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BioC 3.2: BUILD BIN report for NuPoP on oaxaca

This page was generated on 2016-04-23 10:24:48 -0700 (Sat, 23 Apr 2016).

Package 717/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
NuPoP 1.20.0
Ji-Ping Wang
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/NuPoP
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  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: NuPoP
Version: 1.20.0
Command: rm -rf NuPoP.buildbin-libdir && mkdir NuPoP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh NuPoP_1.20.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R NuPoP.buildbin-libdir
StartedAt: 2016-04-23 05:54:38 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 05:54:44 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 6.7 seconds
RetCode: 0
Status:  OK 
PackageFile: NuPoP_1.20.0.tgz
PackageFileSize: 2.009 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf NuPoP.buildbin-libdir && mkdir NuPoP.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh NuPoP_1.20.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R NuPoP.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=NuPoP.buildbin-libdir NuPoP_1.20.0.tar.gz'
>>>>>>> 

* installing *source* package ‘NuPoP’ ...
** libs
gfortran-4.8  -fPIC -Wall -g -O2  -c  vtbfb.f90 -o vtbfb.o
vtbfb.f90:13.32:

  character*80 seqName,out1,out2; character*2 tpc
                                1
Warning: Unused variable 'out2' declared at (1)
vtbfb.f90: In function ‘vtbfb’:
vtbfb.f90:224:0: warning: ‘tp’ may be used uninitialized in this function [-Wmaybe-uninitialized]
         tp=tranL(w(t-d+1),w(t-d+2))*tranL(c(z-t+d-1),c(z-t+d))/r(t-d+1)*tp
 ^
gfortran-4.8  -fPIC -Wall -g -O2  -c  vtbfbNL4.f90 -o vtbfbNL4.o
vtbfbNL4.f90:257.106:

L2(w(t-d+1),w(t-d+2),w(t-d+3))*tranL2(c(z-t+1),c(z-t+2),c(z-t+3))/r(t-d+2)   
                                                                           1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:272.13:

      end if 
             1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:301.107:

2(w(t-d+1),w(t-d+2),w(t-d+3))*tranL2(c(z-t+1),c(z-t+2),c(z-t+3))/ra(t-d+2)   
                                                                           1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:314.23:

      tempL=tempL+temp 
                       1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:335.87:

3) rb(t)=rb(t)*tranL2(w(t+1),w(t+2),w(t+3))*tranL2(c(1),c(2),c(3))/rb(t+2)   
                                                                           1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:364.105:

nL2(w(t+1),w(t+2),w(t+3))*tranL2(c(z-t-d+1),c(z-t-d+2),c(z-t-d+3))/rb(t+2)   
                                                                           1
Warning: Nonconforming tab character at (1)
vtbfbNL4.f90:15.32:

  character*80 seqName,out1,out2; character*2 tpc
                                1
Warning: Unused variable 'out2' declared at (1)
gfortran-4.8 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o NuPoP.so vtbfb.o vtbfbNL4.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/NuPoP.buildbin-libdir/NuPoP/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (NuPoP)


>>>>>>> 
>>>>>>> FIXING LINKS FOR NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgcc_s.1.dylib" "NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libgfortran.3.dylib" "NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.5.2.dylib" "NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libreadline.dylib" "NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.2/Resources/lib/libquadmath.0.dylib" "NuPoP.buildbin-libdir/NuPoP/libs//NuPoP.so"