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This page was generated on 2023-03-29 11:05:54 -0400 (Wed, 29 Mar 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_64R Under development (unstable) (2023-03-16 r83996) -- "Unsuffered Consequences" 4547
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2023-03-15 r83984 ucrt) -- "Unsuffered Consequences" 4308
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2023-03-16 r83985) -- "Unsuffered Consequences" 4301
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

INSTALL results for snapCGH on palomino3


To the developers/maintainers of the snapCGH package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/snapCGH.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.

raw results

Package 1922/2195HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
snapCGH 1.69.0  (landing page)
John Marioni
Snapshot Date: 2023-03-28 14:00:22 -0400 (Tue, 28 Mar 2023)
git_url: https://git.bioconductor.org/packages/snapCGH
git_branch: devel
git_last_commit: 29ab2bc
git_last_commit_date: 2022-11-01 10:40:32 -0400 (Tue, 01 Nov 2022)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  ERROR    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  ERROR    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  ERROR    ERROR  skippedskipped

Summary

Package: snapCGH
Version: 1.69.0
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL snapCGH
StartedAt: 2023-03-28 16:34:39 -0400 (Tue, 28 Mar 2023)
EndedAt: 2023-03-28 16:34:49 -0400 (Tue, 28 Mar 2023)
EllapsedTime: 9.3 seconds
RetCode: 1
Status:   ERROR  

Command output

##############################################################################
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###
### Running command:
###
###   F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL snapCGH
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library'
* installing *source* package 'snapCGH' ...
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 12.2.0'
gcc  -I"F:/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG     -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26:30: warning: unused variable 'temp3' [-Wunused-variable]
   26 |   double denom, temp, temp2, temp3;
      |                              ^~~~~
optimizer.c:26:23: warning: unused variable 'temp2' [-Wunused-variable]
   26 |   double denom, temp, temp2, temp3;
      |                       ^~~~~
optimizer.c:26:10: warning: unused variable 'denom' [-Wunused-variable]
   26 |   double denom, temp, temp2, temp3;
      |          ^~~~~
optimizer.c: In function 'fr_three':
optimizer.c:195:30: warning: unused variable 'temp3' [-Wunused-variable]
  195 |   double denom, temp, temp2, temp3;
      |                              ^~~~~
optimizer.c:195:23: warning: unused variable 'temp2' [-Wunused-variable]
  195 |   double denom, temp, temp2, temp3;
      |                       ^~~~~
optimizer.c:195:10: warning: unused variable 'denom' [-Wunused-variable]
  195 |   double denom, temp, temp2, temp3;
      |          ^~~~~
optimizer.c:194:69: warning: unused variable 'alphahat' [-Wunused-variable]
  194 |   double gammaA[3][3], gammaB[3][3], gammaC[3][3], alpha[3][nrow1], alphahat[3][nrow1], emis_prob[3][nrow1];
      |                                                                     ^~~~~~~~
optimizer.c: In function 'fr_four':
optimizer.c:413:30: warning: unused variable 'temp3' [-Wunused-variable]
  413 |   double denom, temp, temp2, temp3;
      |                              ^~~~~
optimizer.c:413:23: warning: unused variable 'temp2' [-Wunused-variable]
  413 |   double denom, temp, temp2, temp3;
      |                       ^~~~~
optimizer.c:413:10: warning: unused variable 'denom' [-Wunused-variable]
  413 |   double denom, temp, temp2, temp3;
      |          ^~~~~
optimizer.c:412:69: warning: unused variable 'alphahat' [-Wunused-variable]
  412 |   double gammaA[4][4], gammaB[4][4], gammaC[4][4], alpha[4][nrow1], alphahat[4][nrow1], emis_prob[4][nrow1];
      |                                                                     ^~~~~~~~
optimizer.c: In function 'fr_five':
optimizer.c:687:30: warning: unused variable 'temp3' [-Wunused-variable]
  687 |   double denom, temp, temp2, temp3;
      |                              ^~~~~
optimizer.c:687:23: warning: unused variable 'temp2' [-Wunused-variable]
  687 |   double denom, temp, temp2, temp3;
      |                       ^~~~~
optimizer.c:687:10: warning: unused variable 'denom' [-Wunused-variable]
  687 |   double denom, temp, temp2, temp3;
      |          ^~~~~
optimizer.c:686:69: warning: unused variable 'alphahat' [-Wunused-variable]
  686 |   double gammaA[5][5], gammaB[5][5], gammaC[5][5], alpha[5][nrow1], alphahat[5][nrow1], emis_prob[5][nrow1];
      |                                                                     ^~~~~~~~
gcc -shared -s -static-libgcc -o snapCGH.dll tmp.def optimizer.o -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.17-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.17-bioc/R/library/00LOCK-snapCGH/00new/snapCGH/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
Error: objects 'rowSums', 'colSums', 'rowMeans', 'colMeans' are not exported by 'namespace:BiocGenerics'
Execution halted
ERROR: lazy loading failed for package 'snapCGH'
* removing 'F:/biocbuild/bbs-3.17-bioc/R/library/snapCGH'
* restoring previous 'F:/biocbuild/bbs-3.17-bioc/R/library/snapCGH'