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ANTsX / ITKR

port of ITK to R
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Issues now allover with Math #47

Closed muschellij2 closed 2 years ago

muschellij2 commented 4 years ago

Tried to recompile ITKR so that ITKR/ANTsRCore are compiled same way, now getting erros similar to https://github.com/ANTsX/ANTsR/issues/291 r

-- Performing Test standard_math_library_linked_to_as_m
-- Performing Test standard_math_library_linked_to_as_m - Failed
CMake Error at Modules/ThirdParty/Eigen3/src/itkeigen/CMakeLists.txt:124 (message):
  Can't link to the standard math library.  Please report to the Eigen
  developers, telling them about your platform.

May need to update the ITK tag? Eigen3 issues.

adigherman commented 4 years ago

Reinstalled ITKR/ANTsRCore/ANTsR from scratch, was not able to replicate this issue.

> devtools::session_info()
─ Session info ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
 setting  value                       
 version  R version 3.6.2 (2019-12-12)
 os       macOS Catalina 10.15.3      
 system   x86_64, darwin15.6.0        
 ui       RStudio                     
 language (EN)                        
 collate  en_US.UTF-8                 
 ctype    en_US.UTF-8                 
 tz       America/New_York            
 date     2020-02-03                  

─ Packages ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
 package     * version   date       lib source                           
 ANTsR       * 0.5.4.2   2020-02-03 [1] Github (ANTsX/ANTsR@685d5f6)     
 ANTsRCore   * 0.7.3     2020-02-03 [1] Github (ANTsX/ANTsRCore@f07dbd9) 
 assertthat    0.2.1     2019-03-21 [1] CRAN (R 3.6.0)                   
 backports     1.1.5     2019-10-02 [1] CRAN (R 3.6.0)                   
 callr         3.4.1     2020-01-24 [1] CRAN (R 3.6.0)                   
 cli           2.0.1     2020-01-08 [1] CRAN (R 3.6.0)                   
 crayon        1.3.4     2017-09-16 [1] CRAN (R 3.6.0)                   
 desc          1.2.0     2019-05-20 [1] Github (muschellij2/desc@b0c374f)
 devtools      2.2.1     2019-09-24 [1] CRAN (R 3.6.0)                   
 digest        0.6.23    2019-11-23 [1] CRAN (R 3.6.0)                   
 ellipsis      0.3.0     2019-09-20 [1] CRAN (R 3.6.0)                   
 fansi         0.4.1     2020-01-08 [1] CRAN (R 3.6.0)                   
 fs            1.3.1     2019-05-06 [1] CRAN (R 3.6.0)                   
 glue          1.3.1     2019-03-12 [1] CRAN (R 3.6.0)                   
 ITKR        * 0.5.2     2020-02-03 [1] Github (stnava/ITKR@fe97efa)     
 lattice       0.20-38   2018-11-04 [1] CRAN (R 3.6.2)                   
 magrittr      1.5       2014-11-22 [1] CRAN (R 3.6.0)                   
 Matrix        1.2-18    2019-11-27 [1] CRAN (R 3.6.2)                   
 memoise       1.1.0     2017-04-21 [1] CRAN (R 3.6.0)                   
 pkgbuild      1.0.6     2019-10-09 [1] CRAN (R 3.6.0)                   
 pkgload       1.0.2     2018-10-29 [1] CRAN (R 3.6.0)                   
 prettyunits   1.1.1     2020-01-24 [1] CRAN (R 3.6.0)                   
 processx      3.4.1     2019-07-18 [1] CRAN (R 3.6.0)                   
 ps            1.3.0     2018-12-21 [1] CRAN (R 3.6.0)                   
 R6            2.4.1     2019-11-12 [1] CRAN (R 3.6.0)                   
 Rcpp          1.0.3     2019-11-08 [1] CRAN (R 3.6.0)                   
 RcppEigen     0.3.3.7.0 2019-11-16 [1] CRAN (R 3.6.0)                   
 remotes       2.1.0     2019-06-24 [1] CRAN (R 3.6.0)                   
 rlang         0.4.4     2020-01-28 [1] CRAN (R 3.6.0)                   
 rprojroot     1.3-2     2018-01-03 [1] CRAN (R 3.6.0)                   
 rstudioapi    0.10      2019-03-19 [1] CRAN (R 3.6.0)                   
 sessioninfo   1.1.1     2018-11-05 [1] CRAN (R 3.6.0)                   
 testthat      2.3.1     2019-12-01 [1] CRAN (R 3.6.0)                   
 usethis       1.5.1     2019-07-04 [1] CRAN (R 3.6.0)                   
 withr         2.1.2     2018-03-15 [1] CRAN (R 3.6.0)
muschellij2 commented 4 years ago

