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pik-piam / magpie4

R package | MAgPIE outputs R package for MAgPIE version 4.x
GNU Lesser General Public License v3.0
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Cannot be loaded in macOS #38

Closed XiangLiu-github closed 1 year ago

XiangLiu-github commented 1 year ago

Hi, Thanks for developing this package.

I want to install magpie for modeling food demand in macOS, M2 chip. I already install GAMS as well as its license.

However, it cannot be loaded.

When I:

library(magpie4)

It produces:

Loading required package: gdx
Loading required package: gdxrrw
Loading required package: magclass
Error loading the GDX API from gamsSysDir=
Could not load shared library /Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib: dlopen(/Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib, 0x0002): tried: '/Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib' (ma
Environment variable R_GAMS_SYSDIR not set: no GDX API there
Error loading the GDX API via the default shared library search mechanism
Could not load shared library libgdxdclib64.dylib: dlopen(libgdxdclib64.dylib, 0x0002): tried: 'libgdxdclib64.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OSlibgdxdclib64.dylib' (no such file), '/opt/homebrew/opt/llvm/lib/libgdxdclib64.dylib'
DYLD_LIBRARY_PATH is not set!
The GDX library has not been loaded
Error loading the GDX API from gamsSysDir=
Could not load shared library /Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib: dlopen(/Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib, 0x0002): tried: '/Library/Frameworks/GAMS.framework/Resources/libgdxdclib64.dylib' (ma
Environment variable R_GAMS_SYSDIR not set: no GDX API there
Error loading the GDX API via the default shared library search mechanism
Could not load shared library libgdxdclib64.dylib: dlopen(libgdxdclib64.dylib, 0x0002): tried: 'libgdxdclib64.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OSlibgdxdclib64.dylib' (no such file), '/opt/homebrew/opt/llvm/lib/libgdxdclib64.dylib'
DYLD_LIBRARY_PATH is not set!
The GDX library has not been loaded

Here is my session information:

─ Session info ───────────────────────────────────────
 setting  value
 version  R version 4.2.1 (2022-06-23)
 os       macOS Ventura 13.1
 system   aarch64, darwin20
 ui       RStudio
 language (EN)
 collate  en_US.UTF-8
 ctype    en_US.UTF-8
 tz       Asia/Shanghai
 date     2023-01-18
 rstudio  2022.12.0+353 Elsbeth Geranium (desktop)
 pandoc   2.18 @ /opt/homebrew/bin/pandoc

