Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:34 -0400 (Wed, 13 Apr 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the fmrs package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to [email protected]:packages/fmrs.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 680/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
fmrs 1.4.0 (landing page) Farhad Shokoohi
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: fmrs |
Version: 1.4.0 |
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fmrs.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings fmrs_1.4.0.tar.gz |
StartedAt: 2022-04-12 19:51:04 -0400 (Tue, 12 Apr 2022) |
EndedAt: 2022-04-12 19:52:23 -0400 (Tue, 12 Apr 2022) |
EllapsedTime: 79.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: fmrs.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fmrs.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings fmrs_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/fmrs.Rcheck' * using R version 4.1.3 (2022-03-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'fmrs/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'fmrs' version '1.4.0' * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'fmrs' can be installed ... OK * checking installed package size ... OK * checking package directory ... 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * loading checks for arch 'i386' ** checking whether the package can be loaded ... OK ** checking whether the package can be loaded with stated dependencies ... OK ** checking whether the package can be unloaded cleanly ... OK ** checking whether the namespace can be loaded with stated dependencies ... OK ** checking whether the namespace can be unloaded cleanly ... OK * loading checks for arch 'x64' ** checking whether the package can be loaded ... OK ** checking whether the package can be loaded with stated dependencies ... OK ** checking whether the package can be unloaded cleanly ... OK ** checking whether the namespace can be loaded with stated dependencies ... OK ** checking whether the namespace can be unloaded cleanly ... 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 ... OK * checking Rd files ... OK * checking Rd metadata ... 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files for i386 is not available Note: information on .o files for x64 is not available File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/fmrs/libs/i386/fmrs.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) File 'C:/Users/biocbuild/bbs-3.14-bioc/R/library/fmrs/libs/x64/fmrs.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs. The detected symbols are linked into the code but might come from libraries and not actually be called. See 'Writing portable packages' in the 'Writing R Extensions' manual. * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... Running 'testthat.R' OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See 'C:/Users/biocbuild/bbs-3.14-bioc/meat/fmrs.Rcheck/00check.log' for details.
fmrs.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/fmrs_1.4.0.tar.gz && rm -rf fmrs.buildbin-libdir && mkdir fmrs.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fmrs.buildbin-libdir fmrs_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL fmrs_1.4.0.zip && rm fmrs_1.4.0.tar.gz fmrs_1.4.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 40897 100 40897 0 0 259k 0 --:--:-- --:--:-- --:--:-- 261k install for i386 * installing *source* package 'fmrs' ... ** using staged installation ** libs "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fmrs.c -o fmrs.o fmrs.c: In function 'minimum': fmrs.c:138:3: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(i = 0; i < ncov1; i++) ^~~ fmrs.c:142:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' return(min1); ^~~~~~ fmrs.c: In function 'maximum': fmrs.c:152:3: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(i = 0; i < ncov1; i++) ^~~ fmrs.c:156:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' return(max1); ^~~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_MLE': fmrs.c:457:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:463:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:285:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_VarSel': fmrs.c:883:9: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < NCOV; j++) ^~~ fmrs.c:887:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < ONCOV[k1]; i++){ ^~~ fmrs.c:915:13: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:921:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:687:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_CwTuneParSel': fmrs.c:1403:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:1409:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:1218:12: warning: variable 'new_pi0' set but not used [-Wunused-but-set-variable] double new_pi0[NCOMP]; ^~~~~~~ fmrs.c:1211:12: warning: variable 'new_sigma0' set but not used [-Wunused-but-set-variable] double new_sigma0[NCOMP]; ^~~~~~~~~~ fmrs.c:1196:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_MLE': fmrs.c:1752:13: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:1758:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:1547:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_VarSel': fmrs.c:2205:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 1); j++) ^~~ fmrs.c:2212:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < (NCOV + 1); i++){ ^~~ fmrs.c:2251:15: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 2); j++) ^~~ fmrs.c:2257:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (NCOV + 2); i++) { ^~~ fmrs.c:2271:19: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 1); j++) ^~~ fmrs.c:2277:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' sumi5[k1] = 0.0; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_CwTuneParSel': fmrs.c:2745:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < NCOV; j++) ^~~ fmrs.c:2750:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < ONCOV[k1]; i++){ ^~~ fmrs.c:2553:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][k1]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_VarSel': fmrs.c:748:12: warning: 'sat_den' may be used uninitialized in this function [-Wmaybe-uninitialized] double sat_den; ^~~~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_VarSel': fmrs.c:2072:12: warning: 'sat_den' may be used uninitialized in this function [-Wmaybe-uninitialized] double sat_den; ^~~~~~~ "C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fmrs_init.c -o fmrs_init.o C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o fmrs.dll tmp.def fmrs.o fmrs_init.