FunChIP 1.12.0
Alice Parodi
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/FunChIP |
| Branch: RELEASE_3_10 |
| Last Commit: 1c945e7 |
| Last Changed Date: 2019-10-29 13:09:43 -0400 (Tue, 29 Oct 2019) |
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/FunChIP_1.12.0.tar.gz && rm -rf FunChIP.buildbin-libdir && mkdir FunChIP.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=FunChIP.buildbin-libdir FunChIP_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL FunChIP_1.12.0.zip && rm FunChIP_1.12.0.tar.gz FunChIP_1.12.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 22.0M 100 22.0M 0 0 81.0M 0 --:--:-- --:--:-- --:--:-- 82.3M
install for i386
* installing *source* package 'FunChIP' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c kmean_function.cpp -o kmean_function.o
kmean_function.cpp: In function 'SEXPREC* kmean_function(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:74:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i =0 ; i<num_data; i++){
^
kmean_function.cpp:80:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int t =0 ; t < num_points; t++)
^
kmean_function.cpp: In function 'SEXPREC* distance_matrix(SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:210:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i =0 ; i<num_data; i++){
^
kmean_function.cpp:216:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int t =0 ; t < num_points; t++)
^
kmean_function.cpp: In function 'void kma_discrete(std::vector<peak>&, const int&, std::vector<int>&, const double&, const double&, const int&, const char&, const double&, const double&, std::vector<int>&, std::vector<double>&, std::vector<int>&, const double&, const double&, int, char, char)':
kmean_function.cpp:638:51: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
while( iter < iter_max and number_distances_low < dati.size() and cluster_vuoti==0){ //and number_clusters_different > 0
^
kmean_function.cpp:677:52: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if ( (unsigned int)number_clusters_different == dati.size() & iter != 1)
^
kmean_function.cpp:681:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (number_distances_low== dati.size())
^
kmean_function.cpp: In function 'void normalize_data(std::vector<int>&, std::vector<int>&, const int&)':
kmean_function.cpp:759:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i=0; i<n_clust; i++)
^
In file included from kmean_function.cpp:1:0:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:184:38: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
area_def[0] = area[0]/D;
^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/FunChIP.buildbin-libdir/00LOCK-FunChIP/00new/FunChIP/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'FunChIP'
finding HTML links ... done
FunChIP-package html
GR100 html
finding level-2 HTML links ... done
bending_index html
choose_k-method html
cluster_peak-method html
compute_fragments_length html
distance_peak html
peaks html
pileup_peak-method html
plot_peak-method html
silhouette_plot html
smooth_peak-method html
summit_peak-method html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'FunChIP' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/extsoft/include" -O2 -Wall -mtune=core2 -c kmean_function.cpp -o kmean_function.o
kmean_function.cpp: In function 'SEXPREC* kmean_function(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:74:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i =0 ; i<num_data; i++){
^
kmean_function.cpp:80:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int t =0 ; t < num_points; t++)
^
kmean_function.cpp: In function 'SEXPREC* distance_matrix(SEXP, SEXP, SEXP, SEXP, SEXP)':
kmean_function.cpp:210:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i =0 ; i<num_data; i++){
^
kmean_function.cpp:216:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int t =0 ; t < num_points; t++)
^
kmean_function.cpp: In function 'void kma_discrete(std::vector<peak>&, const int&, std::vector<int>&, const double&, const double&, const int&, const char&, const double&, const double&, std::vector<int>&, std::vector<double>&, std::vector<int>&, const double&, const double&, int, char, char)':
kmean_function.cpp:638:51: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
while( iter < iter_max and number_distances_low < dati.size() and cluster_vuoti==0){ //and number_clusters_different > 0
^
kmean_function.cpp:677:52: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if ( (unsigned int)number_clusters_different == dati.size() & iter != 1)
^
kmean_function.cpp:681:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (number_distances_low== dati.size())
^
kmean_function.cpp: In function 'void normalize_data(std::vector<int>&, std::vector<int>&, const int&)':
kmean_function.cpp:759:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned int i=0; i<n_clust; i++)
^
In file included from kmean_function.cpp:1:0:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:184:38: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
area_def[0] = area[0]/D;
^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/FunChIP.buildbin-libdir/FunChIP/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'FunChIP' as FunChIP_1.12.0.zip
* DONE (FunChIP)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'FunChIP' successfully unpacked and MD5 sums checked