CRAN Package Check Results for Package sos4R

Last updated on 2018-06-17 19:50:02 CEST.

Check Details

Version: 0.2-11
Check: top-level files
Result: NOTE
    Non-standard files/directories found at top level:
     ‘sandbox’ ‘sos4R-Ex.R’
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: 0.2-11
Check: dependencies in R code
Result: NOTE
    'library' or 'require' call to ‘rgdal’ in package code.
     Please use :: or requireNamespace() instead.
     See section 'Suggested packages' in the 'Writing R Extensions' manual.
    Package in Depends field not imported from: ‘methods’
     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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.2-11
Check: S3 generic/method consistency
Result: NOTE
    Found the following apparent S3 methods exported but not registered:
     as.data.frame.OmMeasurement as.data.frame.OmObservation
     as.list.OmObservationCollection length.OmObservationCollection
     names.OmMeasurement names.OmObservation names.OmObservationCollection
     plot.SOS plot.SensorML plot.SosObservationOffering
     print.summary.GmlTimePeriod print.summary.OmObservation
     print.summary.OmObservationCollection print.summary.OwsRange
     print.summary.SOS print.summary.SosObservationOffering
     summary.GmlTimePeriod summary.OmObservation
     summary.OmObservationCollection summary.OwsRange summary.SOS
     summary.SosObservationOffering
    See section ‘Registering S3 methods’ in the ‘Writing R Extensions’
    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-patched-solaris-x86, r-release-linux-x86_64

Version: 0.2-11
Check: R code for possible problems
Result: NOTE
    .getObservation_1.0.0: no visible global function definition for
     ‘object.size’
    .getObservation_1.0.0: no visible global function definition for
     ‘write.csv’
    .kvpKeyAndValues: no visible global function definition for ‘is’
    .sosRequest_1.0.0: no visible global function definition for
     ‘functionBody’
    .toString.OwsGetCapabilities: no visible global function definition for
     ‘is’
    GmlDirectPosition: no visible global function definition for ‘new’
    GmlDirectPositionLatLon: no visible global function definition for
     ‘new’
    GmlEnvelope: no visible global function definition for ‘new’
    GmlFeatureCollection: no visible global function definition for ‘new’
    GmlFeatureProperty: no visible global function definition for ‘new’
    GmlMeasure: no visible global function definition for ‘new’
    GmlPoint: no visible global function definition for ‘new’
    GmlPointProperty: no visible global function definition for ‘new’
    GmlTimeInstant: no visible global function definition for ‘new’
    GmlTimeInstantProperty: no visible global function definition for ‘new’
    GmlTimeInterval: no visible global function definition for ‘new’
    GmlTimePeriod: no visible global function definition for ‘new’
    GmlTimePosition: no visible global function definition for ‘new’
    OgcBBOX: no visible global function definition for ‘new’
    OgcContains: no visible global function definition for ‘new’
    OgcIntersects: no visible global function definition for ‘new’
    OgcOverlaps: no visible global function definition for ‘new’
    OmMeasurement: no visible global function definition for ‘new’
    OmObservation: no visible global function definition for ‘new’
    OmObservationCollection: no visible global function definition for
     ‘new’
    OmObservationProperty: no visible global function definition for ‘new’
    OwsCapabilities: no visible global function definition for ‘new’
    OwsContents: no visible global function definition for ‘new’
    OwsException: no visible global function definition for ‘new’
    OwsExceptionReport: no visible global function definition for ‘new’
    OwsGetCapabilities: no visible global function definition for ‘new’
    OwsOperation: no visible global function definition for ‘new’
    OwsOperationsMetadata: no visible global function definition for ‘new’
    OwsRange: no visible global function definition for ‘new’
    OwsServiceIdentification: no visible global function definition for
     ‘new’
    OwsServiceProvider: no visible global function definition for ‘new’
    SOS: no visible global function definition for ‘getCurlHandle’
    SOS: no visible global function definition for ‘new’
    SOS: no visible global function definition for ‘is’
    SaSamplingPoint: no visible global function definition for ‘new’
    SaSamplingSurface: no visible global function definition for ‘new’
    SensorML: no visible global function definition for ‘new’
    SosCapabilities: no visible global function definition for ‘new’
    SosContents: no visible global function definition for ‘new’
    SosDescribeSensor: no visible global function definition for ‘new’
    SosEventTime: no visible global function definition for ‘new’
    SosEventTimeLatest: no visible global function definition for ‘new’
    SosFeatureOfInterest: no visible global function definition for ‘new’
    SosFilter_Capabilities: no visible global function definition for ‘new’
    SosGetObservation: no visible global function definition for ‘new’
    SosGetObservationById: no visible global function definition for ‘new’
    SosObservationOffering: no visible global function definition for ‘new’
    SweCompositePhenomenon: no visible global function definition for ‘new’
    SwePhenomenon: no visible global function definition for ‘new’
    SwePhenomenonProperty: no visible global function definition for ‘new’
    SweTextBlock: no visible global function definition for ‘new’
    TM_After: no visible global function definition for ‘new’
    TM_Before: no visible global function definition for ‘new’
    TM_During: no visible global function definition for ‘new’
    TM_Equals: no visible global function definition for ‘new’
    parseSosObservationOffering: no visible global function definition for
     ‘extends’
    parseValues: no visible global function definition for ‘str’
    plot.SensorML: no visible global function definition for ‘as’
    plot.SosObservationOffering: no visible global function definition for
     ‘as’
    plot,SensorML-missing: no visible global function definition for ‘as’
    plot,SosObservationOffering-missing: no visible global function
     definition for ‘as’
    sosCoordinates,SosObservationOffering: no visible global function
     definition for ‘as’
    sosFeaturesOfInterest,SOS: no visible binding for global variable
     ‘slot’
    sosTime,SosObservationOffering: no visible global function definition
     for ‘is’
    Undefined global functions or variables:
     as extends functionBody getCurlHandle is new object.size slot str
     write.csv
    Consider adding
     importFrom("methods", "as", "extends", "functionBody", "is", "new",
     "slot")
     importFrom("utils", "object.size", "str", "write.csv")
    to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
    contains 'methods').
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-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-windows-ix86+x86_64, r-release-osx-x86_64, r-oldrel-windows-ix86+x86_64, r-oldrel-osx-x86_64