This may be a Mojave issue

On Mon, Feb 3, 2020 at 3:59 PM Adi G notifications@github.com wrote:

Reinstalled ITKR/ANTsRCore/ANTsR from scratch, was not able to replicate this issue.

devtools::session_info() ─ Session info ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── setting value version R version 3.6.2 (2019-12-12) os macOS Catalina 10.15.3 system x86_64, darwin15.6.0 ui RStudio language (EN) collate en_US.UTF-8 ctype en_US.UTF-8 tz America/New_York date 2020-02-03

─ Packages ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── package version date lib source ANTsR 0.5.4.2 2020-02-03 [1] Github (ANTsX/ANTsR@685d5f6) ANTsRCore 0.7.3 2020-02-03 [1] Github (ANTsX/ANTsRCore@f07dbd9) assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.6.0) backports 1.1.5 2019-10-02 [1] CRAN (R 3.6.0) callr 3.4.1 2020-01-24 [1] CRAN (R 3.6.0) cli 2.0.1 2020-01-08 [1] CRAN (R 3.6.0) crayon 1.3.4 2017-09-16 [1] CRAN (R 3.6.0) desc 1.2.0 2019-05-20 [1] Github (muschellij2/desc@b0c374f) devtools 2.2.1 2019-09-24 [1] CRAN (R 3.6.0) digest 0.6.23 2019-11-23 [1] CRAN (R 3.6.0) ellipsis 0.3.0 2019-09-20 [1] CRAN (R 3.6.0) fansi 0.4.1 2020-01-08 [1] CRAN (R 3.6.0) fs 1.3.1 2019-05-06 [1] CRAN (R 3.6.0) glue 1.3.1 2019-03-12 [1] CRAN (R 3.6.0) ITKR 0.5.2 2020-02-03 [1] Github (stnava/ITKR@fe97efa) lattice 0.20-38 2018-11-04 [1] CRAN (R 3.6.2) magrittr 1.5 2014-11-22 [1] CRAN (R 3.6.0) Matrix 1.2-18 2019-11-27 [1] CRAN (R 3.6.2) memoise 1.1.0 2017-04-21 [1] CRAN (R 3.6.0) pkgbuild 1.0.6 2019-10-09 [1] CRAN (R 3.6.0) pkgload 1.0.2 2018-10-29 [1] CRAN (R 3.6.0) prettyunits 1.1.1 2020-01-24 [1] CRAN (R 3.6.0) processx 3.4.1 2019-07-18 [1] CRAN (R 3.6.0) ps 1.3.0 2018-12-21 [1] CRAN (R 3.6.0) R6 2.4.1 2019-11-12 [1] CRAN (R 3.6.0) Rcpp 1.0.3 2019-11-08 [1] CRAN (R 3.6.0) RcppEigen 0.3.3.7.0 2019-11-16 [1] CRAN (R 3.6.0) remotes 2.1.0 2019-06-24 [1] CRAN (R 3.6.0) rlang 0.4.4 2020-01-28 [1] CRAN (R 3.6.0) rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.6.0) rstudioapi 0.10 2019-03-19 [1] CRAN (R 3.6.0) sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.6.0) testthat 2.3.1 2019-12-01 [1] CRAN (R 3.6.0) usethis 1.5.1 2019-07-04 [1] CRAN (R 3.6.0) withr 2.1.2 2018-03-15 [1] CRAN (R 3.6.0)

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-- Best, John

adigherman commented 4 years ago

I have a Mojave system as well. Starting tests now.