00000000
OE>     0x616e00000000-0x616e00010000
OE>     0x616e00010000-0x617000000000
OE>     0x617000000000-0x617000050000
OE>     0x617000050000-0x617e00000000
OE>     0x617e00000000-0x617e00010000
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OE>     0x618000000000-0x618000060000
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OE>     0x6190002d0000-0x619e00000000
OE>     0x619e00000000-0x619e00010000
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OE>     0x6290001a0000-0x629e00000000
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OE>     0x62f000000000-0x62f000060000
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OE>     0x62fe00000000-0x62fe00010000
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OE>     0x640000000000-0x640000003000
OE>     0x7f219755d000-0x7f21978e6000
OE>     0x7f21978e6000-0x7f21978e9000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978e9000-0x7f21978ed000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978ed000-0x7f21978ee000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978ee000-0x7f21978ef000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978ef000-0x7f21978f0000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978f0000-0x7f21978f1000   /usr/lib/x86_64-linux-gnu/librt-2.31.so
OE>     0x7f21978f1000-0x7f2197913000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197913000-0x7f2197a41000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197a41000-0x7f2197a76000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197a76000-0x7f2197a77000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197a77000-0x7f2197a7a000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197a7a000-0x7f2197a7d000   /usr/lib/x86_64-linux-gnu/libasan.so.5.0.0
OE>     0x7f2197a7d000-0x7f2198323000
OE>     0x7f2198323000-0x7f21983dd000   /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs/sitmo.so
OE>     0x7f21983dd000-0x7f219842a000   /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs/sitmo.so
OE>     0x7f219842a000-0x7f2198451000   /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs/sitmo.so
OE>     0x7f2198451000-0x7f2198452000   /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs/sitmo.so
OE>     0x7f2198452000-0x7f219850e000   /tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo/libs/sitmo.so
OE>     0x7f219850e000-0x7f219864a000
OE>     0x7f219864a000-0x7f21988b6000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f21988b6000-0x7f2198a24000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f2198a24000-0x7f2198aaa000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f2198aaa000-0x7f2198aab000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f2198aab000-0x7f2198aad000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f2198aad000-0x7f2198cf3000   /usr/local/RDsan/lib/R/site-library/Rcpp/libs/Rcpp.so
OE>     0x7f2198cf3000-0x7f2198d55000
OE>     0x7f2198d55000-0x7f2198d62000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d62000-0x7f2198d85000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d85000-0x7f2198d90000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d90000-0x7f2198d91000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d91000-0x7f2198d92000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d92000-0x7f2198d9a000   /usr/local/RDsan/lib/R/library/tools/libs/tools.so
OE>     0x7f2198d9a000-0x7f2198fd0000
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OE>     0x7f2198fd3000-0x7f2199000000   /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
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OE>     0x7f2199019000-0x7f219901a000   /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
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OE>     0x7f21992ac000-0x7f21992de000   /usr/lib/x86_64-linux-gnu/libgfortran.so.5.0.0
OE>     0x7f21992de000-0x7f21992df000   /usr/lib/x86_64-linux-gnu/libgfortran.so.5.0.0
OE>     0x7f21992df000-0x7f21992e0000   /usr/lib/x86_64-linux-gnu/libgfortran.so.5.0.0
OE>     0x7f21992e0000-0x7f21992e2000   /usr/lib/x86_64-linux-gnu/libgfortran.so.5.0.0
OE>     0x7f21992e2000-0x7f21992ec000   /usr/local/RDsan/lib/R/lib/libRlapack.so
OE>     0x7f21992ec000-0x7f2199528000   /usr/local/RDsan/lib/R/lib/libRlapack.so
OE>     0x7f2199528000-0x7f2199530000   /usr/local/RDsan/lib/R/lib/libRlapack.so
OE>     0x7f2199530000-0x7f2199531000   /usr/local/RDsan/lib/R/lib/libRlapack.so
