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This page was generated on 2024-03-04 11:36:43 -0500 (Mon, 04 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4676
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" 4414
merida1macOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4441
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" 4417
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

Package 864/2251HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GlobalAncova 4.21.0  (landing page)
Manuela Hummel
Snapshot Date: 2024-03-01 14:00:22 -0500 (Fri, 01 Mar 2024)
git_url: https://git.bioconductor.org/packages/GlobalAncova
git_branch: devel
git_last_commit: 9ac53d6
git_last_commit_date: 2023-10-24 09:35:40 -0500 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  

CHECK results for GlobalAncova on nebbiolo1


To the developers/maintainers of the GlobalAncova package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GlobalAncova.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: GlobalAncova
Version: 4.21.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:GlobalAncova.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings GlobalAncova_4.21.0.tar.gz
StartedAt: 2024-03-01 22:39:31 -0500 (Fri, 01 Mar 2024)
EndedAt: 2024-03-01 22:46:14 -0500 (Fri, 01 Mar 2024)
EllapsedTime: 403.5 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: GlobalAncova.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:GlobalAncova.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings GlobalAncova_4.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/GlobalAncova.Rcheck’
* using R Under development (unstable) (2024-01-16 r85808)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘GlobalAncova/DESCRIPTION’ ... OK
* this is package ‘GlobalAncova’ version ‘4.21.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘GlobalAncova’ can be installed ... WARNING
Found the following significant warnings:
  GlobalAncova.c:33:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:38:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:43:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:48:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:88:54: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:100:56: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:148:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:153:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:158:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:163:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:170:50: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:250:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:255:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:260:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:265:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  GlobalAncova.c:272:50: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
See ‘/home/biocbuild/bbs-3.19-bioc/meat/GlobalAncova.Rcheck/00install.out’ for details.
* used C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
* 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
* 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 loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... NOTE
Package in Depends field not imported from: ‘methods’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.nPerms: no visible global function definition for ‘terms’
.onAttach: no visible global function definition for ‘addVigs2WinMenu’
.pAsymptotic: no visible global function definition for ‘qnorm’
.pAsymptotic: no visible global function definition for ‘pchisq’
.pGAapprox: no visible global function definition for ‘model.matrix’
GABroad: no visible global function definition for ‘is’
GABroad: no visible binding for global variable ‘collectionType’
GABroad: no visible binding for global variable ‘geneIds’
GABroad: no visible global function definition for ‘p.adjust’
GAGO: no visible binding for global variable ‘Ontology’
GAGO: no visible global function definition for ‘is’
GAGO: no visible global function definition for ‘p.adjust’
GAGO : <anonymous>: no visible global function definition for ‘is’
Gsquared: no visible global function definition for ‘glm’
Gsquared: no visible binding for global variable ‘multinomial’
Gsquared: no visible global function definition for ‘pchisq’
Gsquared: no visible global function definition for ‘qchisq’
Plot.all: no visible global function definition for ‘par’
Plot.all: no visible global function definition for ‘layout’
Plot.features: no visible global function definition for ‘barplot’
Plot.sequential: no visible global function definition for ‘par’
Plot.sequential: no visible global function definition for ‘barplot’
Plot.sequential: no visible global function definition for ‘legend’
Plot.sequential: no visible global function definition for ‘axis’
Tperm.catcat: no visible global function definition for ‘pchisq’
Tperm.catcat: no visible global function definition for ‘qchisq’
coldend: no visible global function definition for ‘is.leaf’
decomp.ssq: no visible global function definition for ‘model.matrix’
decomp.ssq: no visible global function definition for ‘as.formula’
decomp.ssq: no visible global function definition for ‘anova’
decomp.ssq: no visible global function definition for ‘lm’
