• using R version 4.5.0 beta (2025-03-29 r88074)
• using platform: x86_64-apple-darwin20
• R was compiled by     Apple clang version 14.0.0 (clang-1400.0.29.202)     GNU Fortran (GCC) 14.2.0
• running under: macOS Ventura 13.3.1
• using session charset: UTF-8
• checking for file ‘hgm/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘hgm’ version ‘1.23’
• checking package namespace information ... OK
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘hgm’ can be installed ... [9s/8s] OK See the install log for details.
• used C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
• used SDK: ‘MacOSX11.3.sdk’
• checking installed package size ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking code files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... [0s/0s] OK
• checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the package can be unloaded cleanly ... [0s/0s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
• checking loading without being on the library search path ... [0s/0s] OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [2s/3s] OK
• checking Rd files ... [0s/0s] NOTE checkRd: (-1) hgm.Rhgm.Rd:32: Lost braces; missing escapes or markup?     32 | If time = NULL, the set {0,1} is used, and only the final value is returned.        | ^ checkRd: (-1) hgm.Rhgm.Rd:48: Lost braces; missing escapes or markup?     48 | d G_j / d th_i = (dG.fun(th, G))_{i,j}        | ^ checkRd: (-1) hgm.se.hgm.Bingham.Rd:32: Lost braces; missing escapes or markup?     32 | If time = NULL, the set {0,1} is used, and only the final value is returned.        | ^ checkRd: (-1) hgm.so3nc.Rd:22: Lost braces; missing escapes or markup?     22 | Theta=diag(theta_{ii}) of the Fisher distribution on SO(3).        | ^ checkRd: (-1) hgm.so3nc.Rd:24: Lost braces; missing escapes or markup?     24 | theta_{11}, theta_{22}, theta_{33} respectively.        | ^ checkRd: (-1) hgm.so3nc.Rd:24: Lost braces; missing escapes or markup?     24 | theta_{11}, theta_{22}, theta_{33} respectively.        | ^ checkRd: (-1) hgm.so3nc.Rd:24: Lost braces; missing escapes or markup?     24 | theta_{11}, theta_{22}, theta_{33} respectively.        | ^ checkRd: (-1) hgm.so3nc.Rd:54: Lost braces; missing escapes or markup?     54 | The output is an array of c(Theta) and its derivatives with respect to Theta_{11},Theta_{22},Theta_{33}. It is the vector C of the reference below. When log=1, the output is an array of log of them.        | ^ checkRd: (-1) hgm.so3nc.Rd:54: Lost braces; missing escapes or markup?     54 | The output is an array of c(Theta) and its derivatives with respect to Theta_{11},Theta_{22},Theta_{33}. It is the vector C of the reference below. When log=1, the output is an array of log of them.        | ^ checkRd: (-1) hgm.so3nc.Rd:54: Lost braces; missing escapes or markup?     54 | The output is an array of c(Theta) and its derivatives with respect to Theta_{11},Theta_{22},Theta_{33}. It is the vector C of the reference below. When log=1, the output is an array of log of them.        | ^
• checking Rd metadata ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking line endings in Makefiles ... OK
• checking compilation flags in Makevars ... OK
• checking for GNU extensions in Makefiles ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking compiled code ... OK
• checking examples ... [0s/1s] OK
• checking PDF version of manual ... [6s/10s] OK
• DONE Status: 1 NOTE
• using check arguments '--no-clean-on-error '