OE>     0x7f2199531000-0x7f2199533000   /usr/local/RDsan/lib/R/lib/libRlapack.so
OE>     0x7f2199533000-0x7f219954d000
OE>     0x7f219954d000-0x7f219956a000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f219956a000-0x7f219965b000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f219965b000-0x7f2199678000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f2199678000-0x7f2199679000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f2199679000-0x7f219967b000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f219967b000-0x7f219968c000   /usr/local/RDsan/lib/R/library/stats/libs/stats.so
OE>     0x7f219968c000-0x7f2199823000
OE>     0x7f2199823000-0x7f2199830000   /usr/local/RDsan/lib/R/library/graphics/libs/graphics.so
OE>     0x7f2199830000-0x7f21998b1000   /usr/local/RDsan/lib/R/library/graphics/libs/graphics.so
OE>     0x7f21998b1000-0x7f21998be000   /usr/local/RDsan/lib/R/library/graphics/libs/graphics.so
OE>     0x7f21998be000-0x7f21998bf000   /usr/local/RDsan/lib/R/library/graphics/libs/graphics.so
OE>     0x7f21998bf000-0x7f21998c7000   /usr/local/RDsan/lib/R/library/graphics/libs/graphics.so
OE>     0x7f21998c7000-0x7f2199924000
OE>     0x7f2199924000-0x7f2199956000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f2199956000-0x7f21999b5000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f21999b5000-0x7f21999e2000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f21999e2000-0x7f21999e3000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f21999e3000-0x7f21999e4000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f21999e4000-0x7f2199a0a000   /usr/local/RDsan/lib/R/library/grDevices/libs/grDevices.so
OE>     0x7f2199a0a000-0x7f2199a59000
OE>     0x7f2199a59000-0x7f2199a5f000   /usr/local/RDsan/lib/R/library/utils/libs/utils.so
OE>     0x7f2199a5f000-0x7f2199a6e000   /usr/local/RDsan/lib/R/library/utils/libs/utils.so
OE>     0x7f2199a6e000-0x7f2199a72000   /usr/local/RDsan/lib/R/library/utils/libs/utils.so
OE>     0x7f2199a72000-0x7f2199a73000   /usr/local/RDsan/lib/R/library/utils/libs/utils.so
OE>     0x7f2199a73000-0x7f2199a76000   /usr/local/RDsan/lib/R/library/utils/libs/utils.so
OE>     0x7f2199a76000-0x7f219a1c4000
OE>     0x7f219a1c4000-0x7f219a1ca000   /usr/local/RDsan/lib/R/library/methods/libs/methods.so
OE>     0x7f219a1ca000-0x7f219a1d1000   /usr/local/RDsan/lib/R/library/methods/libs/methods.so
OE>     0x7f219a1d1000-0x7f219a1d5000   /usr/local/RDsan/lib/R/library/methods/libs/methods.so
OE>     0x7f219a1d5000-0x7f219a1d6000   /usr/local/RDsan/lib/R/library/methods/libs/methods.so
OE>     0x7f219a1d6000-0x7f219a1d9000   /usr/local/RDsan/lib/R/library/methods/libs/methods.so
OE>     0x7f219a1d9000-0x7f219a2f1000
OE>     0x7f219a2f1000-0x7f219a2f4000   /usr/lib/x86_64-linux-gnu/libnss_files-2.31.so
OE>     0x7f219a2f4000-0x7f219a2fb000   /usr/lib/x86_64-linux-gnu/libnss_files-2.31.so
OE>     0x7f219a2fb000-0x7f219a2fd000   /usr/lib/x86_64-linux-gnu/libnss_files-2.31.so
OE>     0x7f219a2fd000-0x7f219a2fe000   /usr/lib/x86_64-linux-gnu/libnss_files-2.31.so
OE>     0x7f219a2fe000-0x7f219a2ff000   /usr/lib/x86_64-linux-gnu/libnss_files-2.31.so
OE>     0x7f219a2ff000-0x7f219a41d000
OE>     0x7f219a41d000-0x7f219a424000   /usr/lib/x86_64-linux-gnu/gconv/gconv-modules.cache
OE>     0x7f219a424000-0x7f219a425000   /usr/local/RDsan/lib/R/library/translations/en/LC_MESSAGES/R.mo
OE>     0x7f219a425000-0x7f219a881000
OE>     0x7f219a881000-0x7f219ab67000   /usr/lib/locale/locale-archive
OE>     0x7f219ab67000-0x7f219cbd8000
OE>     0x7f219cbd8000-0x7f219d3b8000
OE>     0x7f219d3b8000-0x7f219d721000
OE>     0x7f219d721000-0x7f219d722000   /usr/lib/x86_64-linux-gnu/libicudata.so.66.1
OE>     0x7f219d722000-0x7f219d723000   /usr/lib/x86_64-linux-gnu/libicudata.so.66.1
OE>     0x7f219d723000-0x7f219f1e0000   /usr/lib/x86_64-linux-gnu/libicudata.so.66.1
OE>     0x7f219f1e0000-0x7f219f1e1000   /usr/lib/x86_64-linux-gnu/libicudata.so.66.1
OE>     0x7f219f1e1000-0x7f219f1e2000   /usr/lib/x86_64-linux-gnu/libicudata.so.66.1
OE>     0x7f219f1e2000-0x7f219f1f0000   /usr/lib/x86_64-linux-gnu/libtinfo.so.6.2
OE>     0x7f219f1f0000-0x7f219f1ff000   /usr/lib/x86_64-linux-gnu/libtinfo.so.6.2
OE>     0x7f219f1ff000-0x7f219f20d000   /usr/lib/x86_64-linux-gnu/libtinfo.so.6.2
OE>     0x7f219f20d000-0x7f219f211000   /usr/lib/x86_64-linux-gnu/libtinfo.so.6.2
