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Package 208/251HostnameOS / ArchBUILDCHECKBUILD BIN
Rtreemix 1.0.0
Jasmina Bogojeska
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rtreemix
Last Changed Rev: 28790 / Revision: 29143
Last Changed Date: 2007-11-16 13:25:16 -0800 (Fri, 16 Nov 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64 [ ERROR ] skipped  skipped 
lemming Windows Server 2003 (32-bit) / x64  ERROR  skipped  skipped 
Package: Rtreemix
Version: 1.0.0
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD build Rtreemix
StartedAt: 2007-12-11 03:56:19 -0700 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 03:57:37 -0700 (Tue, 11 Dec 2007)
EllapsedTime: 78.2 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'Rtreemix/DESCRIPTION' ... OK
* preparing 'Rtreemix':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst502457345


---------- Making package Rtreemix ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making Rtreemix.d from Rtreemix.cc
making WrapGraph.d from WrapGraph.cc
making cfunctions.d from cfunctions.cc
making kmeans.d from kmeans.cc
making max_weight_branch.d from max_weight_branch.cc
making mtree.d from mtree.cc
making mtreemix.d from mtreemix.cc
making replaceleda.d from replaceleda.cc
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c Rtreemix.cc -o Rtreemix.o
Rtreemix.cc: In function 'SEXPREC* R_fit(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Rtreemix.cc:591: warning: value computed is not used
Rtreemix.cc: In function 'SEXPREC* R_fit1(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Rtreemix.cc:929: warning: value computed is not used
Rtreemix.cc: In function 'SEXPREC* R_fit0(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Rtreemix.cc:1267: warning: value computed is not used
Rtreemix.cc: In function 'SEXPREC* R_bootstrap(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Rtreemix.cc:1709: warning: value computed is not used
Rtreemix.cc: In function 'SEXPREC* R_random(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)':
Rtreemix.cc:2605: warning: value computed is not used
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c WrapGraph.cc -o WrapGraph.o
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c cfunctions.cc -o cfunctions.o
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c kmeans.cc -o kmeans.o
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c max_weight_branch.cc -o max_weight_branch.o
max_weight_branch.cc: In function 'void DOT(replaceleda::graph&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Node>, std::basic_string<char, std::char_traits<char>, std::allocator<char> > >&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, double>&, char*)':
max_weight_branch.cc:97: warning: value computed is not used
max_weight_branch.cc: In function 'replaceleda::list<replaceleda::RefCountPtr<replaceleda::Edge> > max_weight_subgraph_indeg_le_1(replaceleda::graph&)':
max_weight_branch.cc:142: warning: value computed is not used
max_weight_branch.cc: In function 'void contract_all_cycles(replaceleda::graph&, int, replaceleda::array<replaceleda::list<replaceleda::RefCountPtr<replaceleda::Edge> > >, replaceleda::GRAPH<replaceleda::RefCountPtr<replaceleda::Node>, replaceleda::RefCountPtr<replaceleda::Edge> >&)':
max_weight_branch.cc:341: warning: value computed is not used
max_weight_branch.cc: In function 'replaceleda::list<replaceleda::RefCountPtr<replaceleda::Edge> > MAX_WEIGHT_BRANCHING(replaceleda::graph&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Node>, std::basic_string<char, std::char_traits<char>, std::allocator<char> > >&, replaceleda::edge_array<double>&)':
max_weight_branch.cc:432: warning: value computed is not used
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c mtree.cc -o mtree.o
mtree.cc: In function 'void mgraph_init(replaceleda::array<std::basic_string<char, std::char_traits<char>, std::allocator<char> > >&, replaceleda::graph&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Node>, std::basic_string<char, std::char_traits<char>, std::allocator<char> > >&, replaceleda::edge_array<double>&, replaceleda::map<int, replaceleda::RefCountPtr<replaceleda::Node> >&)':
mtree.cc:181: warning: value computed is not used
mtree.cc:182: warning: value computed is not used
mtree.cc: In function 'replaceleda::list<replaceleda::RefCountPtr<replaceleda::Edge> > mtree_bfs(replaceleda::graph&, replaceleda::node&)':
mtree.cc:268: warning: value computed is not used
mtree.cc: In function 'double mtree_like(replaceleda::integer_vector&, replaceleda::graph&, replaceleda::map<int, replaceleda::RefCountPtr<replaceleda::Node> >&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, double>&)':
mtree.cc:317: warning: value computed is not used
mtree.cc: In function 'replaceleda::integer_vector mtree_draw(int, replaceleda::graph&, replaceleda::node&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, double>&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Node>, int>&)':
mtree.cc:440: warning: value computed is not used
