diff --git a/_build/doctrees/environment.pickle b/_build/doctrees/environment.pickle index d468bd0..905809b 100644 Binary files a/_build/doctrees/environment.pickle and b/_build/doctrees/environment.pickle differ diff --git a/_build/doctrees/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.doctree b/_build/doctrees/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.doctree index 8d0bf9a..c821058 100644 Binary files a/_build/doctrees/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.doctree and b/_build/doctrees/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.doctree differ diff --git a/_build/html/_sources/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.rst.txt b/_build/html/_sources/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.rst.txt index 5f70519..edb9423 100644 --- a/_build/html/_sources/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.rst.txt +++ b/_build/html/_sources/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.rst.txt @@ -15,9 +15,9 @@ Depth Profile :target: https://mybinder.org/v2/gh/simonscmap/pycmap/master?filepath=docs%2FViz_DepthProfile.ipynb -.. _API key: pycmap_api.html -.. _APIs parameters: pycmap_api.html -.. _APIs vizEngine: pycmap_api.html +.. _API key: https://cmap.readthedocs.io/en/latest/user_guide/API_ref/pycmap_api/pycmap_api_ref.html +.. _APIs parameters: https://cmap.readthedocs.io/en/latest/user_guide/API_ref/pycmap_api/pycmap_api_ref.html +.. _`APIs vizEngine`: https://cmap.readthedocs.io/en/latest/user_guide/API_ref/pycmap_api/pycmap_api_ref.html .. method:: plot_depth_profile(tables, variables, dt1, dt2, lat1, lat2, lon1, lon2, depth1, depth2, exportDataFlag=False, show=True) @@ -37,6 +37,7 @@ Depth Profile python list. One may use the returned objects to modify the graph properties. + .. note:: This method requires a valid `API key`_. It is not necessary to set the API key every time because the API properties are stored locally after @@ -53,23 +54,24 @@ Depth Profile Variable short name which directly corresponds to a field name in the table. A full list of variable short names can be found in :ref:`Catalog`. **dt1: string** Start date or datetime. This parameter sets the lower bound of the temporal cut. - Example values: '2016-05-25' or '2017-12-10 17:25:00' + Example values: '2016-05-25' or '2017-12-10 17:25:00'. **dt2: string** - End date or datetime. This parameter sets the upper bound of the temporal cut. + End date or datetime. This parameter sets the upper bound of the temporal cut. Example values: '2016-05-25' or '2017-12-10 17:25:00'. **lat1: float** Start latitude [degree N]. This parameter sets the lower bound of the meridional cut. Note latitude ranges from -90° to 90°. **lat2: float** End latitude [degree N]. This parameter sets the upper bound of the meridional cut. Note latitude ranges from -90° to 90°. **lon1: float** - Start longitude [degree E]. This parameter sets the lower bound of the zonal cut. Note latitude ranges from -180° to 180°. + Start longitude [degree E]. This parameter sets the lower bound of the zonal cut. Note longitude ranges from -180° to 180°. **lon2: float** - End longitude [degree E]. This parameter sets the upper bound of the zonal cut. Note latitude ranges from -180° to 180°. + End longitude [degree E]. This parameter sets the upper bound of the zonal cut. Note longitude ranges from -180° to 180°. **depth1: float** - Start depth [m]. This parameter sets the lower bound of the vertical cut. Note depth is a positive number (it is 0 at surface and grows towards ocean floor). + Start depth [m]. This parameter sets the lower bound of the vertical cut. Note depth is a positive number (it is 0 at the surface and increases towards the ocean floor). **depth2: float** - End depth [m]. This parameter sets the upper bound of the vertical cut. Note