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This page was generated on 2022-07-07 11:08:31 -0400 (Thu, 07 Jul 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4343
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4148
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4160
kjohnsonmacOS 12.4 Montereyarm644.2.0 Patched (2022-06-09 r82473) -- "Vigorous Calisthenics" 3115
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 palomino4


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 1856/2124HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
snapCGH 1.67.0  (landing page)
John Marioni
Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022)
git_url: https://git.bioconductor.org/packages/snapCGH
git_branch: master
git_last_commit: 2426aa7
git_last_commit_date: 2022-04-26 10:57:56 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnsonmacOS 12.4 Monterey / arm64  ERROR    ERROR  skippedskipped

Summary

Package: snapCGH
Version: 1.67.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.16/bioc/src/contrib/snapCGH_1.67.0.tar.gz && rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=snapCGH.buildbin-libdir snapCGH_1.67.0.tar.gz && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL snapCGH_1.67.0.zip && rm snapCGH_1.67.0.tar.gz snapCGH_1.67.0.zip
StartedAt: 2022-07-06 15:57:32 -0400 (Wed, 06 Jul 2022)
EndedAt: 2022-07-06 15:58:12 -0400 (Wed, 06 Jul 2022)
EllapsedTime: 39.7 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.16/bioc/src/contrib/snapCGH_1.67.0.tar.gz && rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=snapCGH.buildbin-libdir snapCGH_1.67.0.tar.gz && F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL snapCGH_1.67.0.zip && rm snapCGH_1.67.0.tar.gz snapCGH_1.67.0.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  617k  100  617k    0     0  4552k      0 --:--:-- --:--:-- --:--:-- 4575k
only one architecture so ignoring '--merge-multiarch'
* installing *source* package 'snapCGH' ...
** using staged installation
** libs
gcc  -I"F:/biocbuild/bbs-3.16-bioc/R/include" -DNDEBUG     -I"C:/rtools42/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -std=gnu99 -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:/rtools42/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools42/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.16-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.16-bioc/meat/snapCGH.buildbin-libdir/00LOCK-snapCGH/00new/snapCGH/libs/x64
** R
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'snapCGH' as snapCGH_1.67.0.zip
* DONE (snapCGH)
* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
package 'snapCGH' successfully unpacked and MD5 sums checked