OE>     0x7f219f211000-0x7f219f212000   /usr/lib/x86_64-linux-gnu/libtinfo.so.6.2
OE>     0x7f219f212000-0x7f219f214000
OE>     0x7f219f214000-0x7f219f2aa000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f2aa000-0x7f219f39b000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f39b000-0x7f219f3e4000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f3e4000-0x7f219f3e5000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f3e5000-0x7f219f3f0000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f3f0000-0x7f219f3f3000   /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28
OE>     0x7f219f3f3000-0x7f219f3f6000
OE>     0x7f219f3f6000-0x7f219f4df000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f4df000-0x7f219f65c000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f65c000-0x7f219f6e2000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f6e2000-0x7f219f6e3000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f6e3000-0x7f219f6f3000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f6f3000-0x7f219f6f4000   /usr/lib/x86_64-linux-gnu/libicui18n.so.66.1
OE>     0x7f219f6f4000-0x7f219f6f5000
OE>     0x7f219f6f5000-0x7f219f75a000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f75a000-0x7f219f83f000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f83f000-0x7f219f8c5000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f8c5000-0x7f219f8c6000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f8c6000-0x7f219f8d8000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f8d8000-0x7f219f8d9000   /usr/lib/x86_64-linux-gnu/libicuuc.so.66.1
OE>     0x7f219f8d9000-0x7f219f8db000
OE>     0x7f219f8db000-0x7f219f8dd000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8dd000-0x7f219f8ee000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8ee000-0x7f219f8f4000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8f4000-0x7f219f8f5000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8f5000-0x7f219f8f6000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8f6000-0x7f219f8f7000   /usr/lib/x86_64-linux-gnu/libz.so.1.2.11
OE>     0x7f219f8f7000-0x7f219f8f9000   /usr/lib/x86_64-linux-gnu/libbz2.so.1.0.4
OE>     0x7f219f8f9000-0x7f219f906000   /usr/lib/x86_64-linux-gnu/libbz2.so.1.0.4
OE>     0x7f219f906000-0x7f219f908000   /usr/lib/x86_64-linux-gnu/libbz2.so.1.0.4
OE>     0x7f219f908000-0x7f219f909000   /usr/lib/x86_64-linux-gnu/libbz2.so.1.0.4
OE>     0x7f219f909000-0x7f219f90a000   /usr/lib/x86_64-linux-gnu/libbz2.so.1.0.4
OE>     0x7f219f90a000-0x7f219f90c000
OE>     0x7f219f90c000-0x7f219f90f000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f90f000-0x7f219f927000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f927000-0x7f219f932000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f932000-0x7f219f933000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f933000-0x7f219f934000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f934000-0x7f219f935000   /usr/lib/x86_64-linux-gnu/liblzma.so.5.2.4
OE>     0x7f219f935000-0x7f219f937000   /usr/lib/x86_64-linux-gnu/libpcre2-8.so.0.9.0
OE>     0x7f219f937000-0x7f219f99b000   /usr/lib/x86_64-linux-gnu/libpcre2-8.so.0.9.0
OE>     0x7f219f99b000-0x7f219f9c3000   /usr/lib/x86_64-linux-gnu/libpcre2-8.so.0.9.0
OE>     0x7f219f9c3000-0x7f219f9c4000   /usr/lib/x86_64-linux-gnu/libpcre2-8.so.0.9.0
OE>     0x7f219f9c4000-0x7f219f9c5000   /usr/lib/x86_64-linux-gnu/libpcre2-8.so.0.9.0
OE>     0x7f219f9c5000-0x7f219f9d9000   /usr/lib/x86_64-linux-gnu/libreadline.so.8.0
OE>     0x7f219f9d9000-0x7f219fa02000   /usr/lib/x86_64-linux-gnu/libreadline.so.8.0
OE>     0x7f219fa02000-0x7f219fa0c000   /usr/lib/x86_64-linux-gnu/libreadline.so.8.0
OE>     0x7f219fa0c000-0x7f219fa0e000   /usr/lib/x86_64-linux-gnu/libreadline.so.8.0
OE>     0x7f219fa0e000-0x7f219fa14000   /usr/lib/x86_64-linux-gnu/libreadline.so.8.0
OE>     0x7f219fa14000-0x7f219fa15000
OE>     0x7f219fa15000-0x7f219fa18000   /usr/lib/x86_64-linux-gnu/libgcc_s.so.1
OE>     0x7f219fa18000-0x7f219fa2a000   /usr/lib/x86_64-linux-gnu/libgcc_s.so.1
OE>     0x7f219fa2a000-0x7f219fa2e000   /usr/lib/x86_64-linux-gnu/libgcc_s.so.1
OE>     0x7f219fa2e000-0x7f219fa2f000   /usr/lib/x86_64-linux-gnu/libgcc_s.so.1
OE>     0x7f219fa2f000-0x7f219fa30000   /usr/lib/x86_64-linux-gnu/libgcc_s.so.1
OE>     0x7f219fa30000-0x7f219fa3f000   /usr/lib/x86_64-linux-gnu/libm-2.31.so
