BioC 3.2: INSTALL report for rhdf5 on moscato1

Package: rhdf5

Version: 2.14.0

Command: rm -rf rhdf5.buildbin-libdir && mkdir rhdf5.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/rhdf5_2.14.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=rhdf5.buildbin-libdir --merge-multiarch rhdf5_2.14.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL rhdf5_2.14.0.zip && rm rhdf5_2.14.0.tar.gz rhdf5_2.14.0.zip

StartedAt: 2016-04-22 18:01:36 -0700 (Fri, 22 Apr 2016)

EndedAt: 2016-04-22 18:06:22 -0700 (Fri, 22 Apr 2016)

EllapsedTime: 286.6 seconds

RetCode: 0

Status:  OK

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### Running command:
###
###   rm -rf rhdf5.buildbin-libdir && mkdir rhdf5.buildbin-libdir  && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/rhdf5_2.14.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=rhdf5.buildbin-libdir --merge-multiarch rhdf5_2.14.0.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL rhdf5_2.14.0.zip  && rm rhdf5_2.14.0.tar.gz rhdf5_2.14.0.zip
###
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100 5128k  100 5128k    0     0  99.0M      0 --:--:-- --:--:-- --:--:--  106M

install for i386

* installing *source* package 'rhdf5' ...
** libs
cp includeWin/i386/* includeWin/
cp libwin/i386/*.dll .
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5.c -o H5.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5A.c -o H5A.o
H5A.c: In function 'H5Aread_helper_INTEGER':
H5A.c:153:10: warning: unused variable 'herr' [-Wunused-variable]
H5A.c: In function 'H5Aread_helper_FLOAT':
H5A.c:186:10: warning: unused variable 'herr' [-Wunused-variable]
H5A.c: In function 'H5Aread_helper_STRING':
H5A.c:213:12: warning: unused variable 'herr' [-Wunused-variable]
H5A.c:220:12: warning: unused variable 'herr' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5D.c -o H5D.o
H5D.c: In function 'H5Dread_helper_INTEGER':
H5D.c:220:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:217:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:232:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c:268:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:265:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:273:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_FLOAT':
H5D.c:438:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:435:12: warning: unused variable 'status' [-Wunused-variable]
H5D.c:450:10: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_STRING':
H5D.c:471:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:468:12: warning: unused variable 'status' [-Wunused-variable]
H5D.c:479:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c:490:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_ENUM':
H5D.c:525:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:536:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:533:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:550:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_ARRAY':
H5D.c:601:13: warning: unused variable 'status' [-Wunused-variable]
H5D.c:598:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:623:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_COMPOUND':
H5D.c:656:9: warning: unused variable 'mem_type_id' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_INTEGER':
H5D.c:385:60: warning: 'intbuf' may be used uninitialized in this function [-Wuninitialized]
H5D.c:267:32: warning: 'dtypeNative' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5E.c -o H5E.o
H5E.c: In function 'custom_print_cb':
H5E.c:76:3: warning: label 'Rf_error' defined but not used [-Wunused-label]
H5E.c: In function 'custom_print_cb_compact':
H5E.c:112:3: warning: label 'Rf_error' defined but not used [-Wunused-label]
H5E.c:87:16: warning: unused variable 'indent' [-Wunused-variable]
H5E.c: In function '_rhdf5PrintErrorR':
H5E.c:121:12: warning: unused variable 'eee' [-Wunused-variable]
H5E.c: In function '_rhdf5PrintErrorRcompact':
H5E.c:153:12: warning: unused variable 'eee' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5F.c -o H5F.o
H5F.c: In function '_H5Fget_name':
H5F.c:110:5: warning: passing argument 2 of 'H5Fget_name' from incompatible pointer type [enabled by default]
includeWin/H5Fpublic.h:174:16: note: expected 'char *' but argument is of type 'char (*)[(unsigned int)((int)size + 1)]'
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5G.c -o H5G.o
H5G.c: In function '_H5Gget_info':
H5G.c:66:10: warning: unused variable 'herr' [-Wunused-variable]
H5G.c: In function '_H5Gget_info_by_name':
H5G.c:113:10: warning: unused variable 'herr' [-Wunused-variable]
H5G.c: In function '_H5Gget_info_by_idx':
H5G.c:163:10: warning: unused variable 'herr' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5I.c -o H5I.o
H5I.c: In function '_H5Iget_name':
H5I.c:24:3: warning: passing argument 2 of 'H5Iget_name' from incompatible pointer type [enabled by default]
includeWin/H5Ipublic.h:85:16: note: expected 'char *' but argument is of type 'char (*)[(unsigned int)((int)st + 1)]'
