zlibbioc 0.1.6
Biocore Team c/o BioC user list
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/zlibbioc | | Last Changed Rev: 56177 / Revision: 56603 | | Last Changed Date: 2011-06-14 13:27:07 -0700 (Tue, 14 Jun 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | [ WARNINGS ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | OK |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘zlibbioc/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘zlibbioc’ version ‘0.1.6’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... WARNING
Subdirectory ‘zlibbioc/src’ contains object files.
* checking whether package ‘zlibbioc’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
‘/loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/00check.log’
for details
* installing *source* package ‘zlibbioc’ ...
Checking for shared library support...
Building shared library libzbioc.so.1.2.5 with gcc -std=gnu99.
Checking for off64_t... Yes.
Checking for fseeko... Yes.
Checking for unistd.h... Yes.
Using z_ prefix on all symbols.
Checking whether to use vs[n]printf() or s[n]printf()... using vs[n]printf().
Checking for vsnprintf() in stdio.h... Yes.
Checking for return value of vsnprintf()... Yes.
Checking for attribute(visibility) support... Yes.
configure: creating ./config.status
config.status: creating src/Makevars
** libs
mkdir -p "/loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/zlibbioc/include"
make -C zlib-1.2.5 -fMakefile libzbioc.a libzbioc.so.1.2.5
make[1]: Entering directory `/loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/00_pkg_src/zlibbioc/src/zlib-1.2.5'
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o adler32.o adler32.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o compress.o compress.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o crc32.o crc32.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o deflate.o deflate.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o gzclose.o gzclose.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o gzlib.o gzlib.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o gzread.o gzread.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o gzwrite.o gzwrite.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o infback.o infback.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o inffast.o inffast.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o inflate.o inflate.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o inftrees.o inftrees.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o trees.o trees.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o uncompr.o uncompr.c
gcc -std=gnu99 -fpic -D_LARGEFILE64_SOURCE=1 -c -o zutil.o zutil.c
ar rc libzbioc.a adler32.o compress.o crc32.o deflate.o gzclose.o gzlib.o gzread.o gzwrite.o infback.o inffast.o inflate.o inftrees.o trees.o uncompr.o zutil.o
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/adler32.o adler32.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/compress.o compress.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/crc32.o crc32.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/deflate.o deflate.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/gzclose.o gzclose.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/gzlib.o gzlib.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/gzread.o gzread.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/gzwrite.o gzwrite.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/infback.o infback.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/inffast.o inffast.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/inflate.o inflate.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/inftrees.o inftrees.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/trees.o trees.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/uncompr.o uncompr.c
gcc -std=gnu99 -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -DPIC -c -o objs/zutil.o zutil.c
gcc -std=gnu99 -shared -Wl,-soname,libzbioc.so.1,--version-script,zlib.map -fpic -fPIC -D_LARGEFILE64_SOURCE=1 -o libzbioc.so.1.2.5 adler32.lo compress.lo crc32.lo deflate.lo gzclose.lo gzlib.lo gzread.lo gzwrite.lo infback.lo inffast.lo inflate.lo inftrees.lo trees.lo uncompr.lo zutil.lo -lc -L. libzbioc.a
rm -f libzbioc.so libzbioc.so.1
ln -s libzbioc.so.1.2.5 libzbioc.so
ln -s libzbioc.so.1.2.5 libzbioc.so.1
make[1]: Leaving directory `/loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/00_pkg_src/zlibbioc/src/zlib-1.2.5'
cp zlib-1.2.5/libzbioc.* .
cp zlib-1.2.5/zconf.h zlib-1.2.5/zlib.h /loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/zlibbioc/include
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c R_init_zlibbioc.c -o R_init_zlibbioc.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o zlibbioc.so R_init_zlibbioc.o -L/home/biocbuild/bbs-2.9-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.9-bioc/meat/zlibbioc.Rcheck/zlibbioc/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
‘UsingZlibbioc.Rnw’
** testing if installed package can be loaded
* DONE (zlibbioc)