Till Soerensen
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/immunoClust |
| Branch: RELEASE_3_10 |
| Last Commit: b8b8173 |
| Last Changed Date: 2020-03-25 13:20:36 -0400 (Wed, 25 Mar 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:24:32 -0400 (Wed, 15 Apr 2020).
| Package 839/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| immunoClust 1.18.1 Till Soerensen
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: immunoClust |
| Version: 1.18.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/immunoClust_1.18.1.tar.gz && rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=immunoClust.buildbin-libdir immunoClust_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL immunoClust_1.18.1.zip && rm immunoClust_1.18.1.tar.gz immunoClust_1.18.1.zip |
| StartedAt: 2020-04-14 18:53:30 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 18:54:42 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 71.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/immunoClust_1.18.1.tar.gz && rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=immunoClust.buildbin-libdir immunoClust_1.18.1.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL immunoClust_1.18.1.zip && rm immunoClust_1.18.1.tar.gz immunoClust_1.18.1.zip
###
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install for i386
* installing *source* package 'immunoClust' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c R_meta.cpp -o R_meta.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c R_model.cpp -o R_model.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c dist_mvn.cpp -o dist_mvn.o
dist_mvn.cpp: In member function 'int dist_mvn::hellinger(double*)':
dist_mvn.cpp:56:14: warning: variable 'det_k' set but not used [-Wunused-but-set-variable]
double det, det_k, det_l, logD;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta.cpp -o em_meta.o
em_meta.cpp: In member function 'int em_meta::wt_step()':
em_meta.cpp:160:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_meta.cpp:162:9: warning: variable 'minDelta' set but not used [-Wunused-but-set-variable]
double minDelta = FLTMAX;
^
em_meta.cpp: In member function 'int em_meta::st_step()':
em_meta.cpp:227:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_meta.cpp:229:9: warning: variable 'minDelta' set but not used [-Wunused-but-set-variable]
double minDelta = FLTMAX;
^
em_meta.cpp: In member function 'double em_meta::et_step()':
em_meta.cpp:412:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
em_meta.cpp: In member function 'double em_meta::fixedN_et_step()':
em_meta.cpp:698:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta_bc.cpp -o em_meta_bc.o
em_meta_bc.cpp: In member function 'double em_meta::bc_et_step()':
em_meta_bc.cpp:238:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
em_meta_bc.cpp: In member function 'double em_meta::bc_fixedN_et_step()':
em_meta_bc.cpp:524:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta_kl.cpp -o em_meta_kl.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvn.cpp -o em_mvn.o
em_mvn.cpp: In member function 'int em_gaussian::build(const int*, double*, int*)':
em_mvn.cpp:722:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvt.cpp -o em_mvt.o
em_mvt.cpp: In member function 'int em_mvt::t_step()':
em_mvt.cpp:522:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_mvt.cpp: In member function 'int em_mvt::build(const int*, double*, int*)':
em_mvt.cpp:772:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvt2.cpp -o em_mvt2.o
em_mvt2.cpp: In member function 'int em_mvt2::t_step()':
em_mvt2.cpp:509:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_mvt2.cpp: In member function 'int em_mvt2::build(const int*, double*, int*)':
em_mvt2.cpp:806:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hc_meta.cpp -o hc_meta.o
hc_meta.cpp: In member function 'int mvn_dendro::mahalanobis_w(int*, int*, double*)':
hc_meta.cpp:814:16: warning: variable 'S_i' set but not used [-Wunused-but-set-variable]
const double *S_i, *S_j;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hc_mvn.cpp -o hc_mvn.o
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=core2 -c immunoClust.c -o immunoClust.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c meta_norm.cpp -o meta_norm.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c meta_scale.cpp -o meta_scale.o
meta_scale.cpp: In member function 'void meta_scale::quantile()':
meta_scale.cpp:846:10: warning: variable 'w' set but not used [-Wunused-but-set-variable]
double *w, *m, *s;
^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c normalize.cpp -o normalize.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c sub_mvn.cpp -o sub_mvn.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c util.cpp -o util.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c vs_htrans.cpp -o vs_htrans.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o immunoClust.dll tmp.def R_meta.o R_model.o dist_mvn.o em_meta.o em_meta_bc.o em_meta_kl.o em_mvn.o em_mvt.o em_mvt2.o hc_meta.o hc_mvn.o immunoClust.o meta_norm.o meta_scale.o normalize.o sub_mvn.o util.o vs_htrans.o -L/i386/lib -lgsl -lgslcblas -lm -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/immunoClust.buildbin-libdir/00LOCK-immunoClust/00new/immunoClust/libs/i386
