Xiuwen Zheng
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/gdsfmt |
| Branch: RELEASE_3_11 |
| Last Commit: d7f36ce |
| Last Changed Date: 2020-06-15 17:17:43 -0400 (Mon, 15 Jun 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:54:48 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE gdsfmt PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 667/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| gdsfmt 1.24.1 Xiuwen Zheng
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | [ OK ] | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: gdsfmt |
| Version: 1.24.1 |
| Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL gdsfmt |
| StartedAt: 2020-10-16 16:04:46 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 16:08:13 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 207.6 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL gdsfmt ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘gdsfmt’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c R_CoreArray.cpp -o R_CoreArray.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c gdsfmt.cpp -o gdsfmt.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c digest.cpp -o digest.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/CoreArray.cpp -o CoreArray/CoreArray.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dAllocator.cpp -o CoreArray/dAllocator.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dAny.cpp -o CoreArray/dAny.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dBase.cpp -o CoreArray/dBase.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dBitGDS.cpp -o CoreArray/dBitGDS.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dEndian.cpp -o CoreArray/dEndian.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dFile.cpp -o CoreArray/dFile.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dParallel.cpp -o CoreArray/dParallel.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dParallel_Ext.c -o CoreArray/dParallel_Ext.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dPlatform.cpp -o CoreArray/dPlatform.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dRealGDS.cpp -o CoreArray/dRealGDS.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dSerial.cpp -o CoreArray/dSerial.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dStrGDS.cpp -o CoreArray/dStrGDS.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dStream.cpp -o CoreArray/dStream.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dStruct.cpp -o CoreArray/dStruct.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dVLIntGDS.cpp -o CoreArray/dVLIntGDS.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c CoreArray/dSparse.cpp -o CoreArray/dSparse.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/adler32.c -o ZLIB/adler32.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/compress.c -o ZLIB/compress.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/crc32.c -o ZLIB/crc32.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/deflate.c -o ZLIB/deflate.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/infback.c -o ZLIB/infback.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/inffast.c -o ZLIB/inffast.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/inflate.c -o ZLIB/inflate.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/inftrees.c -o ZLIB/inftrees.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/trees.c -o ZLIB/trees.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/uncompr.c -o ZLIB/uncompr.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c ZLIB/zutil.c -o ZLIB/zutil.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c LZ4/lz4.c -o LZ4/lz4.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c LZ4/lz4hc.c -o LZ4/lz4hc.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c LZ4/lz4frame.c -o LZ4/lz4frame.