OE>     0x7f219fa3f000-0x7f219fae6000   /usr/lib/x86_64-linux-gnu/libm-2.31.so
OE>     0x7f219fae6000-0x7f219fb7d000   /usr/lib/x86_64-linux-gnu/libm-2.31.so
OE>     0x7f219fb7d000-0x7f219fb7e000   /usr/lib/x86_64-linux-gnu/libm-2.31.so
OE>     0x7f219fb7e000-0x7f219fb7f000   /usr/lib/x86_64-linux-gnu/libm-2.31.so
OE>     0x7f219fb7f000-0x7f219fb80000   /usr/lib/x86_64-linux-gnu/libdl-2.31.so
OE>     0x7f219fb80000-0x7f219fb82000   /usr/lib/x86_64-linux-gnu/libdl-2.31.so
OE>     0x7f219fb82000-0x7f219fb83000   /usr/lib/x86_64-linux-gnu/libdl-2.31.so
OE>     0x7f219fb83000-0x7f219fb84000   /usr/lib/x86_64-linux-gnu/libdl-2.31.so
OE>     0x7f219fb84000-0x7f219fb85000   /usr/lib/x86_64-linux-gnu/libdl-2.31.so
OE>     0x7f219fb85000-0x7f219fb87000
OE>     0x7f219fb87000-0x7f219fbac000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fbac000-0x7f219fd24000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fd24000-0x7f219fd6e000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fd6e000-0x7f219fd6f000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fd6f000-0x7f219fd72000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fd72000-0x7f219fd75000   /usr/lib/x86_64-linux-gnu/libc-2.31.so
OE>     0x7f219fd75000-0x7f219fd79000
OE>     0x7f219fd79000-0x7f219fd80000   /usr/lib/x86_64-linux-gnu/libpthread-2.31.so
OE>     0x7f219fd80000-0x7f219fd91000   /usr/lib/x86_64-linux-gnu/libpthread-2.31.so
OE>     0x7f219fd91000-0x7f219fd96000   /usr/lib/x86_64-linux-gnu/libpthread-2.31.so
OE>     0x7f219fd96000-0x7f219fd97000   /usr/lib/x86_64-linux-gnu/libpthread-2.31.so
OE>     0x7f219fd97000-0x7f219fd98000   /usr/lib/x86_64-linux-gnu/libpthread-2.31.so
OE>     0x7f219fd98000-0x7f219fd9c000
OE>     0x7f219fd9c000-0x7f219fda2000   /usr/lib/x86_64-linux-gnu/libubsan.so.1.0.0
OE>     0x7f219fda2000-0x7f219fddc000   /usr/lib/x86_64-linux-gnu/libubsan.so.1.0.0
OE>     0x7f219fddc000-0x7f219fdf2000   /usr/lib/x86_64-linux-gnu/libubsan.so.1.0.0
OE>     0x7f219fdf2000-0x7f219fdf4000   /usr/lib/x86_64-linux-gnu/libubsan.so.1.0.0
OE>     0x7f219fdf4000-0x7f219fdf7000   /usr/lib/x86_64-linux-gnu/libubsan.so.1.0.0
OE>     0x7f219fdf7000-0x7f21a0709000
OE>     0x7f21a0709000-0x7f21a070b000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a070b000-0x7f21a0748000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a0748000-0x7f21a0749000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a0749000-0x7f21a074a000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a074a000-0x7f21a074b000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a074b000-0x7f21a074c000   /usr/local/RDsan/lib/R/lib/libRblas.so
OE>     0x7f21a074c000-0x7f21a088b000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a088b000-0x7f21a0d54000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a0d54000-0x7f21a0e86000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a0e86000-0x7f21a0e87000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a0e87000-0x7f21a0ea4000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a0ea4000-0x7f21a0f68000   /usr/local/RDsan/lib/R/lib/libR.so
OE>     0x7f21a0f68000-0x7f21a10db000
OE>     0x7f21a10db000-0x7f21a10fe000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a10fe000-0x7f21a11cf000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a11cf000-0x7f21a1200000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a1200000-0x7f21a1201000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a1201000-0x7f21a1204000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a1204000-0x7f21a1207000   /usr/lib/x86_64-linux-gnu/libasan.so.6.0.0
OE>     0x7f21a1207000-0x7f21a1aaf000
OE>     0x7f21a1aaf000-0x7f21a1ab0000   /usr/lib/x86_64-linux-gnu/ld-2.31.so
OE>     0x7f21a1ab0000-0x7f21a1ad3000   /usr/lib/x86_64-linux-gnu/ld-2.31.so
OE>     0x7f21a1ad3000-0x7f21a1adb000   /usr/lib/x86_64-linux-gnu/ld-2.31.so
OE>     0x7f21a1adb000-0x7f21a1adc000
OE>     0x7f21a1adc000-0x7f21a1add000   /usr/lib/x86_64-linux-gnu/ld-2.31.so
OE>     0x7f21a1add000-0x7f21a1ade000   /usr/lib/x86_64-linux-gnu/ld-2.31.so
OE>     0x7f21a1ade000-0x7f21a1adf000
OE>     0x7ffd72269000-0x7ffd72306000   [stack]
OE>     0x7ffd7238c000-0x7ffd7238f000   [vvar]
OE>     0x7ffd7238f000-0x7ffd72390000   [vdso]
OE>     0xffffffffff600000-0xffffffffff601000   [vsyscall]
OE> ==101==End of process memory map.
OE> ERROR: loading failed
OE> * removing ‘/tmp/RtmpOd32cX/pkg-lib171e3e4b42/sitmo’

