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This page was generated on 2022-01-18 11:07:18 -0500 (Tue, 18 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4161
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4056
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2021-12-21 r81400 ucrt) -- "Unsuffered Consequences" 3998
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-01-05 r81451) -- "Unsuffered Consequences" 4115
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for FunChIP on riesling1


To the developers/maintainers of the FunChIP package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FunChIP.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 686/2074HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
FunChIP 1.21.1  (landing page)
Alice Parodi
Snapshot Date: 2022-01-17 13:55:17 -0500 (Mon, 17 Jan 2022)
git_url: https://git.bioconductor.org/packages/FunChIP
git_branch: master
git_last_commit: 8b6848d
git_last_commit_date: 2021-11-20 04:02:50 -0500 (Sat, 20 Nov 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    WARNINGS    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  NO, package depends on 'GenomicRanges' which is not available
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: FunChIP
Version: 1.21.1
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL FunChIP
StartedAt: 2022-01-17 16:03:11 -0500 (Mon, 17 Jan 2022)
EndedAt: 2022-01-17 16:04:24 -0500 (Mon, 17 Jan 2022)
EllapsedTime: 72.6 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL FunChIP
###
##############################################################################
##############################################################################


* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'FunChIP' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"g++  -std=gnu++11 -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -I../inst/include -I. -DNDEBUG -I'D:/biocbuild/bbs-3.15-bioc/R/library/Rcpp/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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 of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
     for (unsigned int i =0 ; i<num_data; i++){
                              ~^~~~~~~~~
kmean_function.cpp:80:34: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-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 of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
         for (unsigned int i =0 ; i<num_data; i++){
                                  ~^~~~~~~~~
kmean_function.cpp:216:40: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-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 of integer expressions of different signedness: 'int' and 'std::vector<peak>::size_type' {aka 'long long unsigned int'} [-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 of integer expressions of different signedness: 'int' and 'std::vector<peak>::size_type' {aka 'long long unsigned int'} [-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 of integer expressions of different signedness: 'unsigned int' and 'const int' [-Wsign-compare]
   for (unsigned int i=0; i<n_clust; i++)
                          ~^~~~~~~~
In file included from kmean_function.cpp:1:
peak.h: In member function 'std::vector<double> peak::area(int, char) const':
peak.h:154:46: warning: 'D' may be used uninitialized in this function [-Wmaybe-uninitialized]
                 area_def[0] = sqrt(area[0]/2)/D;
                               ~~~~~~~~~~~~~~~^~
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o FunChIP.dll tmp.def kmean_function.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-FunChIP/00new/FunChIP/libs/x64
** 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
* DONE (FunChIP)
Making 'packages.html' ...Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'normr' is missing or broken
Warning in packageDescription(i, lib.loc = lib, fields = "Title", encoding = "UTF-8") :
  DESCRIPTION file of package 'SCANVIS' is missing or broken
 done