work on #53 #63

appling · 2015-07-15T17:17:53Z

No description provided.

appling · 2015-11-12T18:29:13Z

smwrStats build is currently failing on AppVeyor. It was building OK as of commit fddf0ae on Sep 6, 2015 (https://ci.appveyor.com/project/appling/loadflex/build/1.0.37#L233) with this command:

build_script:
  - R --version
  - travis-tool.sh install_github appling/unitted USGS-R/smwrData USGS-R/smwrBase USGS-R/smwrGraphs USGS-R/smwrStats USGS-R/smwrQW USGS-R/rloadest
  - travis-tool.sh install_deps

The above has changed only in the addition of tags (USGS-R/smwrStats@0.7.2) - this tag was established Apr 30, 2015, and smwrStats has not changed since then. The full error, which I think has been consistent all day today (11/12/15) on appveyor, is this:

Downloading GitHub repo USGS-R/smwrStats@master
Installing smwrStats
Skipping 2 packages not available: smwrBase, smwrGraphs
Installing 10 packages: car, leaps, lme4, MatrixModels, minqa, nloptr, pbkrtest, quantreg, RcppEigen, SparseM
package 'car' successfully unpacked and MD5 sums checked
package 'leaps' successfully unpacked and MD5 sums checked
package 'lme4' successfully unpacked and MD5 sums checked
package 'MatrixModels' successfully unpacked and MD5 sums checked
package 'minqa' successfully unpacked and MD5 sums checked
package 'nloptr' successfully unpacked and MD5 sums checked
package 'pbkrtest' successfully unpacked and MD5 sums checked
package 'quantreg' successfully unpacked and MD5 sums checked
package 'RcppEigen' successfully unpacked and MD5 sums checked
package 'SparseM' successfully unpacked and MD5 sums checked
"d:/R/bin/i386/R" --no-site-file --no-environ --no-save --no-restore CMD  \
  INSTALL  \
  "C:/Users/appveyor/AppData/Local/Temp/1/Rtmp44KaK9/devtoolsa7846de1723/USGS-R-smwrStats-0d11d62"  \
  --library="c:/RLibrary" --install-tests 

