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blazekblazek
authoredJul 19, 2016
Merge pull request #3164 from NINAnor/add_grass_tools
New modules for the GRASS plugin
·
ltr-3_40final-3_0_0
2 parents 3142c84 + 3608799 commit 34ca98f

26 files changed

+1150
-3
lines changed
 

‎src/plugins/grass/modules/default.qgc

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@@ -38,6 +38,7 @@
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<grass name="r.in.gdal"/>
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<grass name="r.in.gdal.loc"/>
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<grass name="r.in.xyz"/>
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<grass name="r.in.lidar" version_min="7"/>
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<grass name="r.in.ascii"/>
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<grass name="r.in.poly"/>
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<grass name="r.in.bin"/>
@@ -48,6 +49,7 @@
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<grass name="r.in.srtm"/>
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<grass name="r.in.aster"/>
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<grass name="r.in.wms"/>
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<grass name="r.unpack" version_min="7"/>
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</section>
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</section>
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<section label="Import vector into GRASS">
@@ -56,6 +58,7 @@
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<grass name="v.in.ogr.loc"/>
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<grass name="v.in.ogr.all"/>
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<grass name="v.in.ogr.all.loc"/>
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<grass name="v.in.lidar" version_min="7"/>
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<grass name="v.in.dxf"/>
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<grass name="v.in.e00"/>
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<grass name="v.in.ascii"/>
@@ -65,6 +68,7 @@
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<grass name="v.in.gpsbabel" version_max="6.4"/>
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<grass name="v.in.geonames" version_min="6.4"/>
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<grass name="v.in.gns" version_max="6.4"/>
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<grass name="v.unpack" version_min="7"/>
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</section>
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<section label="Import from database into GRASS">
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<grass name="db.in.ogr"/>
@@ -91,6 +95,7 @@
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<grass name="r.out.tiff" version_max="6.4"/>
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<grass name="r.out.vrml"/>
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<grass name="r.out.vtk"/>
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<grass name="r.pack" version_min="7"/>
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</section>
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<section label="Export vector from GRASS">
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<grass name="v.out.ogr"/>
@@ -102,6 +107,7 @@
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<grass name="v.out.pov"/>
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<grass name="v.out.svg"/>
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<grass name="v.out.vtk"/>
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<grass name="v.pack" version_min="7"/>
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</section>
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<section label="Export vector table from GRASS to database format">
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<grass name="db.out.ogr" version_min="6.4"/>
@@ -174,6 +180,7 @@
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<grass name="r.colors.rast"/>
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<grass name="r.colors.stddev" version_min="6.4"/>
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<grass name="r.blend"/>
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<grass name="r.shade" version_min="7"/>
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<grass name="r.composite"/>
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<grass name="r.his"/>
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</section>
@@ -199,6 +206,8 @@
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<grass name="r.series"/>
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<grass name="r.patch"/>
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<grass name="r.statistics"/>
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<grass name="r.stats.zonal" version_min="7"/>
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<grass name="r.stats.quantile" version_min="7"/>
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</section>
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<section label="Solar and irradiation model">
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<grass name="r.sunmask.position"/>
@@ -262,6 +271,8 @@
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<grass name="r.surf.gauss"/>
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<grass name="r.plane"/>
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<grass name="r.surf.random"/>
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<grass name="r.latitude"/>
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<grass name="r.longitude"/>
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</section>
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<section label="Generate vector contour lines">
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<grass name="r.contour"/>
@@ -295,7 +306,8 @@
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<grass name="r.univar"/>
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<grass name="r.covar"/>
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<grass name="r.regression.line"/>
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<grass name="r.coin"/>
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<grass name="r.regression.multi" version_min="7"/>
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<grass name="r.coin"/>
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<grass name="r.distance"/>
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</section>
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</section>
@@ -405,6 +417,7 @@
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<section label="Reclass category values">
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<grass name="v.reclass.file"/>
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<grass name="v.reclass.attr"/>
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<grass name="v.class.mlpy.qgis" version_min="7.0" version_max="7.0"/>
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</section>
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</section>
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<section label="Work with vector points">
@@ -446,6 +459,7 @@
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<section label="Imagery">
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<section label="Develop images and group">
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<grass name="i.group"/>
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<grass name="i.image.mosaic"/>
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</section>
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<section label="Manage image colors">
@@ -460,14 +474,18 @@
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<grass name="i.zc"/>
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<grass name="r.mfilter"/>
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</section>
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<section label="Tassled cap vegetation index">
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<section label="Vegetation indices">
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<grass name="i.albedo" version_min="7"/>
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<grass name="i.biomass" version_min="7"/>
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<grass name="i.tasscap4"/>
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<grass name="i.tasscap5"/>
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<grass name="i.tasscap7"/>
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<grass name="i.tasscap8" version_min="7.0"/>
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<grass name="i.tasscap.modis" version_min="7.0"/>
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<grass name="i.vi" version_min="7.0"/>
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</section>
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<section label="Transform image">
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<grass name="i.segment" version_min="7"/>
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<grass name="i.fft"/>
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<grass name="i.ifft"/>
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</section>
@@ -532,6 +550,12 @@
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</section>
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<section label="Sampling" version_min="7.0">
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<grass name="t.sample" version_min="7.0"/>
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<grass name="t.rast.what.coordinates.qgis" version_min="7.0" version_max="7.0"/>
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<grass name="t.rast.what.coordinates" version_min="7.1"/>
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<grass name="t.rast.what.file.qgis" version_min="7.0" version_max="7.0"/>
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<grass name="t.rast.what.file" version_min="7.1"/>
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<grass name="t.rast.what.points.qgis" version_min="7.0" version_max="7.0"/>
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<grass name="t.rast.what.points" version_min="7.1"/>
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<grass name="t.vect.what.strds" version_min="7.0"/>
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<grass name="t.vect.observe.strds" version_min="7.0"/>
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</section>