decomp.ssq: no visible global function definition for ‘pf’
decomp.ssq.genewise: no visible global function definition for
  ‘model.matrix’
decomp.ssq.genewise: no visible global function definition for
  ‘as.formula’
decomp.ssq.genewise: no visible global function definition for ‘anova’
decomp.ssq.genewise: no visible global function definition for ‘lm’
decomp.ssq.genewise: no visible global function definition for ‘pf’
devtest: no visible global function definition for ‘formula’
devtest: no visible global function definition for ‘na.omit’
devtest: no visible global function definition for ‘pchisq’
devtest: no visible global function definition for ‘qchisq’
expr.test: no visible global function definition for ‘terms’
expr.test: no visible global function definition for ‘model.matrix’
gGAteststats: no visible global function definition for ‘terms’
gGAteststats: no visible global function definition for
  ‘complete.cases’
gGAteststats : <anonymous>: no visible global function definition for
  ‘na.omit’
gGAteststats: no visible global function definition for ‘model.matrix’
gGlobalAncova.hierarchical: no visible global function definition for
  ‘new’
getdev: no visible binding for global variable ‘nobs’
getdev: no visible global function definition for ‘glm.fit’
getdev: no visible global function definition for ‘binomial’
group2formula: no visible global function definition for ‘as.formula’
hiertest: no visible global function definition for ‘na.omit’
horizontal.bars: no visible global function definition for ‘plot.new’
horizontal.bars: no visible global function definition for ‘strwidth’
horizontal.bars: no visible global function definition for ‘par’
horizontal.bars: no visible global function definition for ‘rect’
horizontal.bars: no visible global function definition for ‘box’
horizontal.bars: no visible global function definition for ‘axis’
my.colors: no visible global function definition for ‘rainbow’
my.colors: no visible global function definition for ‘rgb’
pair.compare: no visible global function definition for ‘model.matrix’
plot.ssq.all: no visible global function definition for ‘par’
plot.ssq.all: no visible global function definition for ‘barplot’
plot.ssq.all: no visible global function definition for ‘axis’
plot.ssq.genewise2: no visible global function definition for ‘par’
plot.ssq.genewise2: no visible global function definition for ‘barplot’
plot.ssq.genewise2: no visible global function definition for ‘legend’
plot.ssq.genewise2: no visible global function definition for ‘axis’
plotallgenes: no visible global function definition for ‘par’
plotallgenes: no visible global function definition for ‘barplot’
plotallgenes: no visible global function definition for ‘lines’
plotgenes: no visible global function definition for ‘palette’
plotgenes: no visible global function definition for ‘rgb’
plotgenes: no visible global function definition for ‘lines’
plotgenes: no visible global function definition for ‘legend’
plotgenes2: no visible global function definition for ‘par’
plotgenes2: no visible global function definition for ‘barplot’
plotgenes2: no visible global function definition for ‘axis’
plotgenes2: no visible global function definition for ‘lines’
plotgenes2: no visible global function definition for ‘rect’
plotsubjects: no visible global function definition for ‘palette’
plotsubjects: no visible global function definition for ‘rgb’
plotsubjects: no visible global function definition for ‘legend’
reduSQ: no visible global function definition for ‘model.matrix’
GlobalAncova.closed,matrix-list-formula-missing-ANY-missing-missing-character:
  no visible global function definition for ‘model.matrix’
GlobalAncova,matrix-formula-missing-ANY-missing-missing-character: no
  visible global function definition for ‘model.matrix’
Plot.genes,matrix-formula-missing-ANY-missing-missing-character: no
  visible global function definition for ‘model.matrix’
Plot.subjects,matrix-formula-missing-ANY-missing-missing-character: no
  visible global function definition for ‘model.matrix’
pGAapprox,matrix-formula-missing-ANY-missing-missing-character: no
  visible global function definition for ‘model.matrix’
Undefined global functions or variables:
  Ontology addVigs2WinMenu anova as.formula axis barplot binomial box
  collectionType complete.cases formula geneIds glm glm.fit is is.leaf
  layout legend lines lm model.matrix multinomial na.omit new nobs
  p.adjust palette par pchisq pf plot.new qchisq qnorm rainbow rect rgb
  strwidth terms
Consider adding
  importFrom("grDevices", "palette", "rainbow", "rgb")
  importFrom("graphics", "axis", "barplot", "box", "layout", "legend",
             "lines", "par", "plot.new", "rect", "strwidth")
  importFrom("methods", "is", "new")
  importFrom("stats", "anova", "as.formula", "binomial",
             "complete.cases", "formula", "glm", "glm.fit", "is.leaf",
             "lm", "model.matrix", "na.omit", "nobs", "p.adjust",
             "pchisq", "pf", "qchisq", "qnorm", "terms")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
File ‘/home/biocbuild/bbs-3.19-bioc/R/site-library/GlobalAncova/libs/GlobalAncova.so’:
  Found ‘putchar’, possibly from ‘putchar’ (C)
  Found ‘rand’, possibly from ‘rand’ (C)
  Found ‘srand’, possibly from ‘srand’ (C)