* installing *source* package 'smwrStats' ...
** libs

*** arch - i386
gfortran -m32     -O3  -mtune=core2 -c d_logam.f -o d_logam.o
make: gfortran: Command not found
make: *** [d_logam.o] Error 127
Warning: running command 'make -f "d:/R/etc/i386/Makeconf" -f "d:/R/share/make/winshlib.mk" SHLIB="smwrStats.dll" SHLIB_LIBADD='$(FLIBS)' OBJECTS="d_logam.o phimvue.o seakenF.o vssort.o"' had status 2
ERROR: compilation failed for package 'smwrStats'
* removing 'c:/RLibrary/smwrStats'
Error: Command failed (1)
Execution halted
Command exited with code 1
travis-tool.sh dump_logs
+ CRAN=http://cran.rstudio.com
+ BIOC=http://bioconductor.org/biocLite.R
+ BIOC_USE_DEVEL=TRUE
++ uname -s
+ OS=MINGW32_NT-6.2
+ PANDOC_VERSION=1.13.1
+ PANDOC_DIR=/opt/pandoc
+ PANDOC_URL=https://s3.amazonaws.com/rstudio-buildtools/pandoc-1.13.1.zip
+ PATH='/d/R/bin/i386:/usr/bin:/c/Program Files (x86)/Git/bin:/c/Perl/site/bin:/c/Perl/bin:/c/Windows/system32:/c/Windows:/c/Windows/System32/Wbem:/c/Windows/System32/WindowsPowerShell/v1.0/:/c/Program Files (x86)/Mercurial:/c/Program Files/7-Zip:/c/Program Files/Microsoft Windows Performance Toolkit/:/c/Program Files (x86)/Windows Kits/8.1/Windows Performance Toolkit/:/c/Program Files/Microsoft SQL Server/110/Tools/Binn/:/c/Program Files (x86)/Microsoft ASP.NET/ASP.NET Web Pages/v1.0/:/c/Program Files (x86)/Microsoft SDKs/Windows Azure/CLI/wbin:/c/Program Files (x86)/Microsoft Visual Studio 12.0/Common7/IDE/CommonExtensions/Microsoft/TestWindow:/c/Tools/xUnit:/c/Tools/NUnit/bin:/c/Tools/NuGet:/c/Python27:/c/Program Files (x86)/Microsoft SQL Server/100/Tools/Binn/:/c/Program Files/Microsoft SQL Server/100/Tools/Binn/:/c/Program Files/Microsoft SQL Server/100/DTS/Binn/:/c/Program Files (x86)/Microsoft SQL Server/100/Tools/Binn/VSShell/Common7/IDE/:/c/Program Files (x86)/Microsoft Visual Studio 9.0/Common7/IDE/PrivateAssemblies/:/c/Program Files (x86)/Microsoft SQL Server/100/DTS/Binn/:/c/Program Files (x86)/Microsoft SQL Server/110/Tools/Binn/:/c/Program Files/Microsoft SQL Server/110/DTS/Binn/:/c/Program Files (x86)/Microsoft SQL Server/110/Tools/Binn/ManagementStudio/:/c/Program Files (x86)/Microsoft Visual Studio 10.0/Common7/IDE/PrivateAssemblies/:/c/Program Files (x86)/Microsoft SQL Server/110/DTS/Binn/:/c/Program Files/Microsoft SQL Server/120/Tools/Binn/:/c/Program Files/Microsoft SQL Server/Client SDK/ODBC/110/Tools/Binn/:/c/Program Files (x86)/Microsoft SQL Server/120/Tools/Binn/:/c/Program Files/Microsoft SQL Server/120/DTS/Binn/:/c/Program Files (x86)/Microsoft SQL Server/120/Tools/Binn/ManagementStudio/:/c/Program Files (x86)/Microsoft SQL Server/120/DTS/Binn/:/c/Tools/WebDriver:/c/Program Files/Microsoft/Web Platform Installer/:/c/Tools/MSpec:/c/Program Files (x86)/nodejs:/c/ProgramData/chocolatey/bin:/c/Tools/GitVersion:/c/Program Files/nodejs:/c/Program Files (x86)/Git/cmd:/c/Program Files (x86)/Git/bin:/c/Program Files (x86)/CollabNet/Subversion Client:/c/Program Files (x86)/iojs:/c/Program Files/iojs:/c/Users/appveyor/AppData/Roaming/npm:/c/Program Files (x86)/Microsoft SDKs/TypeScript/1.4/:/c/Program Files/Windows Fabric/bin/Fabric/Fabric.Code.1.0:/c/Program Files (x86)/Microsoft SDKs/TypeScript/1.0/:/c/Ruby193/bin:/c/Program Files (x86)/CMake/bin:/c/go/bin:/c/Tools/Coverity/bin:/c/Program Files/erl6.3/bin:/c/Program Files/Amazon/AWSCLI/:/c/Program Files (x86)/GtkSharp/2.12/bin:/c/Users/appveyor/.dnx/bin:/c/Program Files/Microsoft DNX/Dnvm/:/c/Program Files (x86)/Windows Kits/10/Windows Performance Toolkit/:/c/Program Files (x86)/MSBuild/14.0/Bin:/c/Program Files (x86)/Windows Phone TShell/:/c/Program Files/Java/jdk1.8.0/bin:/c/Program Files (x86)/Microsoft Visual Studio 14.0/Common7/IDE/Extensions/Microsoft/SQLDB/DAC/120:/c/Chocolatey/bin:/c/Program Files/AppVeyor/BuildAgent/:/usr/texbin'
+ R_BUILD_ARGS='--no-build-vignettes --no-manual'
+ R_CHECK_ARGS='--no-build-vignettes --no-manual --no-multiarch'
+ R_USE_BIOC_CMDS='source('\''http://bioconductor.org/biocLite.R'\''); tryCatch(useDevel(TRUE), error=function(e) {if (!grepl('\''already in use'\'', e)) {e}}); options(repos=biocinstallRepos());'
+ COMMAND=dump_logs
+ echo 'Running command: dump_logs'
Running command: dump_logs
+ shift
+ case $COMMAND in
+ DumpLogs
+ echo 'Dumping test execution logs.'
Dumping test execution logs.
+ DumpLogsByExtension out
+ [[ -z out ]]
+ extension=out
+ shift
++ find . -maxdepth 1 -name '*.Rcheck' -type d
+ package=
+ [[ 1 -ne 1 ]]
++ find '' -type f -name '*out'
find: cannot search `': No such file or directory 
+ DumpLogsByExtension log
+ [[ -z log ]]
+ extension=log
+ shift
++ find . -maxdepth 1 -name '*.Rcheck' -type d
+ package=
+ [[ 1 -ne 1 ]]
++ find '' -type f -name '*log'
find: cannot search `': No such file or directory 
+ DumpLogsByExtension fail
+ [[ -z fail ]]
+ extension=fail
+ shift
++ find . -maxdepth 1 -name '*.Rcheck' -type d
+ package=
+ [[ 1 -ne 1 ]]
++ find '' -type f -name '*fail'
find: cannot search `': No such file or directory

So...no [longer] any gfortran on appveyor?

appling · 2015-11-12T18:36:37Z

Back in September, appveyor log gave:

*** arch - i386
gfortran -m32     -O3  -mtune=core2 -c d_logam.f -o d_logam.o
gfortran -m32     -O3  -mtune=core2 -c phimvue.f -o phimvue.o
gfortran -m32     -O3  -mtune=core2 -c seakenF.f -o seakenF.o
gfortran -m32     -O3  -mtune=core2 -c vssort.f -o vssort.o
gcc -m32 -shared -s -static-libgcc -o smwrStats.dll tmp.def d_logam.o phimvue.o seakenF.o vssort.o -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -lgfortran -Le:/R/bin/i386 -lR
installing to c:/RLibrary/smwrStats/libs/i386

Today, appveyor log gives:

*** arch - i386
gfortran -m32     -O3  -mtune=core2 -c d_logam.f -o d_logam.o
make: gfortran: Command not found
make: *** [d_logam.o] Error 127
Warning: running command 'make -f "d:/R/etc/i386/Makeconf" -f "d:/R/share/make/winshlib.mk" SHLIB="smwrStats.dll" SHLIB_LIBADD='$(FLIBS)' OBJECTS="d_logam.o phimvue.o seakenF.o vssort.o"' had status 2
ERROR: compilation failed for package 'smwrStats

I'm at a loss. @ldecicco-USGS or @lawinslow, does this happen to look familiar to either of you?

appling · 2015-11-12T19:10:39Z

might be related to recent/ongoing edits to https://github.com/krlmlr/r-appveyor/blob/master/scripts/appveyor-tool.ps1

appling · 2015-11-13T00:46:01Z

pulling because i want the readme changes there already. making new issue for appveyor fails, which i'm hoping will be cured by near-term development on the r-appveyor side

work on #53

appling added 8 commits July 13, 2015 11:06

cyclic dependencies fix?

1a6f6ff

fixed now?

d0d7d96

nope, previous commit was regressing

890f646

add .Rprofile to autobuilds

fddf0ae

fix DOI-USGS#64

bb9b99e

travis = linux already

e035b7b

github tags for autobuild dependencies

6798882

use newer unitted release

c8d03df

appling added a commit that referenced this pull request Nov 13, 2015

Merge pull request #63 from appling/master

5babaa8

work on #53

appling merged commit 5babaa8 into DOI-USGS:master Nov 13, 2015

appling mentioned this pull request Nov 13, 2015

appveyor failure #67

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work on #53 #63

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appling commented Jul 15, 2015

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appling commented Nov 13, 2015

work on #53 #63

work on #53 #63

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