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BioC 3.0: INSTALL report for rama on moscato1

This page was generated on 2015-04-10 09:43:18 -0700 (Fri, 10 Apr 2015).

Package 712/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rama 1.40.0
Raphael Gottardo
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/rama
Last Changed Rev: 95439 / Revision: 102249
Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK 

Summary

Package: rama
Version: 1.40.0
Command: C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.0/bioc/src/contrib/rama_1.40.0.tar.gz && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rama_1.40.0.tar.gz && rm rama_1.40.0.tar.gz
StartedAt: 2015-04-09 17:21:47 -0700 (Thu, 09 Apr 2015)
EndedAt: 2015-04-09 17:22:26 -0700 (Thu, 09 Apr 2015)
EllapsedTime: 39.1 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.0/bioc/src/contrib/rama_1.40.0.tar.gz && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch rama_1.40.0.tar.gz && rm rama_1.40.0.tar.gz
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
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100  324k  100  324k    0     0  12.5M      0 --:--:-- --:--:-- --:--:-- 31.7M

install for i386

* installing to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'rama' ...
** libs
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c estimation_slice.c -o estimation_slice.o
estimation_slice.c: In function 'mcmc_shift':
estimation_slice.c:122:10: warning: unused variable 'SSeps_sd_new' [-Wunused-variable]
estimation_slice.c:121:10: warning: unused variable 'SSeps_sd' [-Wunused-variable]
estimation_slice.c:117:10: warning: unused variable 'pi' [-Wunused-variable]
estimation_slice.c:116:24: warning: unused variable 'SS12' [-Wunused-variable]
estimation_slice.c:116:17: warning: unused variable 'SSR2' [-Wunused-variable]
estimation_slice.c:116:10: warning: unused variable 'SSR1' [-Wunused-variable]
estimation_slice.c:115:25: warning: unused variable 'dens_epsilon_new' [-Wunused-variable]
estimation_slice.c:115:10: warning: unused variable 'dens_epsilon' [-Wunused-variable]
estimation_slice.c:114:22: warning: unused variable 'l_epsilon_new' [-Wunused-variable]
estimation_slice.c:114:10: warning: unused variable 'l_epsilon' [-Wunused-variable]
estimation_slice.c:113:27: warning: unused variable 'lambda_eps2_new' [-Wunused-variable]
estimation_slice.c:113:10: warning: unused variable 'lambda_eps1_new' [-Wunused-variable]
estimation_slice.c: In function 'slice_sampling_lambda_eps':
estimation_slice.c:484:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
estimation_slice.c:493:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c: In function 'mcmc':
ex_estimation_slice.c:144:10: warning: unused variable 'old_a' [-Wunused-variable]
ex_estimation_slice.c:143:10: warning: unused variable 'old_b' [-Wunused-variable]
ex_estimation_slice.c:138:10: warning: unused variable 'sum_res2' [-Wunused-variable]
ex_estimation_slice.c:137:10: warning: unused variable 'sum_res1' [-Wunused-variable]
ex_estimation_slice.c:119:19: warning: unused variable 'dens_t_new' [-Wunused-variable]
ex_estimation_slice.c:119:10: warning: unused variable 'dens_t' [-Wunused-variable]
ex_estimation_slice.c:112:10: warning: unused variable 'pi' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c mean.sd.c -o mean.sd.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c reorder.c -o reorder.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c util.c -o util.o
util.c: In function 'product_mat_vec':
util.c:574:11: warning: unused variable 'k' [-Wunused-variable]
util.c: In function 'slice_sampling_a':
util.c:629:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:629:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:636:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:643:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:613:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_b':
util.c:703:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:703:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:710:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:717:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:686:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_b2':
util.c:767:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:775:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_a2':
util.c:822:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:830:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_rho':
util.c:876:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:876:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:883:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:890:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:860:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_rho2':
util.c:935:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:944:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_shift':
util.c:1019:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:1019:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1026:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1033:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1000:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_shift2':
util.c:1100:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1108:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1082:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_p':
util.c:1248:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1256:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
gcc -m32 -shared -s -static-libgcc -o rama.dll tmp.def estimation_slice.o ex_estimation_slice.o mean.sd.o reorder.o util.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/rama/libs/i386
** R
** data
** 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 to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'rama' ...
** libs
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c estimation_slice.c -o estimation_slice.o
estimation_slice.c: In function 'mcmc_shift':
estimation_slice.c:122:10: warning: unused variable 'SSeps_sd_new' [-Wunused-variable]
estimation_slice.c:121:10: warning: unused variable 'SSeps_sd' [-Wunused-variable]
estimation_slice.c:117:10: warning: unused variable 'pi' [-Wunused-variable]
estimation_slice.c:116:24: warning: unused variable 'SS12' [-Wunused-variable]
estimation_slice.c:116:17: warning: unused variable 'SSR2' [-Wunused-variable]
estimation_slice.c:116:10: warning: unused variable 'SSR1' [-Wunused-variable]
estimation_slice.c:115:25: warning: unused variable 'dens_epsilon_new' [-Wunused-variable]
estimation_slice.c:115:10: warning: unused variable 'dens_epsilon' [-Wunused-variable]
estimation_slice.c:114:22: warning: unused variable 'l_epsilon_new' [-Wunused-variable]
estimation_slice.c:114:10: warning: unused variable 'l_epsilon' [-Wunused-variable]
estimation_slice.c:113:27: warning: unused variable 'lambda_eps2_new' [-Wunused-variable]
estimation_slice.c:113:10: warning: unused variable 'lambda_eps1_new' [-Wunused-variable]
estimation_slice.c: In function 'slice_sampling_lambda_eps':
estimation_slice.c:484:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
estimation_slice.c:493:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c: In function 'mcmc':
ex_estimation_slice.c:144:10: warning: unused variable 'old_a' [-Wunused-variable]
ex_estimation_slice.c:143:10: warning: unused variable 'old_b' [-Wunused-variable]
ex_estimation_slice.c:138:10: warning: unused variable 'sum_res2' [-Wunused-variable]
ex_estimation_slice.c:137:10: warning: unused variable 'sum_res1' [-Wunused-variable]
ex_estimation_slice.c:119:19: warning: unused variable 'dens_t_new' [-Wunused-variable]
ex_estimation_slice.c:119:10: warning: unused variable 'dens_t' [-Wunused-variable]
ex_estimation_slice.c:112:10: warning: unused variable 'pi' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c mean.sd.c -o mean.sd.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c reorder.c -o reorder.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c util.c -o util.o
util.c: In function 'product_mat_vec':
util.c:574:11: warning: unused variable 'k' [-Wunused-variable]
util.c: In function 'slice_sampling_a':
util.c:629:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:629:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:636:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:643:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:613:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_b':
util.c:703:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:703:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:710:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:717:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:686:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_b2':
util.c:767:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:775:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_a2':
util.c:822:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:830:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_rho':
util.c:876:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:876:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:883:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:890:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:860:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_rho2':
util.c:935:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:944:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c: In function 'slice_sampling_shift':
util.c:1019:3: warning: suggest parentheses around comparison in operand of '|' [-Wparentheses]
util.c:1019:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1026:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1033:4: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1000:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_shift2':
util.c:1100:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1108:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1082:13: warning: unused variable 'v' [-Wunused-variable]
util.c: In function 'slice_sampling_p':
util.c:1248:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
util.c:1256:3: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
gcc -m64 -shared -s -static-libgcc -o rama.dll tmp.def estimation_slice.o ex_estimation_slice.o mean.sd.o reorder.o util.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/rama/libs/x64
** testing if installed package can be loaded
* DONE (rama)