depth is a positive number (it is 0 at surface and grows towards ocean floor). + End depth [m]. This parameter sets the upper bound of the vertical cut. Note depth is a positive number (it is 0 at the surface and increases towards the ocean floor). **exportDataFlag: boolean, default: False** If True, the graph data points are stored on the local machine. The export path and file format are set by the `APIs parameters`_. + **show: boolean, default: True** If True, the graph object is returned and is displayed. The graph file is saved on the local machine at the figureDir directory. If False, the graph object is returned but not displayed. @@ -78,6 +80,7 @@ Depth Profile :returns\:: list of graph objects + A list of graph objects. Below are the graph's properties and methods. :Properties: @@ -92,11 +95,11 @@ Depth Profile **width: int** Graph's width in pixels. **xlabel: str** - The graphs's x-axis label. + Graphs's x-axis label. **ylabel: str** - The graphs's y-axis label. + Graphs's y-axis label. **title: str** - The graphs's title. + Graphs's title. :Methods: **render()** @@ -155,27 +158,6 @@ changed by: ``pycmap.API(vizEngine='bokeh')`` -.. code-block:: python - - # here is how to modify a graph: - - go[1].cmap = 'PRGn' - go[1].vmin = 0 - go[1].vmax = 5e-5 - go[1].width = 900 - go[1].height = 700 - go[1].render() - -| - -.. raw:: html - - - - - - - .. figure:: /_static/overview_icons/sql.png :scale: 10 % diff --git a/_build/html/searchindex.js b/_build/html/searchindex.js index 3fcb750..3b9ff47 100644 --- a/_build/html/searchindex.js +++ b/_build/html/searchindex.js @@ -1 +1 @@ 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Underway","Mixed-Layer-Depth NRT","MODIS Aerosol Optical Depth","MODIS Photosynthetically Active Radiation","Oceans Melting Greenland AXCTD","Global Picophytoplankton (Buitenhuis)","Pisces","Sea Surface Salinity","Sea Surface Temperature","SeaFlow","World Ocean Atlas Climatology","Wind","Particulate Cobalamins for the KM1314 Cruise","KM1709 Mesoscope Cruise","KM1906 Gradients 3 Cruise","SCOPE HOT Metagenomics","FAQ","Contact and Contribute","Data Submission","Home","Software Packages","cmap4r API","juliacmap API","matcmap API","Exact Amplicon Sequence Variants","Plot XY","Colocalize Cruise","Colocalize Custom Dataset","Plot Depth Profile","Eddy Sampling","Front Sampling","Retrieve Data Catalog","Plot Histogram","Lagrangian Sampling","Map Gridded Data","Map Sparse Data","Retrieve Data","Section Plot","SQL Queries","Plot Time Series","opedia (depreciated)","API","Catalog","Cruise Spatio-Temporal Bounds","Cruise Details by Name","Cruise Trajectory","Cruise Variables","Datasets","Dataset Columns","Dataset Head","Dataset Metadata","If Column Exists","Is Climatology Product","Is Gridded Product","List of Cruises","Match (colocalize) Cruise Track with Datasets","Match (colocalize) Datasets","Metadata","Query","Retrieve Dataset","Search Catalog","Data Subset: Depth Profile","Data Subset: Generic Space-Time Cut","Data Subset: Time Series","Variable Coverage","Variable Stat","Variable Long Name","Variable Resolution","Variable Unit","Correlation Matrix","Correlation Matrix Along Cruise Track","Cruise Track Plot","Depth Profile","Histogram Plot","Regional Map, Contour Plot, 3D Surface Plot","Section Map, Section Contour","Time Series Plot","pycmap API","Data Retrieval","Data