Version: 0.2-11
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
    Loading required package: XML
    
    Attaching package: ‘XML’
    
    The following object is masked from ‘package:tools’:
    
     toHTML
    
    Loading required package: RCurl
    Loading required package: bitops
    Loading required package: sp
    rgdal: version: 1.3-2, (SVN revision 755)
     Geospatial Data Abstraction Library extensions to R successfully loaded
     Loaded GDAL runtime: GDAL 2.3.0, released 2018/05/04
     Path to GDAL shared files: /usr/share/gdal
     GDAL binary built with GEOS: TRUE
     Loaded PROJ.4 runtime: Rel. 5.1.0, June 1st, 2018, [PJ_VERSION: 510]
     Path to PROJ.4 shared files: (autodetected)
     Linking to sp version: 1.3-1
    Checking rgeos availability: FALSE
     Note: when rgeos is not available, polygon geometry computations in maptools depend on gpclib,
     which has a restricted licence. It is disabled by default;
     to enable gpclib, type gpclibPermit()
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for VISIBILITY
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering VISIBILITY to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for WEATHER_CODE
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering WEATHER_CODE to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for voltage
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering voltage to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for electric_current
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering electric_current to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for TEMPERATURE
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering TEMPERATURE to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for phyto
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering phyto to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for China
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering China to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for VISIBILITY
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering VISIBILITY to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for WEATHER_CODE
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering WEATHER_CODE to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for voltage
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering voltage to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for electric_current
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering electric_current to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for TEMPERATURE
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering TEMPERATURE to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for phyto
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering phyto to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in .boundedBy(obj, bbox) :
     No valid bounding box found for China
    Warning in as.SosObservationOffering.SpatialPolygons(from) :
     Cannot coerce offering China to SpatialPolygons -- no CRS given.
    Warning in .local(x, y, ...) : Cannot plot NULL offering!
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in as.SensorML.SpatialPointsDataFrame(from) :
     [as.SensorML.SpatialPointsDataFrame] No CRS from sensor description (using sosGetCRS(...), using default.
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in as.SensorML.SpatialPointsDataFrame(from) :
     [as.SensorML.SpatialPointsDataFrame] No CRS from sensor description (using sosGetCRS(...), using default.
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in as.SensorML.SpatialPointsDataFrame(from) :
     [as.SensorML.SpatialPointsDataFrame] No CRS from sensor description (using sosGetCRS(...), using default.
    Warning in value[[3L]](cond) :
     [sosGetCRS] error was detected, probably the EPSG code 4979 is not recognized (returning NULL):Error in CRS(.initString): no arguments in initialization list
    
    Warning in as.SensorML.SpatialPointsDataFrame(from) :
     [as.SensorML.SpatialPointsDataFrame] No CRS from sensor description (using sosGetCRS(...), using default.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'longitude' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'latitude' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'longitude' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'latitude' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'longitude' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'latitude' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'longitude' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'latitude' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'easting' to 'x'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'northing' to 'y'.
    Warning in .local(obj, ...) :
     Changed coordinate name for 'altitude' to 'z'.
    
    Error: processing vignette ‘sos4R.Rnw’ failed with diagnostics:
     chunk 62 (label = getObs0b)
    Error in as.list.default(X) :
     no method for coercing this S4 class to a vector
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 0.2-11
Check: package dependencies
Result: NOTE
    Package suggested but not available for checking: ‘rgdal’
Flavor: r-oldrel-osx-x86_64

Version: 0.2-11
Check: re-building of vignette outputs
Result: NOTE
    Error in re-building vignettes:
     ...
    Warning in FUN(X[[i]], ...) :
     swe:Quantity given without unit of measurement: Salinity
    
    Attaching package: ‘xtable’
    
    The following object is masked from ‘package:maptools’:
    
     label
    
    Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet, :
     Running 'texi2dvi' on 'sos4R.tex' failed.
    LaTeX errors:
    ! LaTeX Error: File `csquotes.sty' not found.
    
    Type X to quit or <RETURN> to proceed,
    or enter new name. (Default extension: sty)
    
    ! Emergency stop.
    <read *>
    
    l.19 ^^M
    
    ! ==> Fatal error occurred, no output PDF file produced!
    Calls: buildVignettes -> texi2pdf -> texi2dvi
    Execution halted
Flavor: r-oldrel-osx-x86_64