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -DUSING_R -D_FILE_OFFSET_BITS=64 -I../inst/include -ICoreArray -I/usr/local/include -fpic -g -O2 -Wall -c LZ4/xxhash.c -o LZ4/xxhash.o cd XZ && tar -xzf xz-5.2.4.tar.gz cd XZ/xz-5.2.4 && \ ./configure CC="gcc" CPP="gcc -E" CXX="g++ -std=gnu++11" CXXCPP="g++ -std=gnu++11 -E" --build="" \ --with-pic --enable-silent-rules --quiet --disable-xz > /dev/null cd XZ/xz-5.2.4/src/liblzma && make make[1]: Entering directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma' Making all in api make[2]: Entering directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma/api' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma/api' make[2]: Entering directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma' CC liblzma_la-tuklib_physmem.lo CC liblzma_la-tuklib_cpucores.lo CC liblzma_la-common.lo CC liblzma_la-block_util.lo CC liblzma_la-easy_preset.lo CC liblzma_la-filter_common.lo CC liblzma_la-hardware_physmem.lo CC liblzma_la-index.lo CC liblzma_la-stream_flags_common.lo CC liblzma_la-vli_size.lo CC liblzma_la-hardware_cputhreads.lo CC liblzma_la-alone_encoder.lo CC liblzma_la-block_buffer_encoder.lo CC liblzma_la-block_encoder.lo CC liblzma_la-block_header_encoder.lo CC liblzma_la-easy_buffer_encoder.lo CC liblzma_la-easy_encoder.lo CC liblzma_la-easy_encoder_memusage.lo CC liblzma_la-filter_buffer_encoder.lo CC liblzma_la-filter_encoder.lo CC liblzma_la-filter_flags_encoder.lo CC liblzma_la-index_encoder.lo CC liblzma_la-stream_buffer_encoder.lo CC liblzma_la-stream_encoder.lo CC liblzma_la-stream_flags_encoder.lo CC liblzma_la-vli_encoder.lo CC liblzma_la-outqueue.lo CC liblzma_la-stream_encoder_mt.lo CC liblzma_la-alone_decoder.lo CC liblzma_la-auto_decoder.lo CC liblzma_la-block_buffer_decoder.lo CC liblzma_la-block_decoder.lo CC liblzma_la-block_header_decoder.lo CC liblzma_la-easy_decoder_memusage.lo CC liblzma_la-filter_buffer_decoder.lo CC liblzma_la-filter_decoder.lo CC liblzma_la-filter_flags_decoder.lo CC liblzma_la-index_decoder.lo CC liblzma_la-index_hash.lo CC liblzma_la-stream_buffer_decoder.lo CC liblzma_la-stream_decoder.lo CC liblzma_la-stream_flags_decoder.lo CC liblzma_la-vli_decoder.lo CC liblzma_la-check.lo CC liblzma_la-crc32_table.lo CC liblzma_la-crc32_fast.lo CC liblzma_la-crc64_table.lo CC liblzma_la-crc64_fast.lo CC liblzma_la-sha256.lo CC liblzma_la-lz_encoder.lo CC liblzma_la-lz_encoder_mf.lo CC liblzma_la-lz_decoder.lo CC liblzma_la-lzma_encoder_presets.lo CC liblzma_la-lzma_encoder.lo CC liblzma_la-lzma_encoder_optimum_fast.lo CC liblzma_la-lzma_encoder_optimum_normal.lo CC liblzma_la-fastpos_table.lo CC liblzma_la-lzma_decoder.lo CC liblzma_la-lzma2_encoder.lo CC liblzma_la-lzma2_decoder.lo CC liblzma_la-price_table.lo CC liblzma_la-delta_common.lo CC liblzma_la-delta_encoder.lo CC liblzma_la-delta_decoder.lo CC liblzma_la-simple_coder.lo CC liblzma_la-simple_encoder.lo CC liblzma_la-simple_decoder.lo CC liblzma_la-x86.lo CC liblzma_la-powerpc.lo CC liblzma_la-ia64.lo CC liblzma_la-arm.lo CC liblzma_la-armthumb.lo CC liblzma_la-sparc.lo CCLD liblzma.la PC liblzma.pc make[2]: Leaving directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma' make[1]: Leaving directory '/home/biocbuild/bbs-3.11-bioc/meat/gdsfmt/src/XZ/xz-5.2.4/src/liblzma' cp XZ/xz-5.2.4/src/liblzma/.libs/liblzma.a . rm -rf XZ/xz-5.2.4/dos rm -rf XZ/xz-5.2.4/po g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.11-bioc/R/lib -L/usr/local/lib -o gdsfmt.so R_CoreArray.o gdsfmt.o digest.o CoreArray/CoreArray.o CoreArray/dAllocator.o CoreArray/dAny.o CoreArray/dBase.o CoreArray/dBitGDS.o CoreArray/dEndian.o CoreArray/dFile.o CoreArray/dParallel.o CoreArray/dParallel_Ext.o CoreArray/dPlatform.o CoreArray/dRealGDS.o CoreArray/dSerial.o CoreArray/dStrGDS.o CoreArray/dStream.o CoreArray/dStruct.o CoreArray/dVLIntGDS.o CoreArray/dSparse.o ZLIB/adler32.o ZLIB/compress.o ZLIB/crc32.o ZLIB/deflate.o ZLIB/infback.o ZLIB/inffast.o ZLIB/inflate.o ZLIB/inftrees.o ZLIB/trees.o ZLIB/uncompr.o ZLIB/zutil.o LZ4/lz4.o LZ4/lz4hc.o LZ4/lz4frame.o LZ4/xxhash.o ./liblzma.a -lpthread -L/home/biocbuild/bbs-3.11-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.11-bioc/R/library/00LOCK-gdsfmt/00new/gdsfmt/libs ** R ** 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 (gdsfmt)