Pascal Schlosser
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/netboost |
| git_branch: RELEASE_3_13 |
| git_last_commit: daccaa3 |
| git_last_commit_date: 2021-05-19 12:43:54 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:05:47 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the netboost package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/netboost.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1261/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| netboost 2.0.0 (landing page) Pascal Schlosser
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | ... NOT SUPPORTED ... | ||||||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: netboost |
| Version: 2.0.0 |
| Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL netboost |
| StartedAt: 2021-10-14 06:15:43 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 06:16:35 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 52.2 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL netboost ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘netboost’ ... ** using staged installation checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking for x86 cpuid output... unknown checking for x86-AVX xgetbv output... unknown checking for x86 cpuid 0x00000000 output... 16:756e6547:6c65746e:49656e69 checking for x86 cpuid 0x80000000 output... 80000008:0:0:0 checking for x86 cpuid 0x00000001 output... 50657:73400800:7ffefbff:bfebfbff checking for x86 cpuid 0x00000007 output... 0:d39ff7eb:818:bc000400 checking for x86 cpuid 0x80000001 output... 0:0:121:2c100800 checking for x86-AVX xgetbv 0x00000000 output... 2ff:0 checking whether RDRND is supported by the processor... yes checking whether RDRND is supported by the processor and OS... yes checking whether C compiler accepts -mrdrnd... yes checking whether BMI1 is supported by the processor... yes checking whether BMI1 is supported by the processor and OS... yes checking whether C compiler accepts -mbmi... yes checking whether BMI2 is supported by the processor... yes checking whether BMI2 is supported by the processor and OS... yes checking whether C compiler accepts -mbmi2... yes checking whether ADX is supported by the processor... yes checking whether ADX is supported by the processor and OS... yes checking whether C compiler accepts -madx... yes checking whether MPX is supported by the processor... yes checking whether MPX is supported by the processor and OS... yes checking whether C compiler accepts -mmpx... yes checking whether PREFETCHWT1 is supported by the processor... no checking whether ABM is supported by the processor... yes checking whether ABM is supported by the processor and OS... yes checking whether C compiler accepts -mabm... yes checking whether MMX is supported by the processor... yes checking whether MMX is supported by the processor and OS... yes checking whether C compiler accepts -mmmx... yes checking whether SSE is supported by the processor... yes checking whether SSE is supported by the processor and OS... yes checking whether C compiler accepts -msse... yes checking whether SSE2 is supported by the processor... yes checking whether SSE2 is supported by the processor and OS... yes checking whether C compiler accepts -msse2... yes checking whether SSE3 is supported by the processor... yes checking whether SSE3 is supported by the processor and OS... yes checking whether C compiler accepts -msse3... yes checking whether SSSE3 is supported by the processor... yes checking whether SSSE3 is supported by the processor and OS... yes checking whether C compiler accepts -mssse3... yes checking whether SSE4.1 is supported by the processor... yes checking whether SSE4.1 is supported by the processor and OS... yes checking whether C compiler accepts -msse4.1... yes checking whether SSE4.2 is supported by the processor... yes checking whether SSE4.2 is supported by the processor and OS... yes checking whether C compiler accepts -msse4.2... yes checking whether SSE4a is supported by the processor... no checking whether SHA is supported by the processor... no checking whether AES is supported by the processor... yes checking whether AES is supported by the processor and OS... yes checking whether C compiler accepts -maes... yes checking whether AVX is supported by the processor... yes