* using log directory ‘/srv/hornik/tmp/CRAN_pretest/ambrosia.Rcheck’
* using R Under development (unstable) (2025-03-27 r88065)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (1+b1)
    Debian flang-new version 19.1.7 (1+b1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘ambrosia/DESCRIPTION’ ... OK
* this is package ‘ambrosia’ version ‘2.0.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [4s/5s] NOTE
Maintainer: ‘Kanishka Narayan <kanishka.narayan@pnnl.gov>’

New submission

Possibly misspelled words in DESCRIPTION:
  Edmonds (10:254)
  al (10:265)
  et (10:262)

Found the following (possibly) invalid URLs:
  URL: http://www.pnnl.gov/projects/jgcri/gcam/
    From: README.md
    Status: 403
    Message: Forbidden
  URL: https://codecov.io/gh/JGCRI/ambrosia (moved to https://app.codecov.io/gh/JGCRI/ambrosia)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: https://joss.theoj.org/papers/b1af4bb026f674b31d1175075607deef (moved to https://joss.theoj.org/papers/10.21105/joss.02890)
    From: README.md
    Status: 301
    Message: Moved Permanently
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.

The Title field should be in title case. Current version is:
  ‘An R package for calculating and analyzing food demand that is responsive to changing incomes and prices’
In title case that is:
  ‘An R Package for Calculating and Analyzing Food Demand that is Responsive to Changing Incomes and Prices’
* 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 ... NOTE
Found the following hidden files and directories:
  .github
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.

CRAN-pack does not know about
  .github
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘ambrosia’ can be installed ... [2s/2s] OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components which are templates and need '+ file LICENSE':
  BSD_2_clause
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
Non-standard files/directories found at top level:
  ‘DISCLAIMER’ ‘paper’ ‘scripts’
* 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 use of S3 registration ... 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 ... [4s/4s] OK
* checking Rd files ... [0s/0s] NOTE
checkRd: (-1) create_dataset_for_parameter_fit.Rd:28: Lost braces
    28 |  {{s_cal_pcap_day_thous}} (Containing 1000 calories per capita per day for staples)
       |  ^
checkRd: (-1) create_dataset_for_parameter_fit.Rd:30: Lost braces
    30 | {{ns_cal_pcap_day_thous}} (Containing 1000 calories per capita per day for non-staples)
       | ^
checkRd: (-1) create_dataset_for_parameter_fit.Rd:32: Lost braces
    32 | {{gdp_pcap_thous}} (Containing GDP per capita)
       | ^
checkRd: (-1) create_dataset_for_parameter_fit.Rd:34: Lost braces
    34 | {{s_usd_p1000cal}} (Price of 1000 calories for staples per person per day)
       | ^
checkRd: (-1) create_dataset_for_parameter_fit.Rd:36: Lost braces
    36 | {{ns_usd_p1000cal}} (Price of 1000 calories for non-staples per person per day)}
       | ^
* checking Rd metadata ... OK
* checking Rd line widths ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [1s/1s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [38s/38s] OK
  Running ‘testthat.R’ [38s/38s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [1s/1s] OK
* checking PDF version of manual ... [4s/3s] OK
* checking HTML version of manual ... [1s/1s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... NOTE
Found the following files/directories:
  ‘RtmpMsBmTEProcessed_Data_for_MC.csv’ ‘RtmpMsBmTEparameter_data.csv’
* DONE
Status: 6 NOTEs