‎src/plugins/grass/modules/i.albedo.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Computes broad band albedo from surface reflectance" module="i.albedo">
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<flag key="m" answer="off"/>
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<flag key="n" answer="off"/>
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<flag key="l" answer="off"/>
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<flag key="a" answer="off"/>
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<flag key="c" answer="off"/>
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<flag key="d" answer="off"/>
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<option key="input"/>
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<option key="output"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/i.biomass.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Computes biomass growth, precursor of crop yield calculation" module="i.biomass">
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<option key="fpar"/>
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<option key="lightuse_efficiency"/>
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<option key="latitude"/>
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<option key="dayofyear"/>
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<option key="transmissivity_singleway"/>
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<option key="water_availability"/>
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<option key="output"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/i.emissivity.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Computes emissivity from NDVI, generic method for sparse land" module="i.emissivity">
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<option key="input"/>
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<option key="output"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/i.group.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Creates, edits, and lists groups of imagery data." module="i.group">
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<option key="input" multiple="yes"/>
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<option key="group"/>
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<option key="subgroup"/>
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<flag key="r" answer="off" advanced="yes"/>
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<flag key="l" answer="off" advanced="yes"/>
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<flag key="s" answer="off" advanced="yes"/>
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<flag key="g" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/i.segment.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Identifies segments (objects) from imagery data." module="i.segment">
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<option key="group"/>
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<option key="output"/>
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<option key="threshold"/>
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<option key="method"/>
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<option key="similarity" advanced="yes"/>
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<option key="minsize" advanced="yes"/>
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<option key="memory" advanced="yes"/>
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<option key="iterations" advanced="yes"/>
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<option key="seeds" advanced="yes"/>
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<option key="bounds" advanced="yes"/>
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<option key="goodness" advanced="yes"/>
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<flag key="d" answer="off" advanced="yes"/>
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<flag key="w" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/i.vi.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Calculates different types of vegetation indices" module="i.vi">
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<option key="viname"/>
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<option key="output"/>
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<option key="red"/>
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<option key="nir"/>
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<option key="green"/>
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<option key="blue"/>
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<option key="band5"/>
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<option key="band7"/>
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<option key="soil_line_slope" advanced="yes"/>
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<option key="soil_line_intercept" advanced="yes"/>
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<option key="soil_noise_reduction" advanced="yes"/>
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<option key="storage_bit" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.in.lidar.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Creates a raster map from LAS LiDAR points using univariate statistics." module="r.in.lidar">
5+
<file key="input" label="LiDAR input files in LAS format (*.las or *.laz)" type="old"/>
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<option key="output"/>
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<option key="method"/>
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<option key="type" advanced="yes"/>
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<option key="return_filter" advanced="yes"/>
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<option key="zrange" advanced="yes"/>
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<option key="zscale" advanced="yes"/>
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<option key="percent" advanced="yes"/>
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<option key="pth" advanced="yes"/>
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<option key="trim" advanced="yes"/>
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<flag key="i" answer="off"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.latitude.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Creates a latitude raster map" module="r.latlong">
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<option key="input"/>
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<option key="output" label="Name of the output latitude raster map"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.longitude.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Creates a longitude raster map" module="r.latlong">
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<flag key="l" answer="on" hidden="yes"/>
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<option key="input"/>
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<option key="output" label="Name of the output longitude raster map"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.pack.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Exports a raster map as GRASS GIS specific archive file" module="r.pack">
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<option key="input"/>
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<file key="output" type="new"/>
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<flag key="c" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.regression.multi.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Calculates multiple linear regression from raster maps" module="r.regression.multi">
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<flag key="g" answer="off"/>
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<option key="mapy"/>
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<option key="mapx"/>
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<file key="output" label="Output file for regression coefficients" type="new"/>
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<option key="residuals"/>
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<option key="estimates"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.shade.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Drapes a color raster over an shaded relief or aspect map" module="r.shade">
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<flag key="c" answer="off" advanced="yes"/>
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<option key="shade"/>
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<option key="color"/>
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<option key="output"/>
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<option key="brighten" advanced="yes"/>
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<option key="bgcolor" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.stats.quantile.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Compute category quantiles using two passes." module="r.stats.quantile">
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<flag key="p" answer="off" advanced="yes"/>
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<flag key="r" answer="off" advanced="yes"/>
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<option key="base"/>
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<option key="cover"/>
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<option key="quantiles"/>
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<option key="percentiles"/>
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<option key="bins" advanced="yes"/>
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<option key="output"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.stats.zonal.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Calculates category or object oriented statistics" module="r.stats.zonal">
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<flag key="c" answer="off" advanced="yes"/>
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<flag key="r" answer="off" advanced="yes"/>
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<option key="base"/>
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<option key="cover"/>
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<option key="method"/>
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<option key="output"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/r.unpack.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Imports a raster map as GRASS GIS specific archive file (packed with r.pack) a." module="r.unpack">
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<file key="input" type="old"/>
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<option key="output"/>
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<flag key="o" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/t.rast.what.coordinates.qgis.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Sample a space time raster dataset at specific coordinates and write the output to file using different layouts" module="t.rast.what.qgis.py">
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<flag key="n" answer="on"/>
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<option key="coordinates"/>
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<option key="strds"/>
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<file key="output" label="Name for the output file" type="new"/>
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<option key="layout"/>
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<option key="where" advanced="yes" label="Temporal WHERE conditions without 'where' keyword"/>
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<option key="order" advanced="yes"/>
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<option key="nprocs" advanced="yes"/>
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<option key="separator" advanced="yes"/>
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<option key="null_value" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/t.rast.what.file.qgis.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Sample a space time raster dataset at specific coordinates and write the output to file using different layouts" module="t.rast.what.qgis.py">
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<flag key="n" answer="on"/>
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<file key="coordinates" type="old"/>
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<option key="strds"/>
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<file key="output" label="Name for the output file" type="new"/>
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<option key="layout"/>
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<option key="where" advanced="yes" label="Temporal WHERE conditions without 'where' keyword"/>
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<option key="order" advanced="yes"/>
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<option key="nprocs" advanced="yes"/>
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<option key="separator" advanced="yes"/>
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<option key="null_value" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/t.rast.what.points.qgis.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Sample a space time raster dataset at specific coordinates and write the output to file using different layouts" module="t.rast.what.qgis.py">
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<flag key="n" answer="on"/>
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<option key="points"/>
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<option key="strds"/>
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<file key="output" label="Name for the output file" type="new"/>
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<option key="layout"/>
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<option key="where" advanced="yes" label="Temporal WHERE conditions without 'where' keyword"/>
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<option key="order" advanced="yes"/>
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<option key="nprocs" advanced="yes"/>
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<option key="separator" advanced="yes"/>
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<option key="null_value" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/t.shift.qgm

