A.Gabor
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/CellNOptR |
| git_branch: RELEASE_3_13 |
| git_last_commit: 8e211e0 |
| git_last_commit_date: 2021-05-19 11:50:40 -0400 (Wed, 19 May 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:00 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the CellNOptR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CellNOptR.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. |
| Package 266/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| CellNOptR 1.38.0 (landing page) A.Gabor
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: CellNOptR |
| Version: 1.38.0 |
| Command: C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/CellNOptR_1.38.0.tar.gz && rm -rf CellNOptR.buildbin-libdir && mkdir CellNOptR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CellNOptR.buildbin-libdir CellNOptR_1.38.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL CellNOptR_1.38.0.zip && rm CellNOptR_1.38.0.tar.gz CellNOptR_1.38.0.zip |
| StartedAt: 2021-10-14 08:18:45 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 08:20:28 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 103.1 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/CellNOptR_1.38.0.tar.gz && rm -rf CellNOptR.buildbin-libdir && mkdir CellNOptR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CellNOptR.buildbin-libdir CellNOptR_1.38.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL CellNOptR_1.38.0.zip && rm CellNOptR_1.38.0.tar.gz CellNOptR_1.38.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
1 1417k 1 14637 0 0 123k 0 0:00:11 --:--:-- 0:00:11 123k
100 1417k 100 1417k 0 0 2431k 0 --:--:-- --:--:-- --:--:-- 2431k
install for i386
* installing *source* package 'CellNOptR' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"c:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getFit.c -o getFit.o
getFit.c: In function 'getFit':
getFit.c:47:6: warning: unused variable 'nReacs' [-Wunused-variable]
int nReacs = INTEGER(nReacs_in)[0];
^~~~~~
getFit.c:42:6: warning: unused variable 'selCounter' [-Wunused-variable]
int selCounter = 0;
^~~~~~~~~~
getFit.c:41:6: warning: unused variable 'selection' [-Wunused-variable]
int selection[40];
^~~~~~~~~
getFit.c:40:6: warning: unused variable 'or_max' [-Wunused-variable]
int or_max = 0;
^~~~~~
getFit.c:39:6: warning: unused variable 'curr_max' [-Wunused-variable]
int curr_max = 0;
^~~~~~~~
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"c:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c simulatorT1.c -o simulatorT1.o
simulatorT1.c: In function 'simulatorT1':
simulatorT1.c:502:20: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if (MA[i][j]<0.95 & MA[i][j]>0.05) // actually we could check if they are exatly 0 or 1
~~~~~~~~^~~~~
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"c:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c simulatorTN.c -o simulatorTN.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o CellNOptR.dll tmp.def getFit.o simulatorT1.o simulatorTN.o -Lc:/extsoft/lib/i386 -Lc:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/00LOCK-CellNOptR/00new/CellNOptR/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'CellNOptR'
finding HTML links ... done
CNORbool html
CNORwrap html
CNOdata html
CNOlist-class html
CNOlist-methods html
CNOlistDREAM html
CNOlistToy html
CNOlistToy2 html
CNOlistToyMMB html
CellNOptR-package html
DreamModel html
ToyModel html
ToyModel2 html
buildBitString html
build_sif_table_from_rule html
cSimulator html
checkSignals html
compressModel html
computeScoreT1 html
computeScoreTN html
createAndRunILP html
createILPBitstringAll html
create_binaries html
crossInhibitedData html
crossvalidateBoolean html
cutAndPlot html
cutAndPlotResultsT1 html
cutAndPlotResultsTN html
cutCNOlist html
cutModel html
cutNONC html
cutSimList html
defaultParameters html
exhaustive html
expandGates html
findNONC html
gaBinaryT1 html
gaBinaryT2 html
gaBinaryTN html
getFit html
graph2sif html
ilpBinaryT1 html
ilpBinaryT2 html
ilpBinaryTN html
indexFinder html
internals html
invokeCPLEX html
makeCNOlist html
mapBack html
model2igraph html
model2sif html
normaliseCNOlist html
plot-methods html
plotCNOlist html
plotCNOlist2 html
plotCNOlistLarge html
plotCNOlistLargePDF html
plotCNOlistPDF html
plotFit html
plotModel html
plotOptimResults html
plotOptimResultsPDF html
plotOptimResultsPan html
prep4sim html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/00LOCK-CellNOptR/00new/CellNOptR/help/prep4Sim.html
preprocessing html
randomizeCNOlist html
readBND html
readBNET html
readMIDAS html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/00LOCK-CellNOptR/00new/CellNOptR/help/readMidas.html
readSBMLQual html
readSIF html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/00LOCK-CellNOptR/00new/CellNOptR/help/readSIF.html
residualError html
sif2graph html
simulateT1 html
simulateTN html
simulatorT0 html
simulatorT1 html
simulatorT2 html
simulatorTN html
toSBML html
writeDot html
writeFile html
writeMIDAS html
writeNetwork html
writeObjectiveFunction html
writeReport html
writeSIF html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/00LOCK-CellNOptR/00new/CellNOptR/help/writeSif.html
writeScaffold html
write_bounds html
write_constraints 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 'CellNOptR' ...
** libs
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"C:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getFit.c -o getFit.o
getFit.c: In function 'getFit':
getFit.c:47:6: warning: unused variable 'nReacs' [-Wunused-variable]
int nReacs = INTEGER(nReacs_in)[0];
^~~~~~
getFit.c:42:6: warning: unused variable 'selCounter' [-Wunused-variable]
int selCounter = 0;
^~~~~~~~~~
getFit.c:41:6: warning: unused variable 'selection' [-Wunused-variable]
int selection[40];
^~~~~~~~~
getFit.c:40:6: warning: unused variable 'or_max' [-Wunused-variable]
int or_max = 0;
^~~~~~
getFit.c:39:6: warning: unused variable 'curr_max' [-Wunused-variable]
int curr_max = 0;
^~~~~~~~
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"C:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c simulatorT1.c -o simulatorT1.o
simulatorT1.c: In function 'simulatorT1':
simulatorT1.c:502:20: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
if (MA[i][j]<0.95 & MA[i][j]>0.05) // actually we could check if they are exatly 0 or 1
~~~~~~~~^~~~~
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.13-/R/include" -DNDEBUG -I"C:/extsoft/include" -I./include -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c simulatorTN.c -o simulatorTN.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o CellNOptR.dll tmp.def getFit.o simulatorT1.o simulatorTN.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.13-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.13-bioc/meat/CellNOptR.buildbin-libdir/CellNOptR/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CellNOptR' as CellNOptR_1.38.0.zip
* DONE (CellNOptR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'CellNOptR' successfully unpacked and MD5 sums checked