─ Packages ───────────────────────────────────────────
 package      * version  date (UTC) lib source
 abind          1.4-5    2016-07-21 [1] CRAN (R 4.2.0)
 assertthat     0.2.1    2019-03-21 [1] CRAN (R 4.2.0)
 backports      1.4.1    2021-12-13 [1] CRAN (R 4.2.0)
 base64enc      0.1-3    2015-07-28 [1] CRAN (R 4.2.0)
 cachem         1.0.6    2021-08-19 [1] CRAN (R 4.2.0)
 callr          3.7.3    2022-11-02 [1] CRAN (R 4.2.0)
 cellranger     1.1.0    2016-07-27 [1] CRAN (R 4.2.0)
 checkmate      2.1.0    2022-04-21 [1] CRAN (R 4.2.0)
 citation       0.6.3    2022-08-18 [1] CRAN (R 4.2.0)
 cli            3.5.0    2022-12-20 [1] CRAN (R 4.2.0)
 cluster        2.1.4    2022-08-22 [1] CRAN (R 4.2.0)
 colorspace     2.0-3    2022-02-21 [1] CRAN (R 4.2.0)
 countrycode    1.4.0    2022-05-04 [1] CRAN (R 4.2.0)
 crayon         1.5.2    2022-09-29 [1] CRAN (R 4.2.0)
 cyclocomp      1.1.0    2016-09-10 [1] CRAN (R 4.2.0)
 data.table     1.14.6   2022-11-16 [1] CRAN (R 4.2.0)
 DBI            1.1.3    2022-06-18 [1] CRAN (R 4.2.0)
 deldir         1.0-6    2021-10-23 [1] CRAN (R 4.2.0)
 desc           1.4.2    2022-09-08 [1] CRAN (R 4.2.0)
 devtools       2.4.5    2022-10-11 [1] CRAN (R 4.2.0)
 digest         0.6.31   2022-12-11 [1] CRAN (R 4.2.0)
 dotCall64      1.0-2    2022-10-03 [1] CRAN (R 4.2.0)
 dplyr          1.0.10   2022-09-01 [1] CRAN (R 4.2.0)
 ellipsis       0.3.2    2021-04-29 [1] CRAN (R 4.2.0)
 fansi          1.0.3    2022-03-24 [1] CRAN (R 4.2.0)
 fastmap        1.1.0    2021-01-25 [1] CRAN (R 4.2.0)
 fields         14.1     2022-08-12 [1] CRAN (R 4.2.0)
 filelock       1.0.2    2018-10-05 [1] CRAN (R 4.2.0)
 forcats        0.5.2    2022-08-19 [1] CRAN (R 4.2.0)
 foreign        0.8-84   2022-12-06 [1] CRAN (R 4.2.0)
 Formula        1.2-4    2020-10-16 [1] CRAN (R 4.2.0)
 fs             1.5.2    2021-12-08 [1] CRAN (R 4.2.0)
 gdx          * 1.51.5   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 gdxrrw       * 1.0.10   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 generics       0.1.3    2022-07-05 [1] CRAN (R 4.2.0)
 geometry       0.4.6.1  2022-07-04 [1] CRAN (R 4.2.0)
 ggplot2        3.4.0    2022-11-04 [1] CRAN (R 4.2.0)
 glue           1.6.2    2022-02-24 [1] CRAN (R 4.2.0)
 gms            0.23.1   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 gridExtra      2.3      2017-09-09 [1] CRAN (R 4.2.0)
 gtable         0.3.1    2022-09-01 [1] CRAN (R 4.2.0)
 Hmisc          4.7-2    2022-11-18 [1] CRAN (R 4.2.0)
 hms            1.1.2    2022-08-19 [1] CRAN (R 4.2.0)
 htmlTable      2.4.1    2022-07-07 [1] CRAN (R 4.2.0)
 htmltools      0.5.4    2022-12-07 [1] CRAN (R 4.2.0)
 htmlwidgets    1.6.1    2023-01-07 [1] CRAN (R 4.2.1)
 httpuv         1.6.7    2022-12-14 [1] CRAN (R 4.2.0)
 httr           1.4.4    2022-08-17 [1] CRAN (R 4.2.0)
 igraph         1.3.5    2022-09-22 [1] CRAN (R 4.2.0)
 interp         1.1-3    2022-07-13 [1] CRAN (R 4.2.0)
 jpeg           0.1-10   2022-11-29 [1] CRAN (R 4.2.0)
 jsonlite       1.8.4    2022-12-06 [1] CRAN (R 4.2.0)
 KernSmooth     2.23-20  2021-05-03 [1] CRAN (R 4.2.1)
 knitr          1.41     2022-11-18 [1] CRAN (R 4.2.1)
 later          1.3.0    2021-08-18 [1] CRAN (R 4.2.0)
 lattice        0.20-45  2021-09-22 [1] CRAN (R 4.2.1)
 latticeExtra   0.6-30   2022-07-04 [1] CRAN (R 4.2.0)
 lazyeval       0.2.2    2019-03-15 [1] CRAN (R 4.2.0)
 lifecycle      1.0.3    2022-10-07 [1] CRAN (R 4.2.0)
 lintr          3.0.2    2022-10-19 [1] CRAN (R 4.2.0)
 lpSolve        5.6.17   2022-10-10 [1] CRAN (R 4.2.0)
 lucode2        0.43.9   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 luplot         3.54.2   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 luscale        2.26.5   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 lusweave       1.46.3   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 madrat         2.22.1   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 magclass     * 6.8.0    2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 magic          1.6-1    2022-11-16 [1] CRAN (R 4.2.0)
