Hello, I get the following errors when I try to install flowClust on Mac OS X 10.5.6 with R 2.8. I installed gsl using Macports (located in /opt/loca/lib) and set my library path accordingly noah@insight~> echo $LD_LIBRARY_PATH /opt/local/lib: Any advice? Best, Noah Installing directly from bioconductor: > source("http://bioconductor.org/biocLite.R") > biocLite("flowClust") Running biocinstall version 2.3.13 with R version 2.8.0 Your version of R requires version 2.3 of Bioconductor. trying URL 'http://bioconductor.org/packages/2.3/bioc/bin/macosx/universal/contrib/2.8/flowClust_1.8.1.tgz' Content type 'application/x-gzip' length 423564 bytes (413 Kb) opened URL ================================================== downloaded 413 Kb The downloaded packages are in /var/folders/vO/vOrIx2YWEoG2aXlhfq7ZpE+++TI/-Tmp-//RtmpLadWOr/ downloaded_packages > library(flowClust) Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared library '/Library/Frameworks/R.framework/ Resources/library/flowClust/libs/i386/flowClust.so': dlopen(/Library/Frameworks/R.framework/Resources/library/flowClust/ libs/i386/flowClust.so, 6): Library not loaded: /usr/local/lib/libgsl. 0.dylib Referenced from: /Library/Frameworks/R.framework/Resources/library/ flowClust/libs/i386/flowClust.so Reason: image not found In addition: Warning message: package 'flowClust' was built under R version 2.8.1 Error: package/namespace load failed for 'flowClust' Trying to install from source (note: I had to modify the Makevars file to point to my gsl installation): noah@insight~/Desktop/installfail> R CMD BUILD flowClust/ * checking for file 'flowClust/DESCRIPTION' ... OK * preparing 'flowClust': * checking DESCRIPTION meta-information ... OK * cleaning src * running cleanup * installing the package to re-build vignettes * Installing *source* package 'flowClust' ... checking for gcc... gcc -arch i386 -std=gnu99 checking for C compiler default output file name... rm: a.out.dSYM: is a directory a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -arch i386 -std=gnu99 accepts -g... yes checking for gcc -arch i386 -std=gnu99 option to accept ISO C89... none needed checking for gsl-config... /opt/local/bin/gsl-config checking for GSL - version >= 1.6... yes configure: creating ./config.status config.status: creating src/Makevars ** libs ** arch - i386 gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/ include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/ opt/local/include -I/usr/local/include -fPIC -g -O2 -c BoxCox.c -o BoxCox.o gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/ include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/ opt/local/include -I/usr/local/include -fPIC -g -O2 -c flowClust.c -o flowClust.o gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/ include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/ opt/local/include -I/usr/local/include -fPIC -g -O2 -c ranMVNT.c - o ranMVNT.o gcc -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -mmacosx-version-min=10.4 -undefined dynamic_lookup -single_module - multiply_defined suppress -L/usr/local/lib -o flowClust.so BoxCox.o flowClust.o ranMVNT.o -L/opt/local/lib -F/Library/Frameworks/ R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation ** R ** data ** inst ** preparing package for lazy loading Loading required package: mnormt Loading required package: mclust by using mclust, you accept the license agreement in the LICENSE file and at http://www.stat.washington.edu/mclust/license.txt Loading required package: ellipse Loading required package: flowCore Loading required package: rrcov Loading required package: robustbase Scalable Robust Estimators with High Breakdown Point (version 0.4-07) Loading required package: feature Loading required package: KernSmooth KernSmooth 2.22 installed Copyright M. P. Wand 1997 Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Attaching package: 'flowCore' The following object(s) are masked from package:stats : alias, filter ** help >>> Building/Updating help pages for package 'flowClust' Formats: text html latex example Map text html latex example SimulateMixture text html latex example Subset text html latex box text html latex example density text html latex example dmvt text html latex flowClust-internal text html latex flowClust-package text html latex flowClust text html latex example hist text html latex example plot.flowClust text html latex example plot.flowCore text html latex plot.flowDens text html latex posterior text html latex example rbox text html latex rituximab text html latex ruleOutliers text html latex example show.flowClust text html latex show.tmixFilter text html latex split text html latex summary text html latex tmixFilter text html latex example ** building package indices ... * DONE (flowClust) * creating vignettes ... ERROR Loading required package: mnormt Loading required package: mclust Loading required package: ellipse Loading required package: flowCore Loading required package: rrcov Loading required package: robustbase Loading required package: feature Loading required package: KernSmooth KernSmooth 2.22 installed Copyright M. P. Wand 1997 Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material. To view, type 'openVignette()'. To cite Bioconductor, see 'citation("Biobase")' and for packages 'citation(pkgname)'. Attaching package: 'flowCore' The following object(s) are masked from package:stats : alias, filter Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared library '/var/folders/vO/ vOrIx2YWEoG2aXlhfq7ZpE+++TI/-Tmp-//Rinst2151656065/flowClust/libs/i386/ flowClust.so': dlopen(/var/folders/vO/vOrIx2YWEoG2aXlhfq7ZpE+++TI/-Tmp-// Rinst2151656065/flowClust/libs/i386/flowClust.so, 6): Symbol not found: _gsl_root_fsolver_brent Referenced from: /var/folders/vO/vOrIx2YWEoG2aXlhfq7ZpE+++TI/-Tmp-// Rinst2151656065/flowClust/libs/i386/flowClust.so Expected in: dynamic lookup Error: processing vignette 'flowClust.Rnw' failed with diagnostics: chunk 1 (label=stage0) Error : package/namespace load failed for 'flowClust' Execution halted [[alternative HTML version deleted]]