• using R version 4.6.1 Patched (2026-06-28 r90209)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-15 (Debian 15.3.0-1) 15.3.0     GNU Fortran (Debian 15.3.0-1) 15.3.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-07-08 03:46:38 UTC
• checking for file ‘DClusterm/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘DClusterm’ version ‘1.0-2’
• package encoding: UTF-8
• checking package namespace information ... OK
• checking package dependencies ... INFO Package suggested but not available for checking: ‘INLA’
• 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 whether package ‘DClusterm’ can be installed ... OK See the install log for details.
• 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 ... [2s/3s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the package can be unloaded cleanly ... [2s/3s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/2s] OK
• checking whether the namespace can be unloaded cleanly ... [2s/2s] OK
• checking loading without being on the library search path ... [2s/2s] 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 ... [11s/14s] OK
• checking Rd files ... [0s/1s] 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/2s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in Makefiles ... OK
• checking for GNU extensions in Makefiles ... OK
• checking include directives in Makefiles ... OK
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [20s/27s] OK Examples with CPU (user + system) or elapsed time > 5s                      user system elapsed get.stclusters 7.020 0.019 9.728 DetectClustersModel 4.828 0.052 5.618
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [27s/110s] ERROR Error(s) in re-building vignettes:   ... --- re-building ‘DClusterm.Rnw’ using Sweave Loading required package: parallel Loading required package: sp Loading required package: spacetime Loading required package: DCluster Loading required package: boot Loading required package: spdep Loading required package: spData To access larger datasets in this package, install the spDataLarge package with: `install.packages('spDataLarge', repos='https://nowosad.github.io/drat/', type='source')` Loading required package: sf Linking to GEOS 3.14.1, GDAL 3.13.1, PROJ 9.8.1; sf_use_s2() is TRUE Loading required package: MASS Loading required package: lattice Attaching package: 'lattice' The following object is masked from 'package:boot':     melanoma Loading required package: Matrix Error: processing vignette 'DClusterm.Rnw' failed with diagnostics:  chunk 26 Error in checkForRemoteErrors(val) :   one node produced an error: Downdated VtV is not positive definite --- failed re-building 'DClusterm.Rnw' make[1]: Entering directory '/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/DClusterm.Rcheck/vign_test/DClusterm/vignettes' pdflatex DClusterm This is pdfTeX, Version 3.141592653-2.6-1.40.29 (TeX Live 2026/Debian) (preloaded format=pdflatex)  restricted \write18 enabled. entering extended mode (./DClusterm.tex LaTeX2e <2025-11-01> L3 programming layer <2026-05-15> (/home/hornik/tmp/R.check/r-patched-gcc/Work/build/share/texmf/tex/latex/jss.cl s Document Class: jss 2026/04/28 3.6 jss class by Achim Zeileis (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2025/01/22 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics/mathcolor.ltx)) (/usr/share/texlive/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/upquote/upquote.sty (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty)) (/usr/share/texmf/tex/latex/lm/lmodern.sty) (/usr/share/texlive/texmf-dist/tex/latex/natbib/natbib.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/kvsetkeys/kvsetkeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty))) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty))) (/usr/share/texlive/texmf-dist/tex/latex/etoolbox/etoolbox.sty) (/usr/share/texlive/texmf-dist/tex/generic/stringenc/stringenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty))) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty)))) (/usr/share/texlive/texmf-dist/tex/generic/thumbpdf/thumbpdf.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty)) (/usr/share/texmf/tex/latex/lm/t1lmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) No file DClusterm.aux. (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texmf/tex/latex/lm/ot1lmr.fd) (/usr/share/texmf/tex/latex/lm/omllmm.fd) (/usr/share/texmf/tex/latex/lm/omslmsy.fd) (/usr/share/texmf/tex/latex/lm/omxlmex.