 magpie4      * 1.170.2  2023-01-18 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 magpiesets     0.45.3   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 magrittr       2.0.3    2022-03-30 [1] CRAN (R 4.2.0)
 maps           3.4.1    2022-10-30 [1] CRAN (R 4.2.0)
 maptools       1.1-6    2022-12-14 [1] CRAN (R 4.2.0)
 Matrix         1.5-3    2022-11-11 [1] CRAN (R 4.2.0)
 memoise        2.0.1    2021-11-26 [1] CRAN (R 4.2.0)
 mime           0.12     2021-09-28 [1] CRAN (R 4.2.0)
 miniUI         0.1.1.1  2018-05-18 [1] CRAN (R 4.2.0)
 mip            0.140.1  2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 mstools        0.3.0    2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 munsell        0.5.0    2018-06-12 [1] CRAN (R 4.2.0)
 nnet           7.3-18   2022-09-28 [1] CRAN (R 4.2.0)
 nonparaeff     0.5-13   2022-06-21 [1] CRAN (R 4.2.0)
 pillar         1.8.1    2022-08-19 [1] CRAN (R 4.2.0)
 pkgbuild       1.4.0    2022-11-27 [1] CRAN (R 4.2.0)
 pkgconfig      2.0.3    2019-09-22 [1] CRAN (R 4.2.0)
 pkgload        1.3.2    2022-11-16 [1] CRAN (R 4.2.1)
 plotly         4.10.1   2022-11-07 [1] CRAN (R 4.2.0)
 plyr           1.8.8    2022-11-11 [1] CRAN (R 4.2.0)
 png            0.1-8    2022-11-29 [1] CRAN (R 4.2.0)
 prettyunits    1.1.1    2020-01-24 [1] CRAN (R 4.2.0)
 processx       3.8.0    2022-10-26 [1] CRAN (R 4.2.0)
 profvis        0.3.7    2020-11-02 [1] CRAN (R 4.2.0)
 promises       1.2.0.1  2021-02-11 [1] CRAN (R 4.2.0)
 ps             1.7.2    2022-10-26 [1] CRAN (R 4.2.0)
 purrr          1.0.0    2022-12-20 [1] CRAN (R 4.2.0)
 qualV          0.3-4    2021-10-07 [1] CRAN (R 4.2.0)
 quitte         0.3108.2 2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 R.cache        0.16.0   2022-07-21 [1] CRAN (R 4.2.0)
 R.methodsS3    1.8.2    2022-06-13 [1] CRAN (R 4.2.0)
 R.oo           1.25.0   2022-06-12 [1] CRAN (R 4.2.0)
 R.utils        2.12.2   2022-11-11 [1] CRAN (R 4.2.0)
 R6             2.5.1    2021-08-19 [1] CRAN (R 4.2.0)
 RColorBrewer   1.1-3    2022-04-03 [1] CRAN (R 4.2.0)
 Rcpp           1.0.9    2022-07-08 [1] CRAN (R 4.2.0)
 readr          2.1.3    2022-10-01 [1] CRAN (R 4.2.0)
 readxl         1.4.1    2022-08-17 [1] CRAN (R 4.2.0)
 remotes        2.4.2    2021-11-30 [1] CRAN (R 4.2.0)
 renv           0.16.0   2022-09-29 [1] CRAN (R 4.2.0)
 reshape2       1.4.4    2020-04-09 [1] CRAN (R 4.2.0)
 rex            1.2.1    2021-11-26 [1] CRAN (R 4.2.0)
 rlang          1.0.6    2022-09-24 [1] CRAN (R 4.2.0)
 rpart          4.1.19   2022-10-21 [1] CRAN (R 4.2.0)
 rprojroot      2.0.3    2022-04-02 [1] CRAN (R 4.2.0)
 rstudioapi     0.14     2022-08-22 [1] CRAN (R 4.2.0)
 rworldmap      1.3-6    2016-02-03 [1] CRAN (R 4.2.0)
 scales         1.2.1    2022-08-20 [1] CRAN (R 4.2.0)
 sessioninfo    1.2.2    2021-12-06 [1] CRAN (R 4.2.0)
 shiny          1.7.4    2022-12-15 [1] CRAN (R 4.2.0)
 sp             1.5-1    2022-11-07 [1] CRAN (R 4.2.0)
 spam           2.9-1    2022-08-07 [1] CRAN (R 4.2.0)
 stringi        1.7.8    2022-07-11 [1] CRAN (R 4.2.0)
 stringr        1.5.0    2022-12-02 [1] CRAN (R 4.2.0)
 styler         1.9.0    2023-01-15 [1] CRAN (R 4.2.0)
 survival       3.4-0    2022-08-09 [1] CRAN (R 4.2.0)
 tibble         3.1.8    2022-07-22 [1] CRAN (R 4.2.0)
 tidyr          1.2.1    2022-09-08 [1] CRAN (R 4.2.0)
 tidyselect     1.2.0    2022-10-10 [1] CRAN (R 4.2.0)
 trafficlight   1.13.1   2023-01-17 [1] https://rse.pik-potsdam.de/r/packages (R 4.2.1)
 tzdb           0.3.0    2022-03-28 [1] CRAN (R 4.2.0)
 urlchecker     1.0.1    2021-11-30 [1] CRAN (R 4.2.0)
 usethis        2.1.6    2022-05-25 [1] CRAN (R 4.2.0)
 utf8           1.2.2    2021-07-24 [1] CRAN (R 4.2.0)
 vctrs          0.5.1    2022-11-16 [1] CRAN (R 4.2.0)
 viridis        0.6.2    2021-10-13 [1] CRAN (R 4.2.0)
 viridisLite    0.4.1    2022-08-22 [1] CRAN (R 4.2.0)
 withr          2.5.0    2022-03-03 [1] CRAN (R 4.2.0)
 writexl        1.4.2    2023-01-06 [1] CRAN (R 4.2.0)
 xfun           0.36     2022-12-21 [1] CRAN (R 4.2.0)
 xml2           1.3.3    2021-11-30 [1] CRAN (R 4.2.0)
 xtable         1.8-4    2019-04-21 [1] CRAN (R 4.2.0)
 yaml           2.3.6    2022-10-18 [1] CRAN (R 4.2.0)
 zoo            1.8-11   2022-09-17 [1] CRAN (R 4.2.0)