checking whether AVX is supported by the processor and OS... yes checking whether C compiler accepts -mavx... yes checking whether FMA3 is supported by the processor... yes checking whether FMA3 is supported by the processor and OS... yes checking whether C compiler accepts -mfma... yes checking whether FMA4 is supported by the processor... no checking whether XOP is supported by the processor... no checking whether AVX2 is supported by the processor... yes checking whether AVX2 is supported by the processor and OS... yes checking whether C compiler accepts -mavx2... yes checking whether AVX512-F is supported by the processor... yes checking whether AVX512-F is supported by the processor and OS... yes checking whether C compiler accepts -mavx512f... yes checking whether AVX512-CD is supported by the processor... yes checking whether AVX512-CD is supported by the processor and OS... yes checking whether C compiler accepts -mavx512cd... yes checking whether AVX512-PF is supported by the processor... no checking whether AVX512-ER is supported by the processor... no checking whether AVX512-VL is supported by the processor... yes checking whether AVX512-VL is supported by the processor and OS... yes checking whether C compiler accepts -mavx512vl... yes checking whether AVX512-BW is supported by the processor... yes checking whether AVX512-BW is supported by the processor and OS... yes checking whether C compiler accepts -mavx512bw... yes checking whether AVX512-DQ is supported by the processor... yes checking whether AVX512-DQ is supported by the processor and OS... yes checking whether C compiler accepts -mavx512dq... yes checking whether AVX512-IFMA is supported by the processor... no checking whether AVX512-VBMI is supported by the processor... no checking whether C compiler accepts -Wno-deprecated... yes checking for strip... strip checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/mcupgma/clustering_util/Makefile config.status: creating src/config.h config.status: executing depfiles commands ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppParallel/include' -I/usr/local/include `/home/biocbuild/bbs-3.13-bioc/R/bin/Rscript -e "Rcpp:::CxxFlags()"` -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppParallel/include' -I/usr/local/include `/home/biocbuild/bbs-3.13-bioc/R/bin/Rscript -e "Rcpp:::CxxFlags()"` -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -fpic -g -O2 -Wall -c boosting.cpp -o boosting.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppParallel/include' -I/usr/local/include `/home/biocbuild/bbs-3.13-bioc/R/bin/Rscript -e "Rcpp:::CxxFlags()"` -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -fpic -g -O2 -Wall -c dist_tom.cpp -o dist_tom.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.13-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.13-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.13-bioc/R/library/RcppParallel/include' -I/usr/local/include `/home/biocbuild/bbs-3.13-bioc/R/bin/Rscript -e "Rcpp:::CxxFlags()"` -mmmx -msse -msse2 -msse3 -mssse3 -msse4.1 -msse4.2 -maes -mavx -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -fpic -g -O2 -Wall -c tree_sort.cpp -o tree_sort.o g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.13-bioc/R/lib -L/usr/local/lib -o netboost.so RcppExports.o boosting.o dist_tom.o tree_sort.o -L/home/biocbuild/bbs-3.13-bioc/R/lib -lR strip -S netboost.so installing via 'install.libs.R' to /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost [1] "R_PACKAGE_SRC: /home/biocbuild/bbs-3.13-bioc/meat/netboost" [1] "R_PACKAGE_DIR: /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost" [1] "R_ARCH: " [1] "SHLIB_EXT: .so" [1] "INSTALL PATH: /home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/scripts/install_path.mk" make: Entering directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma' Clean build. make: Leaving directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma' make: Entering directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma' ==== compiling clustering_util sources using external Makefile (clustering_util/Makefile) recursively make -C clustering_util -f Makefile mcupgma_install make[1]: Entering directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_util' mkdir -p bin mkdir -p obj.x86_64_Linux g++ -Wall -Wno-deprecated -O3 -DNDEBUG -c -o obj.x86_64_Linux/HashingMergerMain.cmdline.o HashingMergerMain.cmdline.c g++ -Wall -Wno-deprecated -O3 -DNDEBUG -Wall -Wno-deprecated -O3 -DNDEBUG -c -o obj.x86_64_Linux/ClusteringUtil.o ClusteringUtil.cpp g++ -Wall -Wno-deprecated -O3 -DNDEBUG -Wall -Wno-deprecated -O3 -DNDEBUG -c -o obj.x86_64_Linux/Tree.o Tree.cpp g++ -Wall -Wno-deprecated -O3 -DNDEBUG -o bin/edges2valid_clusters HashingMergerMain.cpp obj.x86_64_Linux/HashingMergerMain.cmdline.o obj.x86_64_Linux/ClusteringUtil.o obj.x86_64_Linux/Tree.o g++ -Wall -Wno-deprecated -O3 -DNDEBUG -c -o obj.x86_64_Linux/EdgeCollatorMain.cmdline.o EdgeCollatorMain.cmdline.c g++ -Wall -Wno-deprecated -O3 -DNDEBUG -o bin/edge_collator EdgeCollatorMain.cpp obj.x86_64_Linux/EdgeCollatorMain.cmdline.o obj.x86_64_Linux/ClusteringUtil.o obj.x86_64_Linux/Tree.o make[1]: Leaving directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_util' ==== compiling sources using external Makefile (clustering_round/Makefile) recursively make -C clustering_round -f Makefile make[1]: Entering directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_round' mkdir -p dep.x86_64_Linux test -d dep.x86_64_Linux && g++ -MM -MT 'dep.x86_64_Linux/HierarchicalClustering_main.d obj.x86_64_Linux/HierarchicalClustering_main.o obj.x86_64_Linux.debug/HierarchicalClustering_main.o' -O3 -ftemplate-depth-64 -I./ HierarchicalClustering_main.cpp > dep.x86_64_Linux/HierarchicalClustering_main.d test -d dep.x86_64_Linux && g++ -MM -MT 'dep.x86_64_Linux/test_heap.d obj.x86_64_Linux/test_heap.o obj.x86_64_Linux.debug/test_heap.o' -O3 -ftemplate-depth-64 -I./ test_heap.cpp > dep.x86_64_Linux/test_heap.d test -d dep.x86_64_Linux && g++ -MM -MT 'dep.x86_64_Linux/HierarchicalClustering_with_unknown_edges.d obj.x86_64_Linux/HierarchicalClustering_with_unknown_edges.o obj.x86_64_Linux.debug/HierarchicalClustering_with_unknown_edges.o' -O3 -ftemplate-depth-64 -I./ HierarchicalClustering_with_unknown_edges.cpp > dep.x86_64_Linux/HierarchicalClustering_with_unknown_edges.d test -d dep.x86_64_Linux && g++ -MM -MT 'dep.x86_64_Linux/HierarchicalClustering_main.d obj.x86_64_Linux/HierarchicalClustering_main.o obj.x86_64_Linux.debug/HierarchicalClustering_main.o' -O3 -ftemplate-depth-64 -I./ HierarchicalClustering_main.cpp > dep.x86_64_Linux/HierarchicalClustering_main.d test -d dep.x86_64_Linux && g++ -MM -MT 'dep.x86_64_Linux/test_heap.d obj.x86_64_Linux/test_heap.o obj.x86_64_Linux.debug/test_heap.o' -O3 -ftemplate-depth-64 -I./ test_heap.cpp > dep.x86_64_Linux/test_heap.d mkdir -p obj.x86_64_Linux mkdir -p bin g++ -O3 -ftemplate-depth-64 -I./ -c HierarchicalClustering_main.cpp -o obj.x86_64_Linux/HierarchicalClustering_main.o cc -O3 -I./ -c HierarchicalClustering_main.cmdline.c -o obj.x86_64_Linux/HierarchicalClustering_main.cmdline.o g++ -O3 -ftemplate-depth-64 -I./ -c HierarchicalClustering_with_unknown_edges.cpp -o obj.x86_64_Linux/HierarchicalClustering_with_unknown_edges.o g++ obj.x86_64_Linux/HierarchicalClustering_main.o obj.x86_64_Linux/HierarchicalClustering_main.cmdline.o obj.x86_64_Linux/HierarchicalClustering_with_unknown_edges.o -o bin/hierarchical_clustering -O3 g++ -O3 -ftemplate-depth-64 -I./ -c test_heap.cpp -o obj.x86_64_Linux/test_heap.o cc -O3 -I./ -c test_heap.cmdline.c -o obj.x86_64_Linux/test_heap.cmdline.o g++ obj.x86_64_Linux/test_heap.o obj.x86_64_Linux/test_heap.cmdline.o -o bin/test_heap -O3 make[1]: Leaving directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_round' make: Leaving directory '/home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma' [1] "SRC: /home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma" [1] "DEST: /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost/mcupgma" [1] "INSTALL FROM: /home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_round/bin TO: /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost/mcupgma" [1] "INSTALL FROM: /home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/clustering_util/bin TO: /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost/mcupgma" [1] "INSTALL FROM: /home/biocbuild/bbs-3.13-bioc/meat/netboost/src/mcupgma/scripts TO: /home/biocbuild/bbs-3.13-bioc/R/library/00LOCK-netboost/00new/netboost/mcupgma" [1] "netboost.so" ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (netboost)