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 nor [v]sprintf. 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 ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-bioc/meat/GlobalAncova.Rcheck/00check.log’
for details.



Installation output

GlobalAncova.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL GlobalAncova
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘GlobalAncova’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
gcc -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c GlobalAncova.c -o GlobalAncova.o
GlobalAncova.c: In function ‘row_orth2d’:
GlobalAncova.c:33:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
   33 |    { error("Warning in row_orth2d: Memory block of %d bytes unavailable",
      |                                                    ~^
      |                                                     |
      |                                                     int
      |                                                    %ld
   34 |       (*sD)*(*sD)*sizeof(double));
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~                     
      |                  |
      |                  long unsigned int
GlobalAncova.c:38:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
   38 |    { error("Warning in row_orth2d: Memory block of %d bytes unavailable",
      |                                                    ~^
      |                                                     |
      |                                                     int
      |                                                    %ld
   39 |       (*sD)*(*sD)*sizeof(double) );
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~                     
      |                  |
      |                  long unsigned int
GlobalAncova.c:43:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
   43 |    { error("Warning in row_orth2d: Memory block of %d bytes unavailable",
      |                                                    ~^
      |                                                     |
      |                                                     int
      |                                                    %ld
   44 |       (*zD)*(*sD)*sizeof(double)  );
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~                     
      |                  |
      |                  long unsigned int
GlobalAncova.c:48:53: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
   48 |    { error("Warning in row_orth2d: Memory block of %d bytes unavailable",
      |                                                    ~^
      |                                                     |
      |                                                     int
      |                                                    %ld
   49 |       (*zD)*(*zD)*sizeof(double) );
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~                     
      |                  |
      |                  long unsigned int
GlobalAncova.c: In function ‘genewiseGA’:
GlobalAncova.c:88:54: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
   88 |     { error("Warning in genewiseGA: Memory block of %d bytes unavailable",
      |                                                     ~^
      |                                                      |
      |                                                      int
      |                                                     %ld
   89 |       (*zxx)*(*zD_full) * sizeof(double) );
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~              
      |                         |
      |                         long unsigned int
GlobalAncova.c:100:56: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  100 |       { error("Warning in genewiseGA: Memory block of %d bytes unavailable",
      |                                                       ~^
      |                                                        |
      |                                                        int
      |                                                       %ld
  101 |         (*zxx)*(*zD_red) * sizeof(double) );
      |         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~               
      |                          |
      |                          long unsigned int
GlobalAncova.c: In function ‘permut_withFperm’:
GlobalAncova.c:148:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  148 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  149 |      (*zrr) * sizeof(double) );
      |      ~~~~~~~~~~~~~~~~~~~~~~~                    
      |             |
      |             long unsigned int
GlobalAncova.c:153:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  153 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  154 |     (*zrr) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~                     
      |            |
      |            long unsigned int
GlobalAncova.c:158:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  158 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  159 |     (*n_test_genes) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~            
      |                     |
      |                     long unsigned int
GlobalAncova.c:163:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  163 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  164 |     (*sD_full)*(*sD_full) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~      
      |                           |
      |                           long unsigned int
GlobalAncova.c:170:50: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  170 |     { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                                 ~^
      |                                                  |
      |                                                  int
      |                                                 %ld
  171 |       (*N_Subjects) * sizeof(int));
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~                 
      |                     |
      |                     long unsigned int
GlobalAncova.c: In function ‘permut’:
GlobalAncova.c:250:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  250 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  251 |      (*zrr) * sizeof(double) );
      |      ~~~~~~~~~~~~~~~~~~~~~~~                    
      |             |
      |             long unsigned int
GlobalAncova.c:255:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  255 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  256 |     (*zrr) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~                     
      |            |
      |            long unsigned int
GlobalAncova.c:260:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  260 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  261 |     (*n_test_genes) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~            
      |                     |
      |                     long unsigned int
GlobalAncova.c:265:48: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  265 |   { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                               ~^
      |                                                |
      |                                                int
      |                                               %ld
  266 |     (*sD_full)*(*sD_full) * sizeof(double));
      |     ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~      
      |                           |
      |                           long unsigned int
GlobalAncova.c:272:50: warning: format ‘%d’ expects argument of type ‘int’, but argument 2 has type ‘long unsigned int’ [-Wformat=]
  272 |     { error("Warning in permut: Memory block of %d bytes unavailable",
      |                                                 ~^
      |                                                  |
      |                                                  int
      |                                                 %ld
  273 |       (*N_Subjects) * sizeof(int));
      |       ~~~~~~~~~~~~~~~~~~~~~~~~~~~                 
      |                     |
      |                     long unsigned int
GlobalAncova.c: In function ‘permut_withFperm’:
GlobalAncova.c:166:8: warning: ‘ord_perm’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  166 |   int *ord_perm ;
      |        ^~~~~~~~
GlobalAncova.c: In function ‘permut’:
GlobalAncova.c:268:8: warning: ‘ord_perm’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  268 |   int *ord_perm ;
      |        ^~~~~~~~
gcc -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c ludcmp.c -o ludcmp.o
gcc -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG   -I/usr/local/include    -fpic  -g -O2  -Wall -c matrix.c -o matrix.o
gcc -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o GlobalAncova.so GlobalAncova.o ludcmp.o matrix.o -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-GlobalAncova/00new/GlobalAncova/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (GlobalAncova)

Tests output


Example timings

GlobalAncova.Rcheck/GlobalAncova-Ex.timings

nameusersystemelapsed
GAhier-class0.0010.0000.001
GlobalAncova1.5030.4811.984
GlobalAncova.decomp0.6930.0280.721
Plot.all0.0600.0040.064
Plot.features0.0200.0000.021
Plot.genes1.3590.0641.423
Plot.sequential0.0170.0040.020
Plot.subjects0.5170.0120.531
bindata0.0010.0000.001
colon.normal0.0030.0000.004
colon.pheno0.0010.0000.001
colon.tumour0.0000.0030.003
gGlobalAncova0.2350.0050.239
gGlobalAncova.hierarchical3.2330.1123.345
genesettesting000
pair.compare2.4530.1312.583
pathways0.0020.0000.002
phenodata0.0000.0010.001
vantVeer0.0030.0030.006