 [1] /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library

Do you have any idea how to make it work?

flohump commented 1 year ago

You need to set the R_GAMS_SYSDIR in /etc/paths. e.g. with nano /etc/paths /Library/Frameworks/GAMS.framework/Versions/41/Resources

flohump commented 1 year ago

The path variable can be in different locations. https://www.gams.com/latest/docs/UG_MAC_INSTALL.html#UG_MAC_PKG_INSTALL

XiangLiu-github commented 1 year ago

Thanks for your response @flohump

I put the line /Library/Frameworks/GAMS.framework/Versions/41/Resources into /etc/paths file and restarted the system. Error still occurred.

I test the GAMS installation by using

gamslib trnsport
gams trnsport

The results seem fine.

flohump commented 1 year ago

If you just run gams what does the line starting with System Directory show?

XiangLiu-github commented 1 year ago 
*** GAMS Release     : 41.5.0 2a5a4ddc DEX-DEG x86 64bit/macOS
*** Release Date     : Jan 3, 2023          
*** To use this release, you must have a valid license file for
*** this platform with maintenance expiration date later than
*** Oct 28, 2022
*** System Directory : /Library/Frameworks/GAMS.framework/Versions/41/Resources/
*** License          : /Users/xiangliu/Library/Application Support/GAMS/gamslice.txt
flohump commented 1 year ago

Maybe you have to build gdxrrw and gdx on your machine because you have an M2 Apple chip. install.packages("X", repos = "Y", type="source")

XiangLiu-github commented 1 year ago

Sorry for the mistake, I just realize that I did not restart R. Anyway, Installing from source is still not working.

XiangLiu-github commented 1 year ago

It turns out Docker and conda saved me.