 Stack trace:

 12. (function (...)  ...
 13. base:::withCallingHandlers(cli_message = function(msg) { ...
 14. get("pkg_install_do_plan", asNamespace("pak"))(...)
 15. pkgdepends::install_package_plan(plan = plan, lib = lib, num_workers = num_ ...
 16. base:::withCallingHandlers({ ...
 17. pkgdepends:::handle_events(state, events)
 18. pkgdepends:::handle_event(state, i)
 19. pkgdepends:::stop_task(state, worker)
 20. pkgdepends:::stop_task_build(state, worker)
 21. base:::throw(new_pkg_build_error("Failed to build source package {pkg}",  ...
 22. base:::signalCondition(cond)
 23. (function (e)  ...
 24. base:::stop(e)
 25. (function (e)  ...

 x Failed to build source package 'sitmo'

Execution halted
coatless commented 2 years ago

I don't think this has anything to do with sitmo, more what is going on with the docker image and linux kernel per a bit of googling on: 

OE> ==101==Shadow memory range interleaves with an existing memory mapping. ASan cannot proceed correctly. ABORTING.
OE> ==101==ASan shadow was supposed to be located in the [0x00007fff7000-0x10007fff7fff] range.
OE> ==101==This might be related to ELF_ET_DYN_BASE change in Linux 4.12.
OE> ==101==See https://github.com/google/sanitizers/issues/856 for possible workarounds.

More details here:

https://bbs.archlinux.org/viewtopic.php?id=228947

I'm not seeing any issue on the CRAN check side that RDscan would pick up:

https://cran.r-project.org/web/checks/check_flavors.html#r-devel-windows-x86_64-new-TK

Perhaps open the ticket with Winston?

https://github.com/wch/r-debug

billdenney commented 2 years ago

Thanks for looking at it. I added a ping to Winston.

coatless commented 1 year ago

Going to close out this issue as it's been over a year and the issue was filed upstream.