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/fmrs.buildbin-libdir/00LOCK-fmrs/00new/fmrs/libs/i386 ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'fmrs' finding HTML links ... done BIC-methods html coefficients-methods html dispersion-methods html fitted-methods html fmrs-package html fmrs.gendata-methods html fmrs.mle-methods html fmrs.tunsel-methods html fmrs.varsel-methods html fmrsfit-class html fmrstunpar-class html logLik-methods html mixProp-methods html ncomp-methods html ncov-methods html nobs-methods html residuals-methods html summary-methods html weights-methods html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'fmrs' ... ** libs "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fmrs.c -o fmrs.o fmrs.c: In function 'minimum': fmrs.c:138:3: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(i = 0; i < ncov1; i++) ^~~ fmrs.c:142:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' return(min1); ^~~~~~ fmrs.c: In function 'maximum': fmrs.c:152:3: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(i = 0; i < ncov1; i++) ^~~ fmrs.c:156:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' return(max1); ^~~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_MLE': fmrs.c:457:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:463:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:285:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_VarSel': fmrs.c:883:9: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < NCOV; j++) ^~~ fmrs.c:887:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < ONCOV[k1]; i++){ ^~~ fmrs.c:915:13: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:921:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:687:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_CwTuneParSel': fmrs.c:1403:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:1409:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:1218:12: warning: variable 'new_pi0' set but not used [-Wunused-but-set-variable] double new_pi0[NCOMP]; ^~~~~~~ fmrs.c:1211:12: warning: variable 'new_sigma0' set but not used [-Wunused-but-set-variable] double new_sigma0[NCOMP]; ^~~~~~~~~~ fmrs.c:1196:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_MLE': fmrs.c:1752:13: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (ONCOV[k1] + 1); j++) ^~~ fmrs.c:1758:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (ONCOV[k1] + 1); i++) { ^~~ fmrs.c:1547:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][NCOMP]; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_VarSel': fmrs.c:2205:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 1); j++) ^~~ fmrs.c:2212:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < (NCOV + 1); i++){ ^~~ fmrs.c:2251:15: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 2); j++) ^~~ fmrs.c:2257:17: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for (i = 0; i < (NCOV + 2); i++) { ^~~ fmrs.c:2271:19: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < (NCOV + 1); j++) ^~~ fmrs.c:2277:21: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' sumi5[k1] = 0.0; ^~~~~ fmrs.c: In function 'FMR_Weibl_Surv_CwTuneParSel': fmrs.c:2745:11: warning: this 'for' clause does not guard... [-Wmisleading-indentation] for(j = 0; j < NCOV; j++) ^~~ fmrs.c:2750:13: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' for(i = 0; i < ONCOV[k1]; i++){ ^~~ fmrs.c:2553:12: warning: variable 'multX' set but not used [-Wunused-but-set-variable] double multX[nsize][NCOV][k1]; ^~~~~ fmrs.c: In function 'FMR_Norm_Surv_EM_VarSel': fmrs.c:748:12: warning: 'sat_den' may be used uninitialized in this function [-Wmaybe-uninitialized] double sat_den; ^~~~~~~ fmrs.c: In function 'FMR_Weibl_Surv_EM_VarSel': fmrs.c:2072:12: warning: 'sat_den' may be used uninitialized in this function [-Wmaybe-uninitialized] double sat_den; ^~~~~~~ "C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fmrs_init.c -o fmrs_init.o C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o fmrs.dll tmp.def fmrs.o fmrs_init.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/fmrs.buildbin-libdir/fmrs/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'fmrs' as fmrs_1.4.0.zip * DONE (fmrs) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'fmrs' successfully unpacked and MD5 sums checked
fmrs.Rcheck/tests_i386/testthat.Rout R version 4.1.3 (2022-03-10) -- "One Push-Up" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-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. R is a collaborative project with many contributors. 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 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(fmrs) BugReports: https://github.com/shokoohi/fmrs/issues > > test_check("fmrs") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] > > proc.time() user system elapsed 2.25 0.15 2.37 |
fmrs.Rcheck/tests_x64/testthat.Rout R version 4.1.3 (2022-03-10) -- "One Push-Up" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (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. R is a collaborative project with many contributors. 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 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(fmrs) BugReports: https://github.com/shokoohi/fmrs/issues > > test_check("fmrs") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 1 ] > > proc.time() user system elapsed 1.98 0.15 2.12 |
fmrs.Rcheck/examples_i386/fmrs-Ex.timings
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fmrs.Rcheck/examples_x64/fmrs-Ex.timings
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