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texmf/tex/latex/lm/t1lmss.fd) Package natbib Warning: Citation `McCullaghNelder:1989' on page 1 undefined on input line 120. [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}{/usr/share/texmf/fonts/en c/dvips/lm/lm-ec.enc}] Package natbib Warning: Citation `Kulldorff:1997' on page 2 undefined on input line 129. Package natbib Warning: Citation `DCluster:2005' on page 2 undefined on input l ine 149. Package natbib Warning: Citation `SpatialEpi:2016' on page 2 undefined on input  line 152. Package natbib Warning: Citation `rsatscan:2015' on page 2 undefined on input l ine 154. Package natbib Warning: Citation `scanstatistics:2018' on page 2 undefined on i nput line 157. Package natbib Warning: Citation `smerc:2015' on page 2 undefined on input line  165. Package natbib Warning: Citation `AMOEBA:2014' on page 2 undefined on input lin e 167. Package natbib Warning: Citation `Molitoretal:2010' on page 2 undefined on inpu t line 169. Package natbib Warning: Citation `PReMiuM:2015' on page 2 undefined on input li ne 170. Package natbib Warning: Citation `SNscan:2016' on page 2 undefined on input lin e 172. Package natbib Warning: Citation `Moraga:2017' on page 2 undefined on input lin e 172. Package natbib Warning: Citation `smacpod:2018' on page 2 undefined on input li ne 176. Package natbib Warning: Citation `Salmonetal:2016' on page 2 undefined on input  line 177. Package natbib Warning: Citation `Meyeretal:2017' on page 2 undefined on input line 177. Package natbib Warning: Citation `ClustGeo:2017' on page 2 undefined on input l ine 179. Package natbib Warning: Citation `DClusterm' on page 2 undefined on input line 185. Package natbib Warning: Citation `R:2018' on page 2 undefined on input line 186 . LaTeX Warning: Reference `sec:GLM' on page 2 undefined on input line 191. LaTeX Warning: Reference `sec:mixed' on page 2 undefined on input line 192. LaTeX Warning: Reference `sec:zeroinfl' on page 2 undefined on input line 195. LaTeX Warning: Reference `sec:spacetime' on page 2 undefined on input line 195. LaTeX Warning: Reference `sec:disc' on page 2 undefined on input line 198. [2{/usr/share/texmf/fonts/enc/dvips/lm/lm-mathit.enc}{/usr/share/texmf/fonts/en c/dvips/lm/lm-rm.enc}] Package natbib Warning: Citation `Jung:2009' on page 3 undefined on input line 207. Package natbib Warning: Citation `ZhangLinCSDA:2009' on page 3 undefined on inp ut line 207. Package natbib Warning: Citation `WallerGotway:2004' on page 3 undefined on inp ut line 231. Package natbib Warning: Citation `BilanciaDemarinis:2014' on page 3 undefined o n input line 274. Package natbib Warning: Citation `GomezRubioetal:2018' on page 3 undefined on i nput line 274. Package natbib Warning: Citation `Rueetal:2009' on page 3 undefined on input li ne 277. [3{/usr/share/texmf/fonts/enc/dvips/lm/lm-mathsy.enc}{/usr/share/texmf/fonts/en c/dvips/lm/lm-mathex.enc}] (/usr/share/texmf/tex/latex/lm/t1lmtt.fd) Package natbib Warning: Citation `Walletetal:1992' on page 4 undefined on input  line 293. Package natbib Warning: Citation `WallerGotway:2004' on page 4 undefined on inp ut line 293. LaTeX Warning: Reference `fig:NYmap' on page 4 undefined on input line 295. Package natbib Warning: Citation `RColorBrewer:2014' on page 4 undefined on inp ut line 296. Package natbib Warning: Citation `WallerGotway:2004' on page 4 undefined on inp ut line 320. Package natbib Warning: Citation `Pebesma:2012' on page 4 undefined on input li ne 350. Package natbib Warning: Citation `RColorBrewer:2014' undefined on input line 35 4. LaTeX Warning: `h' float specifier changed to `ht'. [4] [5 <./DClusterm-006.pdf>] LaTeX Warning: Reference `sec:spacetime' on page 6 undefined on input line 403. Package natbib Warning: Citation `Dunn:1958' on page 6 undefined on input line 412. [6] LaTeX Warning: Reference `fig:NYcl' on page 7 undefined on input line 498. [7] (/usr/share/texmf/tex/latex/lm/ts1lmtt.fd) LaTeX Warning: Reference `fig:NYcl' on page 8 undefined on input line 584. Package natbib Warning: Citation `gridExtra:2016' on page 8 undefined on input line 585. Package natbib Warning: Citation `latticeExtra:2016' on page 8 undefined on inp ut line 586. LaTeX Warning: `!h' float specifier changed to `!ht'. [8{/usr/share/texmf/fonts/enc/dvips/lm/lm-ts1.enc}] [9 <./DClusterm-017.pdf>] Package natbib Warning: Citation `BilanciaDemarinis:2014' on page 10 undefined on input line 666. Package natbib Warning: Citation `Dean:1992' on page 10 undefined on input line  684. Package natbib Warning: Citation `DCluster:2005' on page 10 undefined on input line 686. [10] Package natbib Warning: Citation `lme4:2015' on page 11 undefined on input line  751. [11] LaTeX Warning: Reference `fig:NYclmm' on page 12 undefined on input line 787. ) Runaway argument? ! File ended while scanning use of \FancyVerbGetLine. <inserted text>                 \par <*> DClusterm               ? ! Emergency stop. <inserted text>                 \par <*> DClusterm               ! ==> Fatal error occurred, no output PDF file produced! Transcript written on DClusterm.log. make[1]: *** [Makefile:6: DClusterm.pdf] Error 1 make[1]: Leaving directory '/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/DClusterm.Rcheck/vign_test/DClusterm/vignettes' Error in tools::buildVignettes(dir = "/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/DClusterm.Rcheck/vign_test/DClusterm", :   running 'make' failed Execution halted
• checking PDF version of manual ... [4s/7s] OK
• checking HTML version of manual ... [1s/2s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR