CRAN Package Check Results for Package SynergizeR

Last updated on 2015-07-04 21:46:53.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.2 0.88 11.88 12.77 NOTE
r-devel-linux-x86_64-debian-gcc 0.2 0.83 11.98 12.80 NOTE
r-devel-linux-x86_64-fedora-clang 0.2 24.55 NOTE
r-devel-linux-x86_64-fedora-gcc 0.2 24.14 NOTE
r-devel-osx-x86_64-clang 0.2 23.86 NOTE
r-devel-windows-ix86+x86_64 0.2 3.00 21.00 24.00 NOTE
r-patched-linux-x86_64 0.2 0.84 11.88 12.72 NOTE
r-patched-solaris-sparc 0.2 164.30 NOTE
r-patched-solaris-x86 0.2 40.10 NOTE
r-release-linux-x86_64 0.2 0.84 12.55 13.38 NOTE
r-release-osx-x86_64-mavericks 0.2 NOTE
r-release-windows-ix86+x86_64 0.2 3.00 20.00 23.00 NOTE
r-oldrel-windows-ix86+x86_64 0.2 5.00 27.00 32.00 NOTE

Check Details

Version: 0.2
Check: DESCRIPTION meta-information
Result: NOTE
    Malformed Title field: should not end in a period.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64

Version: 0.2
Check: dependencies in R code
Result: NOTE
    Packages in Depends field not imported from:
     ‘RCurl’ ‘RJSONIO’
     These packages need to be imported from (in the NAMESPACE file)
     for when this namespace is loaded but not attached.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-osx-x86_64-clang, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.2
Check: R code for possible problems
Result: NOTE
    File ‘SynergizeR/R/zzz.r’:
     .onLoad calls:
     packageStartupMessage("\nSynergizeR\n", appendLF = TRUE)
     packageStartupMessage("IMPORTANT: The Synergizer has been designed for bulk translation of identifiers.\nSee http://llama.mshri.on.ca/synergizer/doc/ for the details of usage. ", appendLF = TRUE)
    
    See section ‘Good practice’ in '?.onAttach'.
    
    available_authorities: no visible global function definition for
     ‘getCurlHandle’
    available_authorities: no visible global function definition for
     ‘curlSetOpt’
    available_authorities: no visible global function definition for
     ‘basicTextGatherer’
    available_authorities: no visible global function definition for
     ‘basicHeaderGatherer’
    available_authorities: no visible global function definition for
     ‘curlPerform’
    available_authorities: no visible global function definition for
     ‘fromJSON’
    available_domains: no visible global function definition for
     ‘getCurlHandle’
    available_domains: no visible global function definition for
     ‘curlSetOpt’
    available_domains: no visible global function definition for
     ‘basicTextGatherer’
    available_domains: no visible global function definition for
     ‘basicHeaderGatherer’
    available_domains: no visible global function definition for
     ‘curlPerform’
    available_domains: no visible global function definition for ‘fromJSON’
    available_ranges: no visible global function definition for
     ‘getCurlHandle’
    available_ranges: no visible global function definition for
     ‘curlSetOpt’
    available_ranges: no visible global function definition for
     ‘basicTextGatherer’
    available_ranges: no visible global function definition for
     ‘basicHeaderGatherer’
    available_ranges: no visible global function definition for
     ‘curlPerform’
    available_ranges: no visible global function definition for ‘fromJSON’
    available_species: no visible global function definition for
     ‘getCurlHandle’
    available_species: no visible global function definition for
     ‘curlSetOpt’
    available_species: no visible global function definition for
     ‘basicTextGatherer’
    available_species: no visible global function definition for
     ‘basicHeaderGatherer’
    available_species: no visible global function definition for
     ‘curlPerform’
    available_species: no visible global function definition for ‘fromJSON’
    server_version: no visible global function definition for
     ‘getCurlHandle’
    server_version: no visible global function definition for ‘curlSetOpt’
    server_version: no visible global function definition for
     ‘basicTextGatherer’
    server_version: no visible global function definition for
     ‘basicHeaderGatherer’
    server_version: no visible global function definition for ‘curlPerform’
    server_version: no visible global function definition for ‘fromJSON’
    synergizer: no visible global function definition for
     ‘basicTextGatherer’
    synergizer: no visible global function definition for
     ‘basicHeaderGatherer’
    synergizer: no visible global function definition for ‘curlPerform’
    synergizer: no visible global function definition for ‘getCurlHandle’
    synergizer: no visible global function definition for ‘toJSON’
    synergizer: no visible global function definition for ‘fromJSON’
    synergizer: no visible global function definition for ‘write.table’
    Undefined global functions or variables:
     basicHeaderGatherer basicTextGatherer curlPerform curlSetOpt fromJSON
     getCurlHandle toJSON write.table
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.2
Check: Rd line widths
Result: NOTE
    Rd file 'available_ranges.Rd':
     \usage lines wider than 90 characters:
     available_ranges(authority = "ensembl", species = "Homo sapiens", domain = "hgnc_symbol")
    
    Rd file 'synergizer.Rd':
     \usage lines wider than 90 characters:
     synergizer(authority = "ensembl", species = "Homo sapiens", domain = "hgnc_symbol", range = "entrezgene", ids = NULL, file = NULL)
     \examples lines wider than 100 characters:
     symbols.ids <- synergizer( authority = "ensembl", species = "Homo sapiens", domain="affy_hg_u95av2", range="hgnc_symbol",ids=c("1939_at ... [TRUNCATED]
     entrez.ids <- synergizer( authority = "ensembl", species = "Homo sapiens", domain="hgnc_symbol", range="entrezgene",ids=c("snph", "pja1 ... [TRUNCATED]
    
    These lines will be truncated in the PDF manual.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 0.2
Check: R code for possible problems
Result: NOTE
    File ‘SynergizeR/R/zzz.r’:
     .onLoad calls:
     packageStartupMessage("\nSynergizeR\n", appendLF = TRUE)
     packageStartupMessage("IMPORTANT: The Synergizer has been designed for bulk translation of identifiers.\nSee http://llama.mshri.on.ca/synergizer/doc/ for the details of usage. ", appendLF = TRUE)
    
    See section ‘Good practice’ in '?.onAttach'.
    
    available_authorities: no visible global function definition for
     ‘getCurlHandle’
    available_authorities: no visible global function definition for
     ‘curlSetOpt’
    available_authorities: no visible global function definition for
     ‘basicTextGatherer’
    available_authorities: no visible global function definition for
     ‘basicHeaderGatherer’
    available_authorities: no visible global function definition for
     ‘curlPerform’
    available_authorities: no visible global function definition for
     ‘fromJSON’
    available_domains: no visible global function definition for
     ‘getCurlHandle’
    available_domains: no visible global function definition for
     ‘curlSetOpt’
    available_domains: no visible global function definition for
     ‘basicTextGatherer’
    available_domains: no visible global function definition for
     ‘basicHeaderGatherer’
    available_domains: no visible global function definition for
     ‘curlPerform’
    available_domains: no visible global function definition for ‘fromJSON’
    available_ranges: no visible global function definition for
     ‘getCurlHandle’
    available_ranges: no visible global function definition for
     ‘curlSetOpt’
    available_ranges: no visible global function definition for
     ‘basicTextGatherer’
    available_ranges: no visible global function definition for
     ‘basicHeaderGatherer’
    available_ranges: no visible global function definition for
     ‘curlPerform’
    available_ranges: no visible global function definition for ‘fromJSON’
    available_species: no visible global function definition for
     ‘getCurlHandle’
    available_species: no visible global function definition for
     ‘curlSetOpt’
    available_species: no visible global function definition for
     ‘basicTextGatherer’
    available_species: no visible global function definition for
     ‘basicHeaderGatherer’
    available_species: no visible global function definition for
     ‘curlPerform’
    available_species: no visible global function definition for ‘fromJSON’
    server_version: no visible global function definition for
     ‘getCurlHandle’
    server_version: no visible global function definition for ‘curlSetOpt’
    server_version: no visible global function definition for
     ‘basicTextGatherer’
    server_version: no visible global function definition for
     ‘basicHeaderGatherer’
    server_version: no visible global function definition for ‘curlPerform’
    server_version: no visible global function definition for ‘fromJSON’
    synergizer: no visible global function definition for
     ‘basicTextGatherer’
    synergizer: no visible global function definition for
     ‘basicHeaderGatherer’
    synergizer: no visible global function definition for ‘curlPerform’
    synergizer: no visible global function definition for ‘getCurlHandle’
    synergizer: no visible global function definition for ‘toJSON’
    synergizer: no visible global function definition for ‘fromJSON’
    Undefined global functions or variables:
     basicHeaderGatherer basicTextGatherer curlPerform curlSetOpt fromJSON
     getCurlHandle toJSON
Flavor: r-devel-osx-x86_64-clang

Version: 0.2
Check: R code for possible problems
Result: NOTE
    File 'SynergizeR/R/zzz.r':
     .onLoad calls:
     packageStartupMessage("\nSynergizeR\n", appendLF = TRUE)
     packageStartupMessage("IMPORTANT: The Synergizer has been designed for bulk translation of identifiers.\nSee http://llama.mshri.on.ca/synergizer/doc/ for the details of usage. ", appendLF = TRUE)
    
    See section 'Good practice' in '?.onAttach'.
    
    available_authorities: no visible global function definition for
     'getCurlHandle'
    available_authorities: no visible global function definition for
     'curlSetOpt'
    available_authorities: no visible global function definition for
     'basicTextGatherer'
    available_authorities: no visible global function definition for
     'basicHeaderGatherer'
    available_authorities: no visible global function definition for
     'curlPerform'
    available_authorities: no visible global function definition for
     'fromJSON'
    available_domains: no visible global function definition for
     'getCurlHandle'
    available_domains: no visible global function definition for
     'curlSetOpt'
    available_domains: no visible global function definition for
     'basicTextGatherer'
    available_domains: no visible global function definition for
     'basicHeaderGatherer'
    available_domains: no visible global function definition for
     'curlPerform'
    available_domains: no visible global function definition for 'fromJSON'
    available_ranges: no visible global function definition for
     'getCurlHandle'
    available_ranges: no visible global function definition for
     'curlSetOpt'
    available_ranges: no visible global function definition for
     'basicTextGatherer'
    available_ranges: no visible global function definition for
     'basicHeaderGatherer'
    available_ranges: no visible global function definition for
     'curlPerform'
    available_ranges: no visible global function definition for 'fromJSON'
    available_species: no visible global function definition for
     'getCurlHandle'
    available_species: no visible global function definition for
     'curlSetOpt'
    available_species: no visible global function definition for
     'basicTextGatherer'
    available_species: no visible global function definition for
     'basicHeaderGatherer'
    available_species: no visible global function definition for
     'curlPerform'
    available_species: no visible global function definition for 'fromJSON'
    server_version: no visible global function definition for
     'getCurlHandle'
    server_version: no visible global function definition for 'curlSetOpt'
    server_version: no visible global function definition for
     'basicTextGatherer'
    server_version: no visible global function definition for
     'basicHeaderGatherer'
    server_version: no visible global function definition for 'curlPerform'
    server_version: no visible global function definition for 'fromJSON'
    synergizer: no visible global function definition for
     'basicTextGatherer'
    synergizer: no visible global function definition for
     'basicHeaderGatherer'
    synergizer: no visible global function definition for 'curlPerform'
    synergizer: no visible global function definition for 'getCurlHandle'
    synergizer: no visible global function definition for 'toJSON'
    synergizer: no visible global function definition for 'fromJSON'
    synergizer: no visible global function definition for 'write.table'
Flavor: r-devel-windows-ix86+x86_64

Version: 0.2
Check: R code for possible problems
Result: NOTE
    File ‘SynergizeR/R/zzz.r’:
     .onLoad calls:
     packageStartupMessage("\nSynergizeR\n", appendLF = TRUE)
     packageStartupMessage("IMPORTANT: The Synergizer has been designed for bulk translation of identifiers.\nSee http://llama.mshri.on.ca/synergizer/doc/ for the details of usage. ", appendLF = TRUE)
    
    See section ‘Good practice’ in '?.onAttach'.
    
    available_authorities: no visible global function definition for
     ‘getCurlHandle’
    available_authorities: no visible global function definition for
     ‘curlSetOpt’
    available_authorities: no visible global function definition for
     ‘basicTextGatherer’
    available_authorities: no visible global function definition for
     ‘basicHeaderGatherer’
    available_authorities: no visible global function definition for
     ‘curlPerform’
    available_authorities: no visible global function definition for
     ‘fromJSON’
    available_domains: no visible global function definition for
     ‘getCurlHandle’
    available_domains: no visible global function definition for
     ‘curlSetOpt’
    available_domains: no visible global function definition for
     ‘basicTextGatherer’
    available_domains: no visible global function definition for
     ‘basicHeaderGatherer’
    available_domains: no visible global function definition for
     ‘curlPerform’
    available_domains: no visible global function definition for ‘fromJSON’
    available_ranges: no visible global function definition for
     ‘getCurlHandle’
    available_ranges: no visible global function definition for
     ‘curlSetOpt’
    available_ranges: no visible global function definition for
     ‘basicTextGatherer’
    available_ranges: no visible global function definition for
     ‘basicHeaderGatherer’
    available_ranges: no visible global function definition for
     ‘curlPerform’
    available_ranges: no visible global function definition for ‘fromJSON’
    available_species: no visible global function definition for
     ‘getCurlHandle’
    available_species: no visible global function definition for
     ‘curlSetOpt’
    available_species: no visible global function definition for
     ‘basicTextGatherer’
    available_species: no visible global function definition for
     ‘basicHeaderGatherer’
    available_species: no visible global function definition for
     ‘curlPerform’
    available_species: no visible global function definition for ‘fromJSON’
    server_version: no visible global function definition for
     ‘getCurlHandle’
    server_version: no visible global function definition for ‘curlSetOpt’
    server_version: no visible global function definition for
     ‘basicTextGatherer’
    server_version: no visible global function definition for
     ‘basicHeaderGatherer’
    server_version: no visible global function definition for ‘curlPerform’
    server_version: no visible global function definition for ‘fromJSON’
    synergizer: no visible global function definition for
     ‘basicTextGatherer’
    synergizer: no visible global function definition for
     ‘basicHeaderGatherer’
    synergizer: no visible global function definition for ‘curlPerform’
    synergizer: no visible global function definition for ‘getCurlHandle’
    synergizer: no visible global function definition for ‘toJSON’
    synergizer: no visible global function definition for ‘fromJSON’
Flavors: r-patched-linux-x86_64, r-patched-solaris-sparc, r-patched-solaris-x86, r-release-linux-x86_64, r-release-osx-x86_64-mavericks, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64