Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:54:54 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE groHMM PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 779/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
groHMM 1.22.0 Anusha Nagari
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | [ OK ] | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK |
Package: groHMM |
Version: 1.22.0 |
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL groHMM |
StartedAt: 2020-10-16 16:52:17 -0400 (Fri, 16 Oct 2020) |
EndedAt: 2020-10-16 16:52:47 -0400 (Fri, 16 Oct 2020) |
EllapsedTime: 30.5 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL groHMM ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘groHMM’ ... ** using staged installation ** libs gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c AnnotateProbes.c -o AnnotateProbes.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c DecayAlgorithm.c -o DecayAlgorithm.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c MLEfit.c -o MLEfit.o In file included from MLEfit.c:44:0: hmmHeader.h:301:16: warning: ‘expSum’ defined but not used [-Wunused-function] static double expSum(double *logValues, int length) { ^~~~~~ hmmHeader.h:281:16: warning: ‘MargainalizeSumLogProbOver’ defined but not used [-Wunused-function] static double MargainalizeSumLogProbOver(int state, int position, ^~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c RegisterRRoutines.c -o RegisterRRoutines.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c Windowing.c -o Windowing.o Windowing.c: In function ‘WindowAnalysis’: Windowing.c:147:6: warning: unused variable ‘II’ [-Wunused-variable] int II = 0; ^~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c hmmEM.c -o hmmEM.o In file included from hmmEM.c:51:0: hmmHeader.h:301:16: warning: ‘expSum’ defined but not used [-Wunused-function] static double expSum(double *logValues, int length) { ^~~~~~ hmmHeader.h:281:16: warning: ‘MargainalizeSumLogProbOver’ defined but not used [-Wunused-function] static double MargainalizeSumLogProbOver(int state, int position, ^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hmmHeader.h:36:0, from hmmEM.c:51: UsefulValues.h:39:15: warning: ‘VERY_LARGE_DOUBLE_VALUE’ defined but not used [-Wunused-variable] static double VERY_LARGE_DOUBLE_VALUE = 1e20; ^~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c hmmFwBw.c -o hmmFwBw.o hmmFwBw.c: In function ‘forward’: hmmFwBw.c:143:7: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation] for(k=1; k<n; k++) ^~~ hmmFwBw.c:146:9: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’ for (k = 0; k<n; k++) { ^~~ In file included from hmmFwBw.c:46:0: At top level: hmmHeader.h:301:16: warning: ‘expSum’ defined but not used [-Wunused-function] static double expSum(double *logValues, int length) { ^~~~~~ hmmHeader.h:281:16: warning: ‘MargainalizeSumLogProbOver’ defined but not used [-Wunused-function] static double MargainalizeSumLogProbOver(int state, int position, ^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hmmHeader.h:36:0, from hmmFwBw.c:46: UsefulValues.h:39:15: warning: ‘VERY_LARGE_DOUBLE_VALUE’ defined but not used [-Wunused-variable] static double VERY_LARGE_DOUBLE_VALUE = 1e20; ^~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c hmmMiscFunctions.c -o hmmMiscFunctions.o hmmMiscFunctions.c: In function ‘SStatsNormExp’: hmmMiscFunctions.c:385:10: warning: unused variable ‘wi’ [-Wunused-variable] double wi, *newEx; ^~ hmmMiscFunctions.c: In function ‘UpdateNormExp’: hmmMiscFunctions.c:418:10: warning: unused variable ‘epsilon’ [-Wunused-variable] double epsilon=0.00001; ^~~~~~~ In file included from hmmHeader.h:36:0, from hmmMiscFunctions.c:44: At top level: UsefulValues.h:39:15: warning: ‘VERY_LARGE_DOUBLE_VALUE’ defined but not used [-Wunused-variable] static double VERY_LARGE_DOUBLE_VALUE = 1e20; ^~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c hmmViterbi.c -o hmmViterbi.o In file included from hmmViterbi.c:49:0: hmmHeader.h:301:16: warning: ‘expSum’ defined but not used [-Wunused-function] static double expSum(double *logValues, int length) { ^~~~~~ hmmHeader.h:281:16: warning: ‘MargainalizeSumLogProbOver’ defined but not used [-Wunused-function] static double MargainalizeSumLogProbOver(int state, int position, ^~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from hmmHeader.h:36:0, from hmmViterbi.c:49: UsefulValues.h:39:15: warning: ‘VERY_LARGE_DOUBLE_VALUE’ defined but not used [-Wunused-variable] static double VERY_LARGE_DOUBLE_VALUE = 1e20; ^~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -L/home/biocbuild/bbs-3.11-bioc/R/lib -L/usr/local/lib -o groHMM.so AnnotateProbes.o DecayAlgorithm.o MLEfit.o RegisterRRoutines.o Windowing.o hmmEM.o hmmFwBw.o hmmMiscFunctions.o hmmViterbi.o -L/home/biocbuild/bbs-3.11-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.11-bioc/R/library/00LOCK-groHMM/00new/groHMM/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (groHMM)