* using log directory ‘/home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck’ * using R Under development (unstable) (2024-10-29 r87275) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 18.1.8 (9) Debian flang-new version 18.1.8 (9) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘trtswitch/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘trtswitch’ version ‘0.1.1’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking serialization versions ... OK * checking whether package ‘trtswitch’ can be installed ... [265s/265s] OK * used C++ compiler: ‘Debian clang version 18.1.8 (11)’ * checking package directory ... OK * checking for future file timestamps ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [1s/1s] OK * checking whether the package can be loaded with stated dependencies ... [1s/1s] OK * checking whether the package can be unloaded cleanly ... [1s/1s] OK * checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK * checking whether the namespace can be unloaded cleanly ... [1s/1s] OK * checking loading without being on the library search path ... [1s/1s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [19s/19s] OK * checking Rd files ... [2s/2s] OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... [1s/1s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [33s/33s] OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed tsegest 20.325 0.404 20.733 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [32s/32s] OK Running ‘testthat.R’ [31s/31s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [49s/49s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘ipcw.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipcw_files/figure-html/weights example 1-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10762 bytes Input file size = 10870 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9208 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 9208 Output IDAT size = 9208 bytes (1554 bytes decrease) Output file size = 9304 bytes (1566 bytes = 14.41% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipcw_files/figure-html/weights example 1-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 9728 bytes Input file size = 9836 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8450 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8450 Output IDAT size = 8450 bytes (1278 bytes decrease) Output file size = 8546 bytes (1290 bytes = 13.12% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipcw_files/figure-html/weights example 2-1.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 9693 bytes Input file size = 9801 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7854 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 7854 Output IDAT size = 7854 bytes (1839 bytes decrease) Output file size = 7950 bytes (1851 bytes = 18.89% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipcw_files/figure-html/weights example 2-2.png 288x288 pixels, 3x8 bits/pixel, RGB Input IDAT size = 10074 bytes Input file size = 10182 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8338 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 8338 Output IDAT size = 8338 bytes (1736 bytes decrease) Output file size = 8434 bytes (1748 bytes = 17.17% decrease) --- finished re-building ‘ipcw.Rmd’ +-+ipcw.html ================================================================= ==1526446==ERROR: LeakSanitizer: detected memory leaks Direct leak of 6656 byte(s) in 26 object(s) allocated from: #0 0x55e50713d1b3 in malloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fea5bbd7c81 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24c81) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 1664 byte(s) in 52 object(s) allocated from: #0 0x55e50713d39d in calloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fea5bbd8450 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x25450) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 519 byte(s) in 50 object(s) allocated from: #0 0x55e507124ebe in strdup (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xadebe) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fea5bbd74d7 in FcValueSave (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x244d7) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) SUMMARY: AddressSanitizer: 8839 byte(s) leaked in 128 allocation(s). --- re-building ‘ipe.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipe_files/figure-html/km-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 10651 bytes Input file size = 10759 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3586 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3585 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3585 Output IDAT size = 3585 bytes (7066 bytes decrease) Output file size = 3677 bytes (7082 bytes = 65.82% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/ipe_files/figure-html/convergence issue-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 19833 bytes Input file size = 19953 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 14611 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 IDAT size = 10127 zc = 9 zm = 8 zs = 1 f = 5 IDAT size = 10088 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 5 IDAT size = 10088 Output IDAT size = 10088 bytes (9745 bytes decrease) Output file size = 10180 bytes (9773 bytes = 48.98% decrease) --- finished re-building ‘ipe.Rmd’ +-+ipe.html ================================================================= ==1526599==ERROR: LeakSanitizer: detected memory leaks Direct leak of 6656 byte(s) in 26 object(s) allocated from: #0 0x5631e175d1b3 in malloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f9ba05d7c81 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24c81) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 1664 byte(s) in 52 object(s) allocated from: #0 0x5631e175d39d in calloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f9ba05d8450 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x25450) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 519 byte(s) in 50 object(s) allocated from: #0 0x5631e1744ebe in strdup (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xadebe) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f9ba05d74d7 in FcValueSave (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x244d7) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) SUMMARY: AddressSanitizer: 8839 byte(s) leaked in 128 allocation(s). --- re-building ‘rpsftm.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/rpsftm_files/figure-html/Z(psi)-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 12456 bytes Input file size = 12564 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4568 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 4568 Output IDAT size = 4568 bytes (7888 bytes decrease) Output file size = 4660 bytes (7904 bytes = 62.91% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/rpsftm_files/figure-html/km-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 10749 bytes Input file size = 10857 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3609 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3607 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3607 Output IDAT size = 3607 bytes (7142 bytes decrease) Output file size = 3699 bytes (7158 bytes = 65.93% decrease) --- finished re-building ‘rpsftm.Rmd’ +-+rpsftm.html ================================================================= ==1526739==ERROR: LeakSanitizer: detected memory leaks Direct leak of 6656 byte(s) in 26 object(s) allocated from: #0 0x55c0377901b3 in malloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fcafddd7c81 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24c81) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 1664 byte(s) in 52 object(s) allocated from: #0 0x55c03779039d in calloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fcafddd8450 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x25450) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 519 byte(s) in 50 object(s) allocated from: #0 0x55c037777ebe in strdup (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xadebe) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7fcafddd74d7 in FcValueSave (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x244d7) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) SUMMARY: AddressSanitizer: 8839 byte(s) leaked in 128 allocation(s). --- re-building ‘tsegest.Rmd’ using rmarkdown ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/tsegest_files/figure-html/km-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 9473 bytes Input file size = 9581 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3556 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3534 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 3534 Output IDAT size = 3534 bytes (5939 bytes decrease) Output file size = 3626 bytes (5955 bytes = 62.15% decrease) ** Processing: /home/hornik/tmp/CRAN_special_clang-san/trtswitch.Rcheck/vign_test/trtswitch/vignettes/tsegest_files/figure-html/Z(psi)-1.png 288x288 pixels, 3x8 bits/pixel, RGB Reducing image to 8 bits/pixel, grayscale Input IDAT size = 14614 bytes Input file size = 14722 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 5190 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 5190 Output IDAT size = 5190 bytes (9424 bytes decrease) Output file size = 5282 bytes (9440 bytes = 64.12% decrease) --- finished re-building ‘tsegest.Rmd’ +-+tsegest.html ================================================================= ==1527026==ERROR: LeakSanitizer: detected memory leaks Direct leak of 6656 byte(s) in 26 object(s) allocated from: #0 0x56025dea41b3 in malloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc61b3) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f1109de1c81 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x24c81) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 1664 byte(s) in 52 object(s) allocated from: #0 0x56025dea439d in calloc (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xc639d) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f1109de2450 (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x25450) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) Indirect leak of 519 byte(s) in 50 object(s) allocated from: #0 0x56025de8bebe in strdup (/home/hornik/tmp/R-d-clang-xtra/bin/exec/R+0xadebe) (BuildId: 71b7cc9351bcc02083f9df16c056d5fba06ed51c) #1 0x7f1109de14d7 in FcValueSave (/usr/lib/x86_64-linux-gnu/libfontconfig.so.1+0x244d7) (BuildId: 4b26d8a18d92f6f97cf8eccd56f114fb89e44039) SUMMARY: AddressSanitizer: 8839 byte(s) leaked in 128 allocation(s). --- re-building ‘tsesimp.Rmd’ using rmarkdown --- finished re-building ‘tsesimp.Rmd’ SUMMARY: processing the following files failed: ‘ipcw.Rmd’ ‘ipe.Rmd’ ‘rpsftm.Rmd’ ‘tsegest.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [6s/5s] OK * checking HTML version of manual ... [5s/5s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR