Hi All;
This problem has come about from trying to learn some of the review practices
recommend by rOpensci. One of them is to use the package goodpractice. After
installing goodpractice, it kept failing on my own packages which are under
development, and I was concerned something was funny in my own , so I have a
fork of the package rerddap, and I tested goodpractice on that. I get the
error:
> Error in set_makevars(new, path, makevars_file, assignment = assignment) :
> Multiple results for CXXFLAGS found, something is wrong.FALSE
>
So after some playing around that is from the very first test, which uses the
covr:package_coverage(), and sure enough running that produces the same error.
Looking at the code, that error is being thrown by the function
withr::set_makevars(). We are now too many layers deep into packages for me to
follow what is going on, but the kicker is Scott Chamberlain can run it
without any errors on the same package. Session_info for both of us follows.
If any one has any suggestions both as to what is causing this and a possible
solution, would appreciate it.
Roy's sessionInfo is after running the commands:
Sys.setenv(NOT_CRAN = "true")
x = goodpractice::gp(path = ".", checks = all_checks()[2:230])
Scott's is after running:
Sys.setenv(NOT_CRAN = "true")
x = goodpractice::gp()
Roy's_session_info()
─ Session info
──────────────────────────────────────────────────────────────────────────────────────────────────────────────
setting value
version R version 3.4.1 (2017-06-30)
os macOS Sierra 10.12.6
system x86_64, darwin15.6.0
ui RStudio
language (EN)
collate en_US.UTF-8
tz America/Los_Angeles
date 2017-09-06
─ Packages package * version date source
assertthat 0.2.0 2017-04-11 CRAN (R 3.4.1)
backports 1.1.0 2017-05-22 CRAN (R 3.4.0)
callr 1.0.0.9000 2017-09-02 Github (r-lib/callr@2dffbbe)
clisymbols 1.2.0 2017-09-02 Github (gaborcsardi/clisymbols@e49b4f5)
covr 3.0.0 2017-06-26 CRAN (R 3.4.1)
crayon 1.3.2.9000 2017-08-25 Github (gaborcsardi/crayon@e4dba3b)
cyclocomp 1.1.0 2017-09-02 Github (MangoTheCat/cyclocomp@6156a12)
debugme 1.0.2 2017-03-01 CRAN (R 3.4.0)
desc 1.1.1 2017-08-03 CRAN (R 3.4.1)
devtools 1.13.3.9000 2017-08-31 Github (hadley/devtools@91490d1)
digest 0.6.12 2017-01-27 CRAN (R 3.4.1)
goodpractice * 1.0.0 2017-09-02 Github (MangoTheCat/goodpractice@9969799)
httr 1.3.1 2017-08-20 CRAN (R 3.4.1)
igraph 1.1.2 2017-07-21 CRAN (R 3.4.1)
jsonlite 1.5 2017-06-01 CRAN (R 3.4.0)
knitr 1.17 2017-08-10 CRAN (R 3.4.1)
lazyeval 0.2.0 2016-06-12 CRAN (R 3.4.0)
lintr 1.0.1 2017-08-10 CRAN (R 3.4.1)
magrittr 1.5 2014-11-22 CRAN (R 3.4.0)
memoise 1.1.0 2017-04-21 CRAN (R 3.4.0)
pkgbuild 0.0.0.9000 2017-08-31 Github (r-lib/pkgbuild@6574561)
pkgconfig 2.0.1 2017-03-21 CRAN (R 3.4.0)
pkgload 0.0.0.9000 2017-08-31 Github (r-pkgs/pkgload@80a6493)
praise 1.0.0 2015-08-11 CRAN (R 3.4.0)
processx 2.0.0.1 2017-07-30 CRAN (R 3.4.1)
R6 2.2.2 2017-06-17 CRAN (R 3.4.0)
rcmdcheck 1.2.1 2016-09-28 CRAN (R 3.4.0)
Rcpp 0.12.12 2017-07-15 CRAN (R 3.4.1)
remotes 1.1.0 2017-07-09 CRAN (R 3.4.1)
rex 1.1.1 2016-12-05 CRAN (R 3.4.0)
rlang 0.1.2.9000 2017-09-05 Github (tidyverse/rlang@fd64bce)
rprojroot 1.2 2017-01-16 CRAN (R 3.4.0)
rstudioapi 0.6.0.9000 2017-08-31 Github (rstudio/rstudioapi@e1e466b)
sessioninfo 1.0.1 2017-08-31 Github (r-lib/sessioninfo@e813de4)
stringi 1.1.5 2017-04-07 CRAN (R 3.4.0)
stringr 1.2.0 2017-02-18 CRAN (R 3.4.0)
usethis 0.0.0.9000 2017-08-31 Github (r-lib/usethis@12e6f95)
whoami 1.1.1 2015-07-13 CRAN (R 3.4.0)
withr 2.0.0 2017-07-28 CRAN (R 3.4.1)
xml2 1.1.1 2017-01-24 CRAN (R 3.4.0)
xmlparsedata 1.0.1 2016-06-18 CRAN (R 3.4.0)
yaml 2.1.14 2016-11-12 CRAN (R 3.4.0)
Scott's _ sessionInfo()
Session info ------------------------------------------------------------------
setting value
version R version 3.4.1 Patched (2017-07-04 r72893)
system x86_64, darwin15.6.0
ui X11
language (EN)
collate en_US.UTF-8
tz America/Los_Angeles
date 2017-09-06
Packages ----------------------------------------------------------------------
package * version date source
assertthat 0.2.0 2017-04-11 CRAN (R 3.4.0)
backports 1.1.0 2017-05-22 CRAN (R 3.4.0)
base * 3.4.1 2017-07-06 local
callr 1.0.0.9000 2017-07-31 Github (r-lib/callr@ce3f15c)
clisymbols 1.2.0 2017-06-10 Github (gaborcsardi/clisymbols@83b13a0)
compiler 3.4.1 2017-07-06 local
covr 3.0.0 2017-06-26 CRAN (R 3.4.0)
crayon 1.3.2.9000 2017-07-31 Github (gaborcsardi/crayon@750190f)
cyclocomp 1.1.0 2017-05-04 Github (MangoTheCat/cyclocomp@6156a12)
datasets * 3.4.1 2017-07-06 local
debugme 1.0.2 2017-03-01 cran (@1.0.2)
desc 1.1.1 2017-08-03 CRAN (R 3.4.1)
devtools * 1.13.3 2017-08-02 CRAN (R 3.4.1)
digest 0.6.12 2017-01-27 CRAN (R 3.4.0)
goodpractice 1.0.0 2017-06-10 Github (MangoTheCat/goodpractice@9969799)
graphics * 3.4.1 2017-07-06 local
grDevices * 3.4.1 2017-07-06 local
httr 1.3.1 2017-08-20 CRAN (R 3.4.1)
jsonlite 1.5 2017-06-01 CRAN (R 3.4.0)
lazyeval 0.2.0 2016-06-12 CRAN (R 3.4.0)
lintr 1.0.1 2017-08-10 CRAN (R 3.4.1)
magrittr 1.5 2014-11-22 CRAN (R 3.4.0)
memoise 1.1.0 2017-04-21 CRAN (R 3.4.0)
methods * 3.4.1 2017-07-06 local
praise 1.0.0 2015-08-11 CRAN (R 3.4.0)
prettyunits 1.0.2 2015-07-13 CRAN (R 3.4.0)
processx 2.0.1.9000 2017-07-31 Github (r-lib/processx@c02b0f3)
R6 2.2.2 2017-06-17 CRAN (R 3.4.0)
rcmdcheck 1.2.1.9000 2017-06-10 Github (r-pkgs/rcmdcheck@a18119c)
Rcpp 0.12.12 2017-07-15 cran (@0.12.12)
remotes 1.1.0 2017-07-09 CRAN (R 3.4.1)
rex 1.1.1 2016-03-11 CRAN (R 3.4.0)
rprojroot 1.2 2017-01-16 CRAN (R 3.4.0)
rstudioapi 0.6 2016-06-27 CRAN (R 3.4.0)
stats * 3.4.1 2017-07-06 local
tools 3.4.1 2017-07-06 local
utils * 3.4.1 2017-07-06 local
whoami 1.1.1 2015-07-13 CRAN (R 3.4.0)
withr 2.0.0 2017-09-05 Github (jimhester/withr@eff4818)
xml2 1.1.1 2017-01-24 CRAN (R 3.4.0)
xmlparsedata 1.0.1 2016-06-18 cran (@1.0.1)
**********************
"The contents of this message do not reflect any position of the U.S.
Government or NOAA."
**********************
Roy Mendelssohn
Supervisory Operations Research Analyst
NOAA/NMFS
Environmental Research Division
Southwest Fisheries Science Center
***Note new street address***
110 McAllister Way
Santa Cruz, CA 95060
Phone: (831)-420-3666
Fax: (831) 420-3980
e-mail: [email protected] www: http://www.pfeg.noaa.gov/
"Old age and treachery will overcome youth and skill."
"From those who have been given much, much will be expected"
"the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
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