Till Soerensen
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/immunoClust |
| Branch: RELEASE_3_11 |
| Last Commit: a98e9b4 |
| Last Changed Date: 2020-08-12 05:39:36 -0400 (Wed, 12 Aug 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:52 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE immunoClust PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 870/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| immunoClust 1.20.1 Till Soerensen
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |
| Package: immunoClust |
| Version: 1.20.1 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/immunoClust_1.20.1.tar.gz && rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=immunoClust.buildbin-libdir immunoClust_1.20.1.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL immunoClust_1.20.1.zip && rm immunoClust_1.20.1.tar.gz immunoClust_1.20.1.zip |
| StartedAt: 2020-10-16 19:04:22 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 19:06:03 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 101.5 seconds |
| RetCode: 0 |
| Status: OK |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/immunoClust_1.20.1.tar.gz && rm -rf immunoClust.buildbin-libdir && mkdir immunoClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=immunoClust.buildbin-libdir immunoClust_1.20.1.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL immunoClust_1.20.1.zip && rm immunoClust_1.20.1.tar.gz immunoClust_1.20.1.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 449k 100 449k 0 0 7733k 0 --:--:-- --:--:-- --:--:-- 8643k
install for i386
* installing *source* package 'immunoClust' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_meta.cpp -o R_meta.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_model.cpp -o R_model.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dist_mvn.cpp -o dist_mvn.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_meta.cpp -o em_meta.o
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:697:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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:237:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
em_meta_bc.cpp: In member function 'double em_meta::bc_fixedN_et_step()':
em_meta_bc.cpp:523:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_meta_kl.cpp -o em_meta_kl.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvn.cpp -o em_mvn.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvt.cpp -o em_mvt.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvt2.cpp -o em_mvt2.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hc_meta.cpp -o hc_meta.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hc_mvn.cpp -o hc_mvn.o
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c immunoClust.c -o immunoClust.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c meta_norm.cpp -o meta_norm.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c meta_scale.cpp -o meta_scale.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c normalize.cpp -o normalize.o
normalize.cpp: In member function 'int normalize::scale_X(int, int)':
normalize.cpp:272:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:275:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
normalize.cpp: In member function 'int normalize::linear_Y(int, int)':
normalize.cpp:377:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:380:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
normalize.cpp: In member function 'int normalize::scale_Y(int, int)':
normalize.cpp:458:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:461:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sub_mvn.cpp -o sub_mvn.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c util.cpp -o util.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/i386/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c vs_htrans.cpp -o vs_htrans.o
C:/rtools40/mingw32/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-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-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:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_meta.cpp -o R_meta.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c R_model.cpp -o R_model.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c dist_mvn.cpp -o dist_mvn.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_meta.cpp -o em_meta.o
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:697:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -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:237:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
em_meta_bc.cpp: In member function 'double em_meta::bc_fixedN_et_step()':
em_meta_bc.cpp:523:16: warning: variable 'maxLike' set but not used [-Wunused-but-set-variable]
double maxLike = 0.0;
^~~~~~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_meta_kl.cpp -o em_meta_kl.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvn.cpp -o em_mvn.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvt.cpp -o em_mvt.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c em_mvt2.cpp -o em_mvt2.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hc_meta.cpp -o hc_meta.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c hc_mvn.cpp -o hc_mvn.o
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c immunoClust.c -o immunoClust.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c meta_norm.cpp -o meta_norm.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c meta_scale.cpp -o meta_scale.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c normalize.cpp -o normalize.o
normalize.cpp: In member function 'int normalize::scale_X(int, int)':
normalize.cpp:272:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:275:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
normalize.cpp: In member function 'int normalize::linear_Y(int, int)':
normalize.cpp:377:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:380:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
normalize.cpp: In member function 'int normalize::scale_Y(int, int)':
normalize.cpp:458:5: warning: this 'if' clause does not guard... [-Wmisleading-indentation]
if( L < COEFF )
^~
normalize.cpp:461:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if'
int k, j, p;
^~~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c sub_mvn.cpp -o sub_mvn.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c util.cpp -o util.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I/src/include -I/x64/include -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c vs_htrans.cpp -o vs_htrans.o
C:/rtools40/mingw64/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-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/immunoClust.buildbin-libdir/immunoClust/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'immunoClust' as immunoClust_1.20.1.zip
* DONE (immunoClust)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'immunoClust' successfully unpacked and MD5 sums checked