mtree.cc: In function 'void mtree_directed(replaceleda::graph&, replaceleda::node&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, double>&, double, double)':
mtree.cc:780: warning: value computed is not used
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c mtreemix.cc -o mtreemix.o
mtreemix.cc: In function 'double mtree_state(replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, int>&, replaceleda::integer_vector&, replaceleda::graph&, replaceleda::map<int, replaceleda::RefCountPtr<replaceleda::Node> >&, replaceleda::map<replaceleda::RefCountPtr<replaceleda::Edge>, double>&)':
mtreemix.cc:1031: warning: value computed is not used
g++-sjlj   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c replaceleda.cc -o replaceleda.o
replaceleda.cc: In function 'bool replaceleda::Is_Acyclic(replaceleda::graph&, replaceleda::list<replaceleda::RefCountPtr<replaceleda::Edge> >&)':
replaceleda.cc:78: warning: value computed is not used
replaceleda.cc: In function 'void replaceleda::CopyGraph(replaceleda::graph&, replaceleda::graph&)':
replaceleda.cc:125: warning: value computed is not used
replaceleda.cc: In function 'void replaceleda::CopyGraph(replaceleda::GRAPH<replaceleda::RefCountPtr<replaceleda::Node>, replaceleda::RefCountPtr<replaceleda::Edge> >&, replaceleda::graph&)':
replaceleda.cc:146: warning: value computed is not used
replaceleda.cc: In function 'std::ostream& replaceleda::operator<<(std::ostream&, replaceleda::graph&)':
replaceleda.cc:349: warning: value computed is not used
replaceleda.cc: In function 'void replaceleda::printGraph(replaceleda::graph&, replaceleda::edge_array<double>&)':
replaceleda.cc:370: warning: value computed is not used
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include  -i Rtreemix_res.rc -o Rtreemix_res.o
g++-sjlj   -shared -s  -o Rtreemix.dll Rtreemix.def Rtreemix.o WrapGraph.o cfunctions.o kmeans.o max_weight_branch.o mtree.o mtreemix.o replaceleda.o Rtreemix_res.o  -Le:/biocbld/bbs-2.2-bioc/R/bin -lm    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  preparing package Rtreemix for lazy loading
Loading required package: graph
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Creating a new generic function for "print" in "Rtreemix"
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'Rtreemix'
     Formats: text html latex example chm 
  L1.dist                           text    html    latex   example chm
  L2.norm                           text    html    latex   example chm
  Pval.dist                         text    html    latex   example chm
  RtreemixData-class                text    html    latex   example chm
  RtreemixGPS-class                 text    html    latex   example chm
  RtreemixModel-class               text    html    latex   example chm
  RtreemixSim-class                 text    html    latex   example chm
  RtreemixStats-class               text    html    latex   example chm
  bootstrap-methods                 text    html    latex   example chm
  comp.models                       text    html    latex   example chm
  comp.trees                        text    html    latex   example chm
  confIntGPS-methods                text    html    latex   example chm
  distribution-methods              text    html    latex   example chm
  fit-methods                       text    html    latex   example chm
  generate-methods                  text    html    latex   example chm
  get.tree.levels                   text    html    latex   example chm
  gps-methods                       text    html    latex   example chm
  hiv.data                          text    html    latex   example chm
  kullback.leibler                  text    html    latex   example chm
  likelihoods-methods               text    html    latex   example chm
  plot-methods                      text    html    latex   example chm
  sim-methods                       text    html    latex   example chm
  stability.sim                     text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.2-bioc\meat\Rtreemix\chm\Rtreemix.chm





Compile time: 0 minutes, 1 second

24	Topics

260	Local links

0	Internet links

1	Graphic





Created e:\biocbld\bbs-2.2-bioc\meat\Rtreemix\chm\Rtreemix.chm, 60,627 bytes

Compression decreased file by 97,289 bytes.

  adding MD5 sums

* DONE (Rtreemix)
* creating vignettes ... ERROR
Loading required package: graph
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: Rgraphviz

Error: processing vignette 'Rtreemix.Rnw' failed with diagnostics:
 chunk 8 
Error in .local(x, ...) : package Rgraphviz is required
In addition: Warning messages:
1: The edgemode slot is deprecated. Use 'updateGraph' to update this graph object. 
2: The edgemode slot is deprecated. Use 'updateGraph' to update this graph object. 
3: The edgemode slot is deprecated. Use 'updateGraph' to update this graph object. 
4: The edgemode slot is deprecated. Use 'updateGraph' to update this graph object. 
5: In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called 'Rgraphviz'
Execution halted