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<qgisgrassmodule label="Shifts temporally the maps of a space time dataset" module="t.shift">
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<option key="input"/>
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<option key="temporaltype"/>
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<option key="type"/>
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<option key="granularity"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/v.class.mlpy.qgis.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Vector supervised classification tool which uses attributes as classification parametres" module="v.class.mlpy.qgis.py">
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<option key="input"/>
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<option key="training"/>
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<option key="class_column"/>
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<option key="columns"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/v.in.lidar.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Converts LAS LiDAR point clouds to a GRASS vector map with libLAS." module="v.in.lidar">
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<file key="input" label="LiDAR input files in LAS format (*.las or *.laz)" type="old"/>
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<option key="output"/>
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<option key="spatial" advanced="yes"/>
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<option key="location" advanced="yes"/>
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<option key="return_filter" advanced="yes"/>
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<option key="class_filter" advanced="yes"/>
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<flag key="p" answer="off"/>
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<flag key="t" answer="off"/>
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<flag key="o" answer="off"/>
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<flag key="r" answer="off" advanced="yes"/>
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<flag key="3" answer="off" advanced="yes"/>
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<flag key="i" answer="off" advanced="yes"/>
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<flag key="b" answer="off"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/v.pack.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Exports a vector map as GRASS GIS specific archive file" module="v.pack">
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<option key="input"/>
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<file key="output" type="new"/>
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<flag key="c" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/modules/v.unpack.qgm

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<?xml version="1.0" encoding="UTF-8"?>
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<!DOCTYPE qgisgrassmodule SYSTEM "http://mrcc.com/qgisgrassmodule.dtd">
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<qgisgrassmodule label="Imports a vector map as GRASS GIS specific archive file (packed with v.pack) a." module="v.unpack">
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<file key="input" type="old"/>
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<option key="output"/>
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<flag key="o" answer="off" advanced="yes"/>
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</qgisgrassmodule>

‎src/plugins/grass/scripts/t.rast.what.qgis.py

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‎src/plugins/grass/scripts/v.class.mlpy.qgis.py

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#!/usr/bin/env python
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############################################################################
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#
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# MODULE: v.class.mlpy
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# AUTHOR(S): Vaclav Petras
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# PURPOSE: Classifies features in vecor map.
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# COPYRIGHT: (C) 2012 by Vaclav Petras, and the GRASS Development Team
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU General Public License as published by
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# the Free Software Foundation; either version 2 of the License, or
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# (at your option) any later version.
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#
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# This program is distributed in the hope that it will be useful,
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# but WITHOUT ANY WARRANTY; without even the implied warranty of
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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# GNU General Public License for more details.
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#
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############################################################################
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#%module
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#% description: Vector supervised classification tool which uses attributes as classification parametres (order of columns matters, names not), cat column identifies feature, class_column is excluded from classification parametres.
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#% keyword: vector
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#% keyword: classification
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#% keyword: supervised
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#%end
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#%option G_OPT_V_MAP
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#% key: input
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#% description: Input vector map (attribut table required)
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#% required: yes
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#% multiple: no
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#%end
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#%option G_OPT_V_MAP
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#% key: training
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#% description: Training vector map (attribut table required)
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#% required: yes
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#% multiple: no
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#%end
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#%option G_OPT_V_FIELD
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#% key: class_column
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#% type: string
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#% label: Name of column containing class
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#% description: Used for both input/output and training dataset. If column does not exists in input map attribute table, it will be created.
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#% required: no
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#% multiple: no
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#% answer: class
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#%end
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#%option
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#% key: columns
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#% type: string
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#% label: Columns to be used in classification
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#% description: Columns to be used in classification. If left empty, all columns will be used for classification except for class_column and cat column.
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#% required: no
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#% multiple: yes
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#%end
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# TODO: add other classifiers
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# TODO: improve doc
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# TODO: input/training could be multiple
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# TODO: handle layers
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# TODO: ouput to new map (all classes/one class), depens what is faster
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import grass.script as grass
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import numpy as np
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def addColumn(mapName, columnName, columnType):
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"""Adds column to the map's table."""
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columnDefinition = columnName + ' ' + columnType
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grass.run_command('v.db.addcolumn', map=mapName,
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columns=columnDefinition)
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def hasColumn(tableDescription, column):
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"""Checks if the column is in the table description
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@todo This should be part of some object in the lib.
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"""
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for col in tableDescription['cols']:
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if col[0] == column:
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return True
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return False
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def updateColumn(mapName, column, cats, values=None):
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"""!Updates column values for rows with a given categories.
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\param cats categories to be updated
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or a list of tuples (cat, value) if \p values is None
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\param values to be set for column (same length as cats) or \c None
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"""
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statements = ''
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for i in range(len(cats)):
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if values is None:
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cat = str(cats[i][0])
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val = str(cats[i][1])
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else:
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cat = str(cats[i])
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val = str(values[i])
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statement = 'UPDATE ' + mapName + ' SET '
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statement += column + ' = ' + val
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statement += ' WHERE cat = ' + cat
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statements += statement + ';\n'
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grass.write_command('db.execute', input='-', stdin=statements)
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class Classifier:
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"""!Interface class between mlpy and other code
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It does not uses numpy in the interface bu this may be wrong.
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"""
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def __init__(self):
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try:
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import mlpy
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except ImportError:
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grass.fatal(_("Cannot import mlpy (http://mlpy.sourceforge.net)"
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" library."
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" Please install it or ensure that it is on path"
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" (use PYTHONPATH variable)."))
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# Pytlit has a problem with this mlpy and v.class.mlpy.py
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# thus, warinings for objects from mlpy has to be disabled
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self.mlclassifier = mlpy.DLDA(delta=0.01) # pylint: disable=E1101
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def learn(self, values, classes):
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self.mlclassifier.learn(np.array(values), np.array(classes))
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def pred(self, values):
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return self.mlclassifier.pred(np.array(values))
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# TODO: raise exception when str can not be float
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# TODO: repair those functions, probably create a class
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# TODO: use numpy or array
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def fromDbTableToSimpleTable(dbTable, columnsDescription, columnWithClass):
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sTable = []
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for row in dbTable:
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sRow = []
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for i, col in enumerate(row):
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columnName = columnsDescription[i][0]
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if columnName != columnWithClass and columnName != 'cat':
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sRow.append(float(col))
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sTable.append(sRow)
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return sTable
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def extractColumnWithClass(dbTable, columnsDescription, columnWithClass):