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'immunoClust'
finding HTML links ... done
bhattacharyya html
cell.ClustData html
cell.EM html
cell.FitModel html
cell.ME html
cell.SubClustering html
cell.hclust html
cell.process html
cell.removed html
dat.exp html
dat.fcs html
dat.meta html
generics html
immunoClust-package html
immunoClust.methods html
immunoClust.object html
immunoMeta.methods html
immunoMeta.object html
meta.ME html
meta.SubClustering html
meta.clustering html
meta.export html
meta.exprs html
meta.hclust html
meta.normalize html
meta.process html
meta.regnorm html
plot.immunoClust html
plot.immunoMeta html
splom.immunoClust html
trans.ApplyToData html
trans.FitToData html
** 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
install for x64
* installing *source* package 'immunoClust' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c R_meta.cpp -o R_meta.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c R_model.cpp -o R_model.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c dist_mvn.cpp -o dist_mvn.o
dist_mvn.cpp: In member function 'int dist_mvn::hellinger(double*)':
dist_mvn.cpp:56:14: warning: variable 'det_k' set but not used [-Wunused-but-set-variable]
double det, det_k, det_l, logD;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta.cpp -o em_meta.o
em_meta.cpp: In member function 'int em_meta::wt_step()':
em_meta.cpp:160:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_meta.cpp:162:9: warning: variable 'minDelta' set but not used [-Wunused-but-set-variable]
double minDelta = FLTMAX;
^
em_meta.cpp: In member function 'int em_meta::st_step()':
em_meta.cpp:227:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_meta.cpp:229:9: warning: variable 'minDelta' set but not used [-Wunused-but-set-variable]
double minDelta = FLTMAX;
^
em_meta.cpp: In member function 'double em_meta::et_step()':
em_meta.cpp:412:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
em_meta.cpp: In member function 'double em_meta::fixedN_et_step()':
em_meta.cpp:698:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta_bc.cpp -o em_meta_bc.o
em_meta_bc.cpp: In member function 'double em_meta::bc_et_step()':
em_meta_bc.cpp:238:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
em_meta_bc.cpp: In member function 'double em_meta::bc_fixedN_et_step()':
em_meta_bc.cpp:524:16: warning: variable 'sndLike' set but not used [-Wunused-but-set-variable]
double sndLike = 0.0;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_meta_kl.cpp -o em_meta_kl.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvn.cpp -o em_mvn.o
em_mvn.cpp: In member function 'int em_gaussian::build(const int*, double*, int*)':
em_mvn.cpp:722:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvt.cpp -o em_mvt.o
em_mvt.cpp: In member function 'int em_mvt::t_step()':
em_mvt.cpp:522:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_mvt.cpp: In member function 'int em_mvt::build(const int*, double*, int*)':
em_mvt.cpp:772:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c em_mvt2.cpp -o em_mvt2.o
em_mvt2.cpp: In member function 'int em_mvt2::t_step()':
em_mvt2.cpp:509:9: warning: variable 'minNk' set but not used [-Wunused-but-set-variable]
double minNk = T_sum;
^
em_mvt2.cpp: In member function 'int em_mvt2::build(const int*, double*, int*)':
em_mvt2.cpp:806:13: warning: variable 'maxClust' set but not used [-Wunused-but-set-variable]
int maxClust = -1;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hc_meta.cpp -o hc_meta.o
hc_meta.cpp: In member function 'int mvn_dendro::mahalanobis_w(int*, int*, double*)':
hc_meta.cpp:814:16: warning: variable 'S_i' set but not used [-Wunused-but-set-variable]
const double *S_i, *S_j;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c hc_mvn.cpp -o hc_mvn.o
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=core2 -c immunoClust.c -o immunoClust.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c meta_norm.cpp -o meta_norm.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c meta_scale.cpp -o meta_scale.o
meta_scale.cpp: In member function 'void meta_scale::quantile()':
meta_scale.cpp:846:10: warning: variable 'w' set but not used [-Wunused-but-set-variable]
double *w, *m, *s;
^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c normalize.cpp -o normalize.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c sub_mvn.cpp -o sub_mvn.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c util.cpp -o util.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c vs_htrans.cpp -o vs_htrans.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o immunoClust.dll tmp.def R_meta.o R_model.o dist_mvn.o em_meta.o em_meta_bc.o em_meta_kl.o em_mvn.o em_mvt.o em_mvt2.o hc_meta.o hc_mvn.o immunoClust.o meta_norm.o meta_scale.o normalize.o sub_mvn.o util.o vs_htrans.o -L/x64/lib -lgsl -lgslcblas -lm -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/immunoClust.buildbin-libdir/immunoClust/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'immunoClust' as immunoClust_1.18.1.zip
* DONE (immunoClust)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'immunoClust' successfully unpacked and MD5 sums checked