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5L.c -o H5L.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5O.c -o H5O.o
H5O.c: In function 'H5Oget_num_attrs':
H5O.c:13:10: warning: unused variable 'herr' [-Wunused-variable]
H5O.c: In function '_H5Oopen':
H5O.c:56:3: warning: implicit declaration of function 'addHandle' [-Wimplicit-function-declaration]
H5O.c: In function '_H5Oclose':
H5O.c:69:5: warning: implicit declaration of function 'removeHandle' [-Wimplicit-function-declaration]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5P.c -o H5P.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5S.c -o H5S.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5T.c -o H5T.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c H5constants.c -o H5constants.o
g++ -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -mtune=core2 -c HandleList.cpp -o HandleList.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c h5dump.c -o h5dump.o
h5dump.c: In function 'opAddToLinfoTree':
h5dump.c:85:3: warning: implicit declaration of function 'H5Oget_num_attrs' [-Wimplicit-function-declaration]
h5dump.c:114:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5dump.c:116:8: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5dump.c:124:2: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5dump.c:126:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5dump.c: In function '_h5dump':
h5dump.c:314:10: warning: unused variable 'herr' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c h5ls.c -o h5ls.o
h5ls.c: In function 'opAddToLinfoList':
h5ls.c:99:2: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5ls.c:101:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5ls.c:109:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5ls.c:111:6: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c h5writeDataFrame.c -o h5writeDataFrame.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c printdatatype.c -o printdatatype.o
printdatatype.c: In function 'getDatatypeName':
printdatatype.c:21:16: warning: variable 'sign_s' set but not used [-Wunused-but-set-variable]
printdatatype.c:19:16: warning: variable 'order_s' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O3 -Wall  -std=gnu99 -mtune=core2 -c wrap.c -o wrap.o
C:\Rtools33\gcc-4.6.3\bin\nm.exe: 'libhdf5ForBioC': No such file
g++ -m32 -shared -s -static-libgcc -o rhdf5.dll tmp.def H5.o H5A.o H5D.o H5E.o H5F.o H5G.o H5I.o H5L.o H5O.o H5P.o H5S.o H5T.o H5constants.o HandleList.o h5dump.o h5ls.o h5writeDataFrame.o printdatatype.o wrap.o -llibhdf5ForBioC-7 -LD:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -llibsz-2 -lm -L. -Ld:/RCompile/r-compiling/local/local323/lib/i386 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/rhdf5.buildbin-libdir/rhdf5/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'rhdf5' ...
** libs
cp includeWin/x64/* includeWin/
cp libwin/x64/*.dll .
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5.c -o H5.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5A.c -o H5A.o
H5A.c: In function 'H5Aread_helper_INTEGER':
H5A.c:153:10: warning: unused variable 'herr' [-Wunused-variable]
H5A.c: In function 'H5Aread_helper_FLOAT':
H5A.c:186:10: warning: unused variable 'herr' [-Wunused-variable]
H5A.c: In function 'H5Aread_helper_STRING':
H5A.c:213:12: warning: unused variable 'herr' [-Wunused-variable]
H5A.c:220:12: warning: unused variable 'herr' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5D.c -o H5D.o
H5D.c: In function 'H5Dread_helper_INTEGER':
H5D.c:220:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:217:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:232:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c:268:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:265:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:273:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_FLOAT':
H5D.c:438:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:435:12: warning: unused variable 'status' [-Wunused-variable]
H5D.c:450:10: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_STRING':
H5D.c:471:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:468:12: warning: unused variable 'status' [-Wunused-variable]
H5D.c:479:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c:490:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_ENUM':
H5D.c:525:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:536:9: warning: unused variable 'status' [-Wunused-variable]
H5D.c:533:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:550:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_ARRAY':
H5D.c:601:13: warning: unused variable 'status' [-Wunused-variable]
H5D.c:598:14: warning: unused variable 'status' [-Wunused-variable]
H5D.c:623:12: warning: unused variable 'herr' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_COMPOUND':
H5D.c:656:9: warning: unused variable 'mem_type_id' [-Wunused-variable]
H5D.c: In function 'H5Dread_helper_INTEGER':