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classColumn = []
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for row in dbTable:
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for i, col in enumerate(row):
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columnName = columnsDescription[i][0]
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if columnName == columnWithClass:
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classColumn.append(float(col))
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return classColumn
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def extractNthColumn(dbTable, columnNumber):
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classColumn = []
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for row in dbTable:
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for i, col in enumerate(row):
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if columnNumber == i:
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classColumn.append(float(col))
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return classColumn
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def extractColumnWithCats(dbTable, columnsDescription):
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column = []
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for row in dbTable:
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for i, col in enumerate(row):
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columnName = columnsDescription[i][0]
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if columnName == 'cat':
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column.append(float(col))
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return column
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# unused
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def fatal_noAttributeTable(mapName):
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grass.fatal(_("Vector map <%s> has no or empty attribute table")
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% mapName)
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def fatal_noEnoughColumns(mapName, ncols, required):
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grass.fatal(_("Not enough columns in vector map <%(map)s>"
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" (found %(ncols)s, expected at least %(r)s")
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% {'map': mapName, 'ncols': ncols, 'r': required})
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def fatal_noClassColumn(mapName, columnName):
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grass.fatal(_("Vector map <%(map)s> does not have"
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" the column <%(col)s> cointaining class")
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% {'map': mapName, 'col': columnName})
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def fatal_noRows(mapName):
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grass.fatal(_("Empty attribute table for map vector <%(map)s>")
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% {'map': mapName})
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def checkNcols(mapName, tableDescription, requiredNcols):
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ncols = tableDescription['ncols']
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if ncols < requiredNcols:
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fatal_noEnoughColumns(mapName, ncols, requiredNcols)
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def checkNrows(mapName, tableDescription):
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if not tableDescription['nrows'] > 0:
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fatal_noRows(mapName)
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def checkDbConnection(mapName):
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"""! Checks if vector map has an attribute table.
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\todo check layer
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"""
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ret = grass.vector_db(mapName)
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if not ret:
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grass.fatal(_("Vector map <%s> has no attribute table") % mapName)
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def main():
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options, unused = grass.parser()
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mapName = options['input']
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trainingMapName = options['training']
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columnWithClass = options['class_column']
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useAllColumns = True
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if options['columns']:
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# columns as string
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columns = options['columns'].strip()
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useAllColumns = False
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# TODO: allow same input and output map only if --overwrite was specified
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# TODO: is adding column overwriting or overwriting is only updating of existing?
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# variable names conected to training dataset have training prefix
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# variable names conected to classified dataset have no prefix
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# checking database connection (if map has a table)
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# TODO: layer
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checkDbConnection(trainingMapName)
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checkDbConnection(mapName)
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# loading descriptions first to check them
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trainingTableDescription = grass.db_describe(table=trainingMapName)
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if useAllColumns:
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trainingMinNcols = 3
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checkNcols(trainingMapName, trainingTableDescription, trainingMinNcols)
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else:
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pass
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checkNrows(trainingMapName, trainingTableDescription)
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if not hasColumn(trainingTableDescription, columnWithClass):
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fatal_noClassColumn(trainingMapName, columnWithClass)
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tableDescription = grass.db_describe(table=mapName)
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if useAllColumns:
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minNcols = 2
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checkNcols(mapName, tableDescription, minNcols)
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else:
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pass
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checkNrows(mapName, tableDescription)
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# TODO: check same (+-1) number of columns
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# loadnig data
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# TODO: make fun from this
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if useAllColumns:
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dbTable = grass.db_select(table=trainingMapName)
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else:
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# assuming that columns concatenated by comma
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sql = 'SELECT %s,%s FROM %s' % (columnWithClass, columns, trainingMapName)
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dbTable = grass.db_select(sql=sql)
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trainingParameters = fromDbTableToSimpleTable(dbTable,
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columnsDescription=trainingTableDescription['cols'],
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columnWithClass=columnWithClass)
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if useAllColumns:
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trainingClasses = extractColumnWithClass(dbTable,
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columnsDescription=trainingTableDescription['cols'],
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columnWithClass=columnWithClass)
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else:
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# FIXME: magic num?
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trainingClasses = extractNthColumn(dbTable, 0)
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# TODO: hard coded 'cat'?
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if useAllColumns:
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dbTable = grass.db_select(table=mapName)
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else:
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# assuming that columns concatenated by comma
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sql = 'SELECT %s,%s FROM %s' % ('cat', columns, mapName)
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dbTable = grass.db_select(sql=sql)
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parameters = fromDbTableToSimpleTable(dbTable,
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columnsDescription=tableDescription['cols'],
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columnWithClass=columnWithClass)
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if useAllColumns:
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cats = extractColumnWithCats(dbTable, columnsDescription=tableDescription['cols'])
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else:
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cats = extractNthColumn(dbTable, 0)
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# since dbTable can be big it is better to avoid to have it in memory twice
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del dbTable
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del trainingTableDescription
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classifier = Classifier()
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classifier.learn(trainingParameters, trainingClasses)
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classes = classifier.pred(parameters)
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# add column only if not exists and the classification was successful
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if not hasColumn(tableDescription, columnWithClass):
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addColumn(mapName, columnWithClass, 'int')
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updateColumn(mapName, columnWithClass, cats, classes)
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# TODO: outupt as a new map (use INSERT, can be faster)
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# TODO: output as a new layer?
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if __name__ == "__main__":
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main()

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