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BioC 3.2: INSTALL report for flowClust on moscato1

This page was generated on 2016-04-23 10:16:32 -0700 (Sat, 23 Apr 2016).

Package 353/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowClust 3.8.0
Greg Finak , Mike Jiang
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/flowClust
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: flowClust
Version: 3.8.0
Command: rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/flowClust_3.8.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir --merge-multiarch flowClust_3.8.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL flowClust_3.8.0.zip && rm flowClust_3.8.0.tar.gz flowClust_3.8.0.zip
StartedAt: 2016-04-22 18:16:25 -0700 (Fri, 22 Apr 2016)
EndedAt: 2016-04-22 18:18:21 -0700 (Fri, 22 Apr 2016)
EllapsedTime: 116.2 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/flowClust_3.8.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir --merge-multiarch flowClust_3.8.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL flowClust_3.8.0.zip  && rm flowClust_3.8.0.tar.gz flowClust_3.8.0.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 1822k  100 1822k    0     0  23.3M      0 --:--:-- --:--:-- --:--:--  104M

install for i386

* installing *source* package 'flowClust' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c BoxCox.c -o BoxCox.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c BoxCoxPriors.c -o BoxCoxPriors.o
BoxCoxPriors.c: In function 'BoxCoxGradientPriors':
BoxCoxPriors.c:57:16: warning: unused variable 'rowZ' [-Wunused-variable]
BoxCoxPriors.c:33:24: warning: unused variable 'kappa0' [-Wunused-variable]
BoxCoxPriors.c:32:7: warning: unused variable 'itersolve' [-Wunused-variable]
BoxCoxPriors.c:31:6: warning: unused variable 'iter' [-Wunused-variable]
BoxCoxPriors.c:28:6: warning: unused variable 'model' [-Wunused-variable]
BoxCoxPriors.c:23:14: warning: unused variable 'SumZlogY' [-Wunused-variable]
BoxCoxPriors.c:15:14: warning: unused variable 'Precision' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c Nu.c -o Nu.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c flowClust.c -o flowClust.o
flowClust.c: In function 'flowClust':
flowClust.c:48:2: warning: unused variable 'matrixZUY2' [-Wunused-variable]
flowClust.c:46:48: warning: unused variable 'subRowZUY2' [-Wunused-variable]
flowClust.c:46:39: warning: unused variable 'rowZUY2' [-Wunused-variable]
flowClust.c: In function 'ECMUpdateSigmaG2':
flowClust.c:1111:6: warning: unused variable 'i' [-Wunused-variable]
flowClust.c: In function 'flowClust':
flowClust.c:702:11: warning: 's3' may be used uninitialized in this function [-Wuninitialized]
flowClust.c:647:13: warning: 's2' may be used uninitialized in this function [-Wuninitialized]
flowClust.c:348:12: warning: 's' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c flowClustGaussian.c -o flowClustGaussian.o
flowClustGaussian.c: In function 'flowClustGaussian':
flowClustGaussian.c:207:12: warning: 's' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/i386/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c ranMVNT.c -o ranMVNT.o
gcc -m32 -shared -s -static-libgcc -o flowClust.dll tmp.def BoxCox.o BoxCoxPriors.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o -LC:/GSL/i386/lib -lgsl -lgslcblas -lm -Ld:/RCompile/r-compiling/local/local323/lib/i386 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/flowClust.buildbin-libdir/flowClust/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'flowClust' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c BoxCox.c -o BoxCox.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c BoxCoxPriors.c -o BoxCoxPriors.o
BoxCoxPriors.c: In function 'BoxCoxGradientPriors':
BoxCoxPriors.c:57:16: warning: unused variable 'rowZ' [-Wunused-variable]
BoxCoxPriors.c:33:24: warning: unused variable 'kappa0' [-Wunused-variable]
BoxCoxPriors.c:32:7: warning: unused variable 'itersolve' [-Wunused-variable]
BoxCoxPriors.c:31:6: warning: unused variable 'iter' [-Wunused-variable]
BoxCoxPriors.c:28:6: warning: unused variable 'model' [-Wunused-variable]
BoxCoxPriors.c:23:14: warning: unused variable 'SumZlogY' [-Wunused-variable]
BoxCoxPriors.c:15:14: warning: unused variable 'Precision' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c Nu.c -o Nu.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c flowClust.c -o flowClust.o
flowClust.c: In function 'flowClust':
flowClust.c:48:2: warning: unused variable 'matrixZUY2' [-Wunused-variable]
flowClust.c:46:48: warning: unused variable 'subRowZUY2' [-Wunused-variable]
flowClust.c:46:39: warning: unused variable 'rowZUY2' [-Wunused-variable]
flowClust.c: In function 'ECMUpdateSigmaG2':
flowClust.c:1111:6: warning: unused variable 'i' [-Wunused-variable]
flowClust.c: In function 'flowClust':
flowClust.c:702:11: warning: 's3' may be used uninitialized in this function [-Wuninitialized]
flowClust.c:647:13: warning: 's2' may be used uninitialized in this function [-Wuninitialized]
flowClust.c:348:12: warning: 's' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c flowClustGaussian.c -o flowClustGaussian.o
flowClustGaussian.c: In function 'flowClustGaussian':
flowClustGaussian.c:207:12: warning: 's' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I/src/include -IC:/GSL/x64/include    -I"d:/RCompile/r-compiling/local/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c ranMVNT.c -o ranMVNT.o
gcc -m64 -shared -s -static-libgcc -o flowClust.dll tmp.def BoxCox.o BoxCoxPriors.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o -LC:/GSL/x64/lib -lgsl -lgslcblas -lm -Ld:/RCompile/r-compiling/local/local323/lib/x64 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/flowClust.buildbin-libdir/flowClust/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowClust' as flowClust_3.8.0.zip
* DONE (flowClust)
* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
package 'flowClust' successfully unpacked and MD5 sums checked