check rogue files again
mdsumner opened this issue · 0 comments
mdsumner commented
l3b_file <- system.file("extdata/oceandata/S2008001.L3b_DAY_RRS.nc",
+ package = "tidync", mustWork = TRUE)
> tidync(l3b_file)
Error: `distinct()` must use existing variables.
x `id` not found in `.data`.
x `name` not found in `.data`.
x `type` not found in `.data`.
x `ndims` not found in `.data`.
x `natts` not found in `.data`.ncdf4 doens't like at all
ncdf4::nc_open(l3b_file)
Error in ncvar_type_to_string(rv$precint) :
Error, unrecognized type code of variable supplied: -1For RNetCDF it's groups
RNetCDF::print.nc(RNetCDF::open.nc(l3b_file))
netcdf netcdf4 {
// global attributes:
NC_CHAR :product_name = "S2008001.L3b_DAY_RRS.nc" ;
NC_CHAR :title = "SeaWiFS Level-3 Binned Data" ;
NC_CHAR :instrument = "SeaWiFS" ;
NC_CHAR :platform = "Orbview-2" ;
NC_CHAR :temporal_range = "day" ;
NC_INT :start_orbit_number = 55461 ;
NC_INT :end_orbit_number = 55475 ;
NC_CHAR :date_created = "2018-01-30T21:30:05.000Z" ;
NC_CHAR :processing_version = "2018.0" ;
NC_CHAR :history = "l2bin par=S2008001.L3b_DAY_RRS.param" ;
NC_CHAR :time_coverage_start = "2007-12-31T18:09:01.000Z" ;
NC_CHAR :time_coverage_end = "2008-01-01T17:49:13.000Z" ;
NC_FLOAT :northernmost_latitude = -75.875 ;
NC_FLOAT :southernmost_latitude = -77.2916641235352 ;
NC_FLOAT :easternmost_longitude = 170.553436279297 ;
NC_FLOAT :westernmost_longitude = 165.317810058594 ;
NC_DOUBLE :geospatial_lat_max = -75.875 ;
NC_DOUBLE :geospatial_lat_min = -77.2916641235352 ;
NC_DOUBLE :geospatial_lon_max = 170.553436279297 ;
NC_DOUBLE :geospatial_lon_min = 165.317810058594 ;
NC_CHAR :geospatial_lat_units = "degrees_north" ;
NC_CHAR :geospatial_lon_units = "degrees_east" ;
NC_DOUBLE :geospatial_lon_resolution = 0.0833333333333333 ;
NC_DOUBLE :geospatial_lat_resolution = 0.0833333333333333 ;
NC_CHAR :spatialResolution = "9.2 km" ;
NC_INT :data_bins = 2 ;
NC_FLOAT :percent_data_bins = 3.3667642128421e-05 ;
NC_CHAR :units = "angstrom:undefined,aot_865:undefined,Rrs_412:sr^-1,Rrs_443:sr^-1,Rrs_490:sr^-1,Rrs_510:sr^-1,Rrs_555:sr^-1,Rrs_670:sr^-1" ;
NC_CHAR :binning_scheme = "Integerized Sinusoidal Grid" ;
NC_CHAR :project = "Ocean Biology Processing Group (NASA/GSFC/OBPG)" ;
NC_CHAR :institution = "NASA Goddard Space Flight Center, Ocean Ecology Laboratory, Ocean Biology Processing Group" ;
NC_CHAR :standard_name_vocabulary = "CF Standard Name Table v36" ;
NC_CHAR :Conventions = "CF-1.6 ACDD-1.3" ;
NC_CHAR :naming_authority = "gov.nasa.gsfc.sci.oceandata" ;
NC_CHAR :id = "S2008001.L3b_DAY_RRS.nc/L3/S2008001.L3b_DAY_RRS.nc" ;
NC_CHAR :license = "http://science.nasa.gov/earth-science/earth-science-data/data-information-policy/" ;
NC_CHAR :creator_name = "NASA/GSFC/OBPG" ;
NC_CHAR :publisher_name = "NASA/GSFC/OBPG" ;
NC_CHAR :creator_email = "data@oceancolor.gsfc.nasa.gov" ;
NC_CHAR :publisher_email = "data@oceancolor.gsfc.nasa.gov" ;
NC_CHAR :creator_url = "http://oceandata.sci.gsfc.nasa.gov" ;
NC_CHAR :publisher_url = "http://oceandata.sci.gsfc.nasa.gov" ;
NC_CHAR :processing_level = "L3 Binned" ;
NC_CHAR :cdm_data_type = "point" ;
NC_CHAR :identifier_product_doi_authority = "http://dx.doi.org" ;
NC_CHAR :identifier_product_doi = "10.5067/ORBVIEW-2/SEAWIFS/L3B/RRS/2018" ;
NC_CHAR :keywords_vocabulary = "NASA Global Change Master Directory (GCMD) Science Keywords" ;
NC_CHAR :keywords = "Earth Science > Oceans > Ocean Optics > Reflectance" ;
group: level-3_binned_data {
dimensions:
binListDim = UNLIMITED ; // (2 currently)
binDataDim = UNLIMITED ; // (2 currently)
binIndexDim = UNLIMITED ; // (2160 currently)
types:
compound binListType {
NC_UINT bin_num ;
NC_SHORT nobs ;
NC_SHORT nscenes ;
NC_FLOAT weights ;
NC_FLOAT time_rec ;
}; // binListType
compound binDataType {
NC_FLOAT sum ;
NC_FLOAT sum_squared ;
}; // binDataType
compound binIndexType {
NC_UINT start_num ;
NC_UINT begin ;
NC_UINT extent ;
NC_UINT max ;
}; // binIndexType
variables:
binListType BinList(binListDim) ;
binDataType angstrom(binDataDim) ;
binDataType aot_865(binDataDim) ;
binDataType Rrs_412(binDataDim) ;
binDataType Rrs_443(binDataDim) ;
binDataType Rrs_490(binDataDim) ;
binDataType Rrs_510(binDataDim) ;
binDataType Rrs_555(binDataDim) ;
binDataType Rrs_670(binDataDim) ;
binIndexType BinIndex(binIndexDim) ;
} // group level-3_binned_data
group: processing_control {
// group attributes:
NC_CHAR :software_name = "l2bin" ;
NC_CHAR :software_version = "4.4.1" ;
NC_CHAR :source = "S2007365180135.L2_GAC_OC.nc,S2007365180901.L2_GAC_OC.nc,S2007365194235.L2_GAC_OC.nc,S2007365212117.L2_GAC_OC.nc,S2007365225958.L2_GAC_OC.nc,S2008001003832.L2_GAC_OC.nc,S2008001021713.L2_GAC_OC.nc,S2008001035555.L2_GAC_OC.nc,S2008001053447.L2_GAC_OC.nc,S2008001071318.L2_GAC_OC.nc,S2008001085200.L2_GAC_OC.nc,S2008001103041.L2_GAC_OC.nc,S2008001120923.L2_GAC_OC.nc,S2008001134804.L2_GAC_OC.nc,S2008001152646.L2_GAC_OC.nc,S2008001170527.L2_GAC_OC.nc" ;
NC_CHAR :l2_flag_names = "ATMFAIL,LAND,HILT,HISATZEN,STRAYLIGHT,CLDICE,COCCOLITH,LOWLW,CHLWARN,CHLFAIL,NAVWARN,MAXAERITER,ATMWARN,HISOLZEN,NAVFAIL,FILTER,HIGLINT" ;
group: input_parameters {
// group attributes:
NC_CHAR :infile = "/data4/sdpsoper/vdc/vpu10/workbuf/l2inlist.dat" ;
NC_CHAR :ofile = "S2008001.L3b_DAY_RRS.nc" ;
NC_CHAR :oformat = "2" ;
NC_CHAR :fileuse = "S2008001.L3b_DAY_RRS.contrib" ;
NC_CHAR :sday = "2008001" ;
NC_CHAR :eday = "2008001" ;
NC_CHAR :resolve = "9" ;
NC_CHAR :rowgroup = "270" ;
NC_CHAR :flaguse = "ATMFAIL,LAND,HILT,HISATZEN,STRAYLIGHT,CLDICE,COCCOLITH,LOWLW,CHLWARN,CHLFAIL,NAVWARN,MAXAERITER,ATMWARN,HISOLZEN,NAVFAIL,FILTER,HIGLINT" ;
NC_CHAR :l3bprod = "angstrom=-1.0,aot_865,Rrs_412=-0.005,Rrs_443=-0.005,Rrs_490=-0.005,Rrs_510=-0.005,Rrs_555=-0.005,Rrs_670=-0.005" ;
NC_CHAR :prodtype = "O" ;
NC_CHAR :pversion = "2018.0" ;
NC_CHAR :suite = "RRS" ;
NC_CHAR :average = "standard" ;
NC_CHAR :night = "0" ;
NC_CHAR :verbose = "0" ;
NC_CHAR :minobs = "0" ;
NC_CHAR :deflate = "4" ;
NC_CHAR :qual_prod = "" ;
NC_CHAR :composite_prod = "" ;
NC_CHAR :composite_scheme = "" ;
NC_CHAR :qual_max = "255" ;
NC_CHAR :healpix = "0" ;
} // group input_parameters
} // group processing_control
}