Ramon Diaz-Uriarte
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/OncoSimulR |
| Branch: RELEASE_3_10 |
| Last Commit: 2d6b985 |
| Last Changed Date: 2020-04-10 08:23:01 -0400 (Fri, 10 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:08:55 -0400 (Wed, 15 Apr 2020).
| Package 1188/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| OncoSimulR 2.16.1 Ramon Diaz-Uriarte
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | [ OK ] | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: OncoSimulR |
| Version: 2.16.1 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL OncoSimulR |
| StartedAt: 2020-04-14 18:28:22 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 18:29:21 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 59.4 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL OncoSimulR
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘OncoSimulR’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/gamma.c -o FitnessLandscape/gamma.o
FitnessLandscape/gamma.c: In function ‘gamma_ij_global’:
FitnessLandscape/gamma.c:760:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
if (v==0);
^~
FitnessLandscape/gamma.c:761:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
{
^
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/landscape.c -o FitnessLandscape/landscape.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/random.c -o FitnessLandscape/random.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/sort.c -o FitnessLandscape/sort.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/chain.c -o FitnessLandscape/chain.o
FitnessLandscape/chain.c: In function ‘GetDepth’:
FitnessLandscape/chain.c:116:12: warning: variable ‘g_from’ set but not used [-Wunused-but-set-variable]
long x,l, g_from;
^~~~~~
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/input.c -o FitnessLandscape/input.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/genotypes.c -o FitnessLandscape/genotypes.o
FitnessLandscape/genotypes.c: In function ‘CountFitterGenotypes’:
FitnessLandscape/genotypes.c:452:6: warning: unused variable ‘tmp’ [-Wunused-variable]
int tmp, nbetter=0;
^~~
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/ordered_pairs.c -o FitnessLandscape/ordered_pairs.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/calculus.c -o FitnessLandscape/calculus.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/vector.c -o FitnessLandscape/vector.o
FitnessLandscape/vector.c: In function ‘vector_add’:
FitnessLandscape/vector.c:44:5: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
if (v->capacity == v->size)
^~
FitnessLandscape/vector.c:47:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
v->data[v->size] = malloc(length * sizeof(int));
^
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/generalized_chain.c -o FitnessLandscape/generalized_chain.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/LinearAlgebra.c -o FitnessLandscape/LinearAlgebra.o
FitnessLandscape/LinearAlgebra.c: In function ‘MatrixProductRef’:
FitnessLandscape/LinearAlgebra.c:247:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
if( M_left->c != M_right->r )
^~
FitnessLandscape/LinearAlgebra.c:251:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
for(i=0; i<Prod->r; i++ )
^~~
FitnessLandscape/LinearAlgebra.c: In function ‘MatrixSumRef’:
FitnessLandscape/LinearAlgebra.c:308:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
if( M1->r != M2->r || M1->c != M2->c )
^~
FitnessLandscape/LinearAlgebra.c:313:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
for(i=0; i<Sum->r; i++ )
^~~
FitnessLandscape/LinearAlgebra.c: In function ‘MatrixDiff’:
FitnessLandscape/LinearAlgebra.c:338:2: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation]
if( M1->r != M2->r || M1->c != M2->c )
^~
FitnessLandscape/LinearAlgebra.c:342:3: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’
S = MemMat( M1->r, M1->c );
^
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/summary_statistics.c -o FitnessLandscape/summary_statistics.o
FitnessLandscape/summary_statistics.c: In function ‘OutputSummaryStats’:
FitnessLandscape/summary_statistics.c:911:9: warning: unused variable ‘varFitterGenotyspesFL’ [-Wunused-variable]
double varFitterGenotyspesFL;
^~~~~~~~~~~~~~~~~~~~~
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/epistasis_type.c -o FitnessLandscape/epistasis_type.o
FitnessLandscape/epistasis_type.c: In function ‘get_sign_epistasis_FL’:
FitnessLandscape/epistasis_type.c:86:6: warning: unused variable ‘flag’ [-Wunused-variable]
int flag=0;
^~~~
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/decomposition.c -o FitnessLandscape/decomposition.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c FitnessLandscape/models.c -o FitnessLandscape/models.o
ar -r liblandscape.a FitnessLandscape/gamma.o FitnessLandscape/landscape.o FitnessLandscape/random.o FitnessLandscape/sort.o FitnessLandscape/chain.o FitnessLandscape/input.o FitnessLandscape/genotypes.o FitnessLandscape/ordered_pairs.o FitnessLandscape/calculus.o FitnessLandscape/vector.o FitnessLandscape/generalized_chain.o FitnessLandscape/LinearAlgebra.o FitnessLandscape/summary_statistics.o FitnessLandscape/epistasis_type.o FitnessLandscape/decomposition.o FitnessLandscape/models.o ;
ar: creating liblandscape.a
ranlib liblandscape.a;
gcc -O -Wall -o fl_statistics -I/FitnessLandscape/. -L. FitnessLandscape/main_fl_statistics.c -llandscape -lm;
gcc -O -Wall -o fl_generate -I/FitnessLandscape/. -L. FitnessLandscape/main_fl_generate.c -llandscape -lm;
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c BNB_nr.cpp -o BNB_nr.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c BNB_v1.cpp -o BNB_v1.o
gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c OncoSimulR_init.c -o OncoSimulR_init.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c accessible_genotypes.cpp -o accessible_genotypes.o
accessible_genotypes.cpp: In function ‘Rcpp::IntegerVector accessibleGenotypesPeaksLandscape(Rcpp::IntegerMatrix, Rcpp::NumericVector, Rcpp::IntegerVector, double, bool)’:
accessible_genotypes.cpp:224:7: warning: unused variable ‘numMutdiff’ [-Wunused-variable]
int numMutdiff = 0;
^~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c bnb_common.cpp -o bnb_common.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c new_restrict.cpp -o new_restrict.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.10-bioc/R/lib -L/usr/local/lib -o OncoSimulR.so BNB_nr.o BNB_v1.o OncoSimulR_init.o RcppExports.o accessible_genotypes.o bnb_common.o new_restrict.o -L/home/biocbuild/bbs-3.10-bioc/R/lib -lR
installing via 'install.libs.R' to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-OncoSimulR/00new/OncoSimulR
[1] ""
Installing fl_statistics fl_generate to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-OncoSimulR/00new/OncoSimulR/exec
Installing library OncoSimulR.so to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-OncoSimulR/00new/OncoSimulR/libs
** R
** data
** 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 (OncoSimulR)