H5D.c:385:60: warning: 'intbuf' may be used uninitialized in this function [-Wuninitialized]
H5D.c:267:32: warning: 'dtypeNative' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5E.c -o H5E.o
H5E.c: In function 'custom_print_cb':
H5E.c:76:3: warning: label 'Rf_error' defined but not used [-Wunused-label]
H5E.c: In function 'custom_print_cb_compact':
H5E.c:112:3: warning: label 'Rf_error' defined but not used [-Wunused-label]
H5E.c:87:16: warning: unused variable 'indent' [-Wunused-variable]
H5E.c: In function '_rhdf5PrintErrorR':
H5E.c:121:12: warning: unused variable 'eee' [-Wunused-variable]
H5E.c: In function '_rhdf5PrintErrorRcompact':
H5E.c:153:12: warning: unused variable 'eee' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5F.c -o H5F.o
H5F.c: In function '_H5Fget_name':
H5F.c:110:5: warning: passing argument 2 of 'H5Fget_name' from incompatible pointer type [enabled by default]
includeWin/H5Fpublic.h:174:16: note: expected 'char *' but argument is of type 'char (*)[(long long unsigned int)(size + 1)]'
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5G.c -o H5G.o
H5G.c: In function '_H5Gget_info':
H5G.c:66:10: warning: unused variable 'herr' [-Wunused-variable]
H5G.c: In function '_H5Gget_info_by_name':
H5G.c:113:10: warning: unused variable 'herr' [-Wunused-variable]
H5G.c: In function '_H5Gget_info_by_idx':
H5G.c:163:10: warning: unused variable 'herr' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5I.c -o H5I.o
H5I.c: In function '_H5Iget_name':
H5I.c:24:3: warning: passing argument 2 of 'H5Iget_name' from incompatible pointer type [enabled by default]
includeWin/H5Ipublic.h:85:16: note: expected 'char *' but argument is of type 'char (*)[(long long unsigned int)(st + 1)]'
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5L.c -o H5L.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5O.c -o H5O.o
H5O.c: In function 'H5Oget_num_attrs':
H5O.c:13:10: warning: unused variable 'herr' [-Wunused-variable]
H5O.c: In function '_H5Oopen':
H5O.c:56:3: warning: implicit declaration of function 'addHandle' [-Wimplicit-function-declaration]
H5O.c: In function '_H5Oclose':
H5O.c:69:5: warning: implicit declaration of function 'removeHandle' [-Wimplicit-function-declaration]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5P.c -o H5P.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5S.c -o H5S.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5T.c -o H5T.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c H5constants.c -o H5constants.o
g++ -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -mtune=core2 -c HandleList.cpp -o HandleList.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c h5dump.c -o h5dump.o
h5dump.c: In function 'opAddToLinfoTree':
h5dump.c:85:3: warning: implicit declaration of function 'H5Oget_num_attrs' [-Wimplicit-function-declaration]
h5dump.c:114:7: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5dump.c:116:8: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5dump.c:124:2: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5dump.c:126:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5dump.c: In function '_h5dump':
h5dump.c:314:10: warning: unused variable 'herr' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c h5ls.c -o h5ls.o
h5ls.c: In function 'opAddToLinfoList':
h5ls.c:99:2: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5ls.c:101:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
h5ls.c:109:4: warning: format '%lu' expects argument of type 'long unsigned int', but argument 3 has type 'hsize_t' [-Wformat]
h5ls.c:111:6: warning: format '%lu' expects argument of type 'long unsigned int', but argument 4 has type 'hsize_t' [-Wformat]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c h5writeDataFrame.c -o h5writeDataFrame.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c printdatatype.c -o printdatatype.o
printdatatype.c: In function 'getDatatypeName':
printdatatype.c:21:16: warning: variable 'sign_s' set but not used [-Wunused-but-set-variable]
printdatatype.c:19:16: warning: variable 'order_s' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local323/include"  -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -IincludeWin -DWINDOWS   -O2 -Wall  -std=gnu99 -mtune=core2 -c wrap.c -o wrap.o
C:\Rtools33\gcc-4.6.3\bin\nm.exe: 'libhdf5ForBioC': No such file
g++ -m64 -shared -s -static-libgcc -o rhdf5.dll tmp.def H5.o H5A.o H5D.o H5E.o H5F.o H5G.o H5I.o H5L.o H5O.o H5P.o H5S.o H5T.o H5constants.o HandleList.o h5dump.o h5ls.o h5writeDataFrame.o printdatatype.o wrap.o -llibhdf5ForBioC-7 -LD:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -llibsz-2 -lm -L. -Ld:/RCompile/r-compiling/local/local323/lib/x64 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/rhdf5.buildbin-libdir/rhdf5/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rhdf5' as rhdf5_2.14.0.zip
* DONE (rhdf5)
* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
package 'rhdf5' successfully unpacked and MD5 sums checked