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| <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd"><html xmlns="http://www.w3.org/1999/xhtml"><head><title>R: Write netCDF files (one for each river) with riverine...</title> | ||
| <meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> | ||
| <link rel="stylesheet" type="text/css" href="R.css" /> | ||
| </head><body> | ||
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| <table width="100%" summary="page for write.river.netCDF"><tr><td>write.river.netCDF</td><td style="text-align: right;">R Documentation</td></tr></table> | ||
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| <h2>Write netCDF files (one for each river) with riverine nutrient input data</h2> | ||
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| <h3>Description</h3> | ||
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| <p>For each entry in 'riverNames' a netCDF file is created. TODO | ||
| </p> | ||
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| <h3>Usage</h3> | ||
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| <pre> | ||
| write.river.netCDF(riverNames, riverInfo, riverData, netCDF2input, dOt, year, | ||
| overwrite = TRUE, warn = TRUE, cmd_ncgen = "ncgen") | ||
| </pre> | ||
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| <h3>Arguments</h3> | ||
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| <table summary="R argblock"> | ||
| <tr valign="top"><td><code>riverNames</code></td> | ||
| <td> | ||
| <p>character array with river names</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>riverInfo</code></td> | ||
| <td> | ||
| <p>list() of grid-information-lists(); to each element in riverNames one list element with the same name needs to exist in riverInfos</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>riverData</code></td> | ||
| <td> | ||
| <p>list() of river-inflow-data-lists(); to each element in riverData one list element with the same name needs to exist in riverInfos</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>netCDF2input</code></td> | ||
| <td> | ||
| <p>list() with two character arrays netCDF2input$untagged and netCDF2input$tagged; these contain the names of rivers, which are tagged and untagged, respectively</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>dOt</code></td> | ||
| <td> | ||
| <p>character; directory into which the final file should be written</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>year</code></td> | ||
| <td> | ||
| <p>integer; year to write out</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>overwrite</code></td> | ||
| <td> | ||
| <p>logical; overwrite 'dOt/filename' it already exists</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>warn</code></td> | ||
| <td> | ||
| <p>logical; allow/suppress warnings</p> | ||
| </td></tr> | ||
| <tr valign="top"><td><code>cmd_ncgen</code></td> | ||
| <td> | ||
| <p>character: ncgen-call; if ncgen is not in the path (or the wrong verson of ncgen) please provide here '/path/ncgen-exec' for the ncgen binary</p> | ||
| </td></tr> | ||
| </table> | ||
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| <h3>Value</h3> | ||
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| <p>file written | ||
| </p> | ||
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| <h3>Author(s)</h3> | ||
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| <p>Daniel Neumann, [email protected] | ||
| </p> | ||
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| <h3>See Also</h3> | ||
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| <p>write.river.newNML, write.river.newInflow | ||
| </p> | ||
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| <h3>Examples</h3> | ||
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| <pre> | ||
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| # read a file: | ||
| test.mom.monthly <- list() | ||
| test.mom.monthly$Warnow <- read.river.mom('files/GER_Dan_Str_Warnow.dat') | ||
| test.mom.monthly$Trave <- read.river.mom('files/GER_Dan_Str_Trave.dat') | ||
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| # calculate annual means from monthly data | ||
| test.mom.annual <- list() | ||
| test.mom.daily$Warnow <- interpolate.river.mom(test.mom.monthly$Warnow, to = 'daily', method = 'step') | ||
| test.mom.daily$Trave <- interpolate.river.mom(test.mom.monthly$Trave, to = 'daily', method = 'step') | ||
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| # get netCDF file variable mapping | ||
| varmapping.hbm <- get.varmapping.hbm.netcdf() | ||
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| # get grid info | ||
| grid_info <- get.infos.grids.hbm.basic() | ||
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| # get river infos | ||
| file <- 'files/river_list.dat' | ||
| riverInfos <- read.infos.rivers(file, grid_info) | ||
| # (you will get some warnings here) | ||
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| # write new namelist | ||
| write.river.netCDF(c('Warnow', 'Trave'), riverInfos, test.mom.daily, varmapping.hbm, 'out_dir', 2012, overwrite=FALSE) | ||
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| input vals: mol/kg | ||
| output vals: mmol/m3 | ||
| output = input * 20^6 | ||
| </pre> | ||
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| </body></html> |
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| #!/bin/bash | ||
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| cd /media/neumannd/work_dell/68_Tools_Software/25_R/10_packages/riverdata.dirty | ||
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| for iFile in `ls man/*.Rd | sed 's#man/##g' | sed 's/\.Rd//g'`; do | ||
| echo "Processing file ${iFile}.Rd" | ||
| R CMD Rdconv --type=html man/${iFile}.Rd > html/${iFile}.html | ||
| done |