[Rd] R CMD build wiped my computer

From: Jarrod Hadfield <j.hadfield_at_ed.ac.uk>
Date: Tue, 27 Jul 2010 21:37:09 +0100


Hi,

I ran R (version 2.9.0) CMD build under root in Fedora (9). When it tried to remove "junk files" it removed EVERYTHING in my local account! (See below).

Can anyone tell me what happened, and even more importantly if I can I restore what was lost.

Panickingly,

Jarrod

[jarrod_at_localhost AManal]$ R CMD build MCMCglmm_2.05

* checking for file 'MCMCglmm_2.05/DESCRIPTION' ... OK
* preparing 'MCMCglmm_2.05':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package ?MCMCglmm? ...
** libs

g++ -m64 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe
-Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -c MCMCglmm.cc -o
MCMCglmm.o
MCMCglmm.cc: In function ?void MCMCglmm(double*, double*, double*,
int*, int*, int*, int*, int*, int*, double*, int*, int*, double*,  
int*, int*, double*, double*, int*, int*, int*, int*, int*, int*,  
int*, int*, int*, int*, double*, double*, double*, int*, int*, int*,  
int*, double*, double*, double*, int*, double*, bool*, double*,  
double*, int*, int*, int*, int*, int*, double*, int*, int*, int*,  
double*, double*, double*, int*, int*, double*, int*, int*, int*, int*, double*, double*, double*, double*)?:
MCMCglmm.cc:228: warning: ?pvLS? may be used uninitialized in this function
MCMCglmm.cc:227: warning: ?pvLL? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?Lrv? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?pmuL? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?pvL? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?LambdaX? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?bv_tmp? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?bv? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?A? may be used uninitialized in this function
MCMCglmm.cc:86: warning: ?dimG? may be used uninitialized in this function
MCMCglmm.cc:228: warning: ?AlphainvS? may be used uninitialized in  
this function
MCMCglmm.cc:227: warning: ?AlphainvL? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphalocation_tmp? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphalocation? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphazstar? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphapred? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphaastar? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?muAlpha? may be used uninitialized in this function MCMCglmm.cc:225: warning: ?Alphainv? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?tXalpha? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?Xalpha? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?linky_orig? may be used uninitialized in  
this function
MCMCglmm.cc:228: warning: ?tYKrinvYS? may be used uninitialized in this function
MCMCglmm.cc:228: warning: ?LambdaS? may be used uninitialized in this function MCMCglmm.cc:227: warning: ?tYKrinvYL? may be used uninitialized in this function
MCMCglmm.cc:227: warning: ?LambdaLU? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?tYKrinvY? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?tYKrinv? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?ILY? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?tY? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?Y? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?I? may be used uninitialized in this function
MCMCglmm.cc:228: warning: ?alphaS? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphaMME? may be used uninitialized in this  
function
MCMCglmm.cc:225: warning: ?alphaM? may be used uninitialized in this function MCMCglmm.cc:225: warning: ?XtmKRinv? may be used uninitialized in this function
MCMCglmm.cc:227: warning: ?alphaL? may be used uninitialized in this function
MCMCglmm.cc:227: warning: ?L? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?alphaastar_tmp? may be used uninitialized  
in this function
MCMCglmm.cc:225: warning: ?dev? may be used uninitialized in this function MCMCglmm.cc:225: warning: ?astar_tmp? may be used uninitialized in this function
MCMCglmm.cc:225: warning: ?Worig? may be used uninitialized in this function gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_add.c -o cs_add.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_addR.c -o cs_addR.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_amd.c -o cs_amd.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_cbind.c -o cs_cbind.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_chol.c -o cs_chol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_cholsol.c -o cs_cholsol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_compress.c -o cs_compress.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_counts.c -o cs_counts.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_cov2cor.c -o cs_cov2cor.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_cumsum.c -o cs_cumsum.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dcmvnorm.c -o cs_dcmvnorm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dfs.c -o cs_dfs.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_directsum.c -o cs_directsum.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_directsumupdate.c -o cs_directsumupdate.o gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dmperm.c -o cs_dmperm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dmvnorm.c -o cs_dmvnorm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_droptol.c -o cs_droptol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dropzeros.c -o cs_dropzeros.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_dupl.c -o cs_dupl.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_entry.c -o cs_entry.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_ereach.c -o cs_ereach.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_etree.c -o cs_etree.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_fkeep.c -o cs_fkeep.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_gaxpy.c -o cs_gaxpy.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_happly.c -o cs_happly.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_house.c -o cs_house.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_inv.c -o cs_inv.o
cs_inv.c: In function ?cs_inv?:
cs_inv.c:9: warning: ?irow? may be used uninitialized in this function
cs_inv.c:9: warning: ?icol? may be used uninitialized in this function
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_invR.c -o cs_invR.o
cs_invR.c: In function ?cs_invR?:
cs_invR.c:9: warning: ?irow? may be used uninitialized in this function
cs_invR.c:9: warning: ?icol? may be used uninitialized in this function
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_ipvec.c -o cs_ipvec.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_kroneckerA.c -o cs_kroneckerA.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_kroneckerAupdate.c -o cs_kroneckerAupdate.o
cs_kroneckerAupdate.c: In function ?cs_kroneckerAupdate?:
cs_kroneckerAupdate.c:5: warning: unused variable ?Cp?
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_kroneckerH.c -o cs_kroneckerH.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_kroneckerI.c -o cs_kroneckerI.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_kroneckerIupdate.c -o cs_kroneckerIupdate.o gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_leaf.c -o cs_leaf.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_load.c -o cs_load.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_lsolve.c -o cs_lsolve.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_ltsolve.c -o cs_ltsolve.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_lu.c -o cs_lu.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_lusol.c -o cs_lusol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_malloc.c -o cs_malloc.o

gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_maxtrans.c -o cs_maxtrans.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_multiply.c -o cs_multiply.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_norm.c -o cs_norm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_omega.c -o cs_omega.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_omegaupdate.c -o cs_omegaupdate.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_permute.c -o cs_permute.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_pinv.c -o cs_pinv.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_post.c -o cs_post.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_print.c -o cs_print.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_pvec.c -o cs_pvec.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_qr.c -o cs_qr.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_qrsol.c -o cs_qrsol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_rCinvwishart.c -o cs_rCinvwishart.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_rR.c -o cs_rR.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_randperm.c -o cs_randperm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_reach.c -o cs_reach.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_rinvwishart.c -o cs_rinvwishart.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_rwishart.c -o cs_rwishart.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_scatter.c -o cs_scatter.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_scc.c -o cs_scc.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_schol.c -o cs_schol.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_sortdv.c -o cs_sortdv.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_spsolve.c -o cs_spsolve.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_sqr.c -o cs_sqr.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_symperm.c -o cs_symperm.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_tdfs.c -o cs_tdfs.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_tmultiplyupdate.c -o cs_tmultiplyupdate.o
cs_tmultiplyupdate.c: In function ?cs_tmultiplyupdate?:
cs_tmultiplyupdate.c:16: warning: unused variable ?Cx?
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_transpose.c -o cs_transpose.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_updown.c -o cs_updown.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_usolve.c -o cs_usolve.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_util.c -o cs_util.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
cs_utsolve.c -o cs_utsolve.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
dcutopints.c -o dcutopints.o
g++ -m64 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe
-Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -c inverseA.cc -o
inverseA.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
lpzF.c -o lpzF.o
g++ -m64 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe
-Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -c rIW.cc -o rIW.o
g++ -m64 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe
-Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -c rbv.cc -o rbv.o
gcc -m64 -std=gnu99 -I/usr/include/R -I/usr/local/include -fpic
-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions
-fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c
rtnorm.c -o rtnorm.o
g++ -m64 -I/usr/include/R -I/usr/local/include -fpic -O2 -g -pipe
-Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -c rtnormR.cc -o rtnormR.o
g++ -m64 -shared -L/usr/local/lib64 -o MCMCglmm.so MCMCglmm.o cs_add.o
cs_addR.o cs_amd.o cs_cbind.o cs_chol.o cs_cholsol.o cs_compress.o  
cs_counts.o cs_cov2cor.o cs_cumsum.o cs_dcmvnorm.o cs_dfs.o  
cs_directsum.o cs_directsumupdate.o cs_dmperm.o cs_dmvnorm.o  
cs_droptol.o cs_dropzeros.o cs_dupl.o cs_entry.o cs_ereach.o  
cs_etree.o cs_fkeep.o cs_gaxpy.o cs_happly.o cs_house.o cs_inv.o  
cs_invR.o cs_ipvec.o cs_kroneckerA.o cs_kroneckerAupdate.o  
cs_kroneckerH.o cs_kroneckerI.o cs_kroneckerIupdate.o cs_leaf.o  
cs_load.o cs_lsolve.o cs_ltsolve.o cs_lu.o cs_lusol.o cs_malloc.o  
cs_maxtrans.o cs_multiply.o cs_norm.o cs_omega.o cs_omegaupdate.o  
cs_permute.o cs_pinv.o cs_post.o cs_print.o cs_pvec.o cs_qr.o  
cs_qrsol.o cs_rCinvwishart.o cs_rR.o cs_randperm.o cs_reach.o  
cs_rinvwishart.o cs_rwishart.o cs_scatter.o cs_scc.o cs_schol.o  
cs_sortdv.o cs_spsolve.o cs_sqr.o cs_symperm.o cs_tdfs.o  
cs_tmultiplyupdate.o cs_transpose.o cs_updown.o cs_usolve.o cs_util.o  
cs_utsolve.o dcutopints.o inverseA.o lpzF.o rIW.o rbv.o rtnorm.o  
rtnormR.o -L/usr/lib64/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading

Loading required package: lattice

Attaching package: 'Matrix'

        The following object(s) are masked from package:tensorA :

         norm

        The following object(s) are masked from package:stats :

	 contr.SAS,
	 contr.helmert,
	 contr.poly,
	 contr.sum,
	 contr.treatment,
	 xtabs


	The following object(s) are masked from package:base :

	 rcond

--

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https://stat.ethz.ch/mailman/listinfo/r-devel Received on Wed 28 Jul 2010 - 09:44:44 GMT

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