Back to the "Multiple platform build/check report" A  B  C  D  E  F [G] H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

BioC 3.6: BUILD BIN report for gaga on veracruz1

This page was generated on 2017-08-16 13:39:59 -0400 (Wed, 16 Aug 2017).

Package 495/1410HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gaga 2.23.0
David Rossell
Snapshot Date: 2017-08-15 17:18:21 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/gaga
Last Changed Rev: 129129 / Revision: 131943
Last Changed Date: 2017-04-24 15:50:57 -0400 (Mon, 24 Apr 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: gaga
Version: 2.23.0
Command: rm -rf gaga.buildbin-libdir && mkdir gaga.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh gaga_2.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R gaga.buildbin-libdir
StartedAt: 2017-08-16 10:24:46 -0400 (Wed, 16 Aug 2017)
EndedAt: 2017-08-16 10:25:04 -0400 (Wed, 16 Aug 2017)
EllapsedTime: 18.2 seconds
RetCode: 0
Status:  OK 
PackageFile: gaga_2.23.0.tgz
PackageFileSize: 493.9 KiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf gaga.buildbin-libdir && mkdir gaga.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh gaga_2.23.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R gaga.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=gaga.buildbin-libdir gaga_2.23.0.tar.gz'
>>>>>>> 

* installing *source* package ‘gaga’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c cseqdesma.c -o cseqdesma.o
cseqdesma.c:4524:14: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
if ((*usesumx==0)) {                                               //if suff stat not pre-computed
     ˜˜˜˜˜˜˜˜^˜˜
cseqdesma.c:4524:14: note: remove extraneous parentheses around the comparison to silence this warning
if ((*usesumx==0)) {                                               //if suff stat not pre-computed
    ˜        ^  ˜
cseqdesma.c:4524:14: note: use '=' to turn this equality comparison into an assignment
if ((*usesumx==0)) {                                               //if suff stat not pre-computed
             ^˜
             =
cseqdesma.c:5836:13: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
  if ((*usel==0)) {
       ˜˜˜˜˜^˜˜
cseqdesma.c:5836:13: note: remove extraneous parentheses around the comparison to silence this warning
  if ((*usel==0)) {
      ˜     ^  ˜
cseqdesma.c:5836:13: note: use '=' to turn this equality comparison into an assignment
  if ((*usel==0)) {
            ^˜
            =
cseqdesma.c:6070:13: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
  if ((*usel==0)) {
       ˜˜˜˜˜^˜˜
cseqdesma.c:6070:13: note: remove extraneous parentheses around the comparison to silence this warning
  if ((*usel==0)) {
      ˜     ^  ˜
cseqdesma.c:6070:13: note: use '=' to turn this equality comparison into an assignment
  if ((*usel==0)) {
            ^˜
            =
cseqdesma.c:6340:13: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
  if ((*usel==0)) {                                           //If l values have to be generated
       ˜˜˜˜˜^˜˜
cseqdesma.c:6340:13: note: remove extraneous parentheses around the comparison to silence this warning
  if ((*usel==0)) {                                           //If l values have to be generated
      ˜     ^  ˜
cseqdesma.c:6340:13: note: use '=' to turn this equality comparison into an assignment
  if ((*usel==0)) {                                           //If l values have to be generated
            ^˜
            =
4 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c cstat.c -o cstat.o
cstat.c:1838:6: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  if(abs(ndf - 2.0) < eps) {   /* df ˜= 2 */
     ^
cstat.c:1838:6: note: use function 'fabs' instead
  if(abs(ndf - 2.0) < eps) {   /* df ˜= 2 */
     ^˜˜
     fabs
cstat.c:18:19: warning: unused variable 'interface_c_sccs_id' [-Wunused-const-variable]
static const char interface_c_sccs_id[] = "%W%";
                  ^
cstat.c:19:19: warning: unused variable 'mess_c_sccs_id' [-Wunused-const-variable]
static const char mess_c_sccs_id[] = "%W%";
                  ^
cstat.c:20:19: warning: unused variable 'nrutil_c_sccs_id' [-Wunused-const-variable]
static const char nrutil_c_sccs_id[] = "%W%"; 
                  ^
cstat.c:21:19: warning: unused variable 'vector_c_sccs_id' [-Wunused-const-variable]
static const char vector_c_sccs_id[] = "%W%";
                  ^
cstat.c:22:19: warning: unused variable 'css_c_sccs_id' [-Wunused-const-variable]
static const char css_c_sccs_id[] = "@(#)$Workfile: rand.c$ $Revision: 5$";
                  ^
6 warnings generated.
clang -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 gaga.so cseqdesma.o cstat.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.6-bioc/meat/gaga.buildbin-libdir/gaga/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 (gaga)


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

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgcc_s.1.dylib" "gaga.buildbin-libdir/gaga/libs//gaga.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libgfortran.3.dylib" "gaga.buildbin-libdir/gaga/libs//gaga.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.5.2.dylib" "gaga.buildbin-libdir/gaga/libs//gaga.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libreadline.dylib" "gaga.buildbin-libdir/gaga/libs//gaga.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libquadmath.0.dylib" "gaga.buildbin-libdir/gaga/libs//gaga.so"