* using log directory ‘/srv/hornik/tmp/CRAN_pretest/DEprot.Rcheck’
* using R Under development (unstable) (2025-08-31 r88749)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.7 (3+b1)
    Debian flang-new version 19.1.7 (3+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* checking for file ‘DEprot/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘DEprot’ version ‘0.1.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/9s] WARNING
Maintainer: ‘Sebastian Gregoricchio <s.gregoricchio@nki.nl>’

New submission

License components with restrictions and base license permitting such:
  GPL-3 + file LICENSE
File 'LICENSE':
  YEAR: 2025
  COPYRIGHT HOLDER: DEprot authors

Possibly misspelled words in DESCRIPTION:
  LFQ (3:37, 8:45)
  Proteomics (3:42)
  geneset (10:34, 10:73)
  proteomics (8:55)

Strong dependencies not in mainstream repositories:
  aPEAR, prolfqua
Availability using Additional_repositories specification:
  aPEAR      yes   https://sebastian-gregoricchio.github.io/drat/
  prolfqua   yes   https://sebastian-gregoricchio.github.io/drat/

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following (possibly) invalid URLs:
  URL: https://CRAN.R-project.org/package=pcaMethods
    From: man/impute.counts.Rd
    Status: 404
    Message: Not Found
  URL: https://cran.r-project.org/web/packages/VIM/index.html
    From: man/compare.imp.methods.Rd
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://doi.org/XYZ
    From: inst/doc/DEprot.overview.vignette.html
    Status: 400
    Message: Bad Request
  URL: https://github.com/sebastian-gregoricchio/DEprot/releases/tag/0.1.0
    From: NEWS.md
    Status: 404
    Message: Not Found
  URL: https://mips.helmholtz-muenchen.de/corum/
    From: inst/doc/DEprot.overview.vignette.html
    Status: Error
    Message: SSL peer certificate or SSH remote key was not OK [mips.helmholtz-muenchen.de]:
      server verification failed: certificate signer not trusted. (CAfile: /etc/ssl/certs/ca-certificates.crt CRLfile: none)
  URL: https://sebastian-gregoricchio.github.io/DEprot (moved to https://sebastian-gregoricchio.github.io/DEprot/)
    From: inst/doc/DEprot.overview.vignette.html
          README.md
          NEWS.md
    Status: 301
    Message: Moved Permanently
  URL: https://sebastian-gregoricchio.github.io/DEprot/LICENSE.md/LICENSE
    From: README.md
    Status: 404
    Message: Not Found
The canonical URL of the CRAN page for a package is 
  https://CRAN.R-project.org/package=pkgname
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.

Size of tarball: 6682438 bytes
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Packages required but not available: 'aPEAR', 'prolfqua'

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
* DONE
Status: 1 ERROR, 1 WARNING