Visualization","Installation","Presentations"],titleterms:{"long":135,LCS:63,Near:2,The:78,about:87,abund:[16,17,26,42,74],acknowledg:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84],activ:72,aerosol:71,aftermath:49,aloha:[1,43],along:139,altimetri:[2,3],amplicon:[26,93],amt:16,analysi:30,ant28:26,api:[85,90,91,92,110,146],aquat:49,argo:4,atla:79,atlant:[16,26],averag:23,axctd:73,bacteria:5,badg:85,bat:[5,6,7,8,9,10,11,12,13,42],big:17,biggrapa:17,bigrapa1:17,binder:85,biomass:[13,74],bottl:[6,7,17,43],bound:112,buitenhui:74,caron:[34,38,41],catalog:[0,100,111,129],cell:18,chlorophyl:19,cite:85,climatolog:[24,79,121],cmap4r:90,cmap:[26,85],cobalamin:[56,65,81],code:[93,94,95,96,97,98,99,101,102,103,104,106,108],colab:85,coloc:[95,96,124,125],color:23,column:[117,120],combin:[20,21,22],contact:86,contour:[143,144],contribut:86,convent:87,correl:[138,139],count:17,coverag:133,cpr:[14,15],cruis:[16,17,20,21,22,28,32,33,36,37,39,49,51,56,57,58,59,65,66,67,68,81,82,83,95,112,113,114,115,123,124,139,140],ctd:[8,17,44,51,52,55,64],custom:96,cut:131,cyanobacteria:29,dai:23,darwin:[23,24],dashboard:104,data:[0,1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,87,100,103,104,105,130,131,132,147,148],dataset:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,87,96,116,117,118,119,124,125,128],dataset_meta_data:87,deep:1,delong:25,depreci:109,depth:[70,71,97,105,107,130,141],descript:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84],detail:113,diazotroph:[57,66],digit:[],dissolv:58,distribut:74,document:92,doi:85,download:[],drifter:31,dyhrman:[35,50,61,62],ecosystem:23,ecotyp:17,eddi:[27,98],epimicroscopi:45,esv:26,exact:[26,93],exampl:[87,92,95,124,125,127,138,139,140,141,143,144],exist:120,expedit:95,falkor:28,faq:85,field:95,file:87,filenam:87,first:87,flombaum:29,flow:[],flux:[12,48],format:87,found:85,from:[26,67],front:99,gass:58,gener:131,genom:18,get:85,global:[29,30,31,74],gradient:[52,53,54,55,60,64,69,83],greenland:73,grid:[103,122,143],have:87,head:118,histogram:[101,142],histori:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84],hl2a:32,hoe:[33,34,35,36,37,38,39,61],hot:[25,40,41,42,43,44,45,46,47,48,49,62,84],how:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,56,57,58,59,60,61,62,63,64,65,66,67,68,69,70,71,72,73,74,75,76,77,78,79,80,81,82,83,84,85,86],identifi:[],inorgan:67,instal:149,instrument:78,juliacmap:91,kei:85,km1314:81,km1709:[50,51,82],km1906:[52,53,54,83],kok1606:[55,56,57,58,59,60],lab:[34,35,38,41,50,61,62],lagrangian:102,latitudin:26,lava:[49,62],layer:70,legaci:[33,34,35,36,37,38,39,61],life:49,list:123,macrozooplankton:46,map:[103,104,107,143,144],marin:[57,66],match:[124,125],matcmap:92,matrix:[138,139],melt:73,meridion:16,mesoscop:[50,51,82],meta:87,metabolit:[59,68],metadata:[16,17,119,126],metagenoim:[34,38,41],metagenom:[25,32,84],method:148,mgl1704:[64,65,66,67,68,69],mix:70,model:23,modi:[71,72],must:87,name:[113,135],note:26,nrt:70,nutrient:[23,67],object:[],ocean:[23,26,30,73,79],omic:[1,35,50,61,62],one:85,opedia:109,optic:[54,60,69,71],organ:67,packag:89,par:20,particl:48,particul:[56,65,81],photosynthet:72,phytoplankton:[14,23],picophytoplankton:74,pigment:[9,10],pisc:75,plot:[94,97,101,106,108,140,142,143,145],prerequisit:[],present:150,primari:11,process:[],prochlorococcu:[16,17,42],product:[5,11,121,122],profil:[97,105,107,130,141],program:31,project:30,pycmap:146,qpcr:17,queri:[107,127],radiat:72,rapa:17,real:2,recommend:[103,104],refer:[],region:[103,104,107,143],reprocess:[3,19,26,63],requir:87,resolut:136,retriev:[100,105,128,147],salin:[21,76],sampl:[98,99,102],scope:84,sea:[76,77],seaflow:78,search:129,second:87,section:[105,106,144],sediment:[1,12],sequenc:[26,93],seri:[42,105,107,108,132,145],set:[103,104],sheet:87,should:[],singl:18,softwar:89,sourc:[1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,50,51,52,53,54,55,5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\ No newline at end of file diff --git a/_build/html/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.html b/_build/html/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.html index 4a55bb7..954539f 100644 --- a/_build/html/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.html +++ b/_build/html/user_guide/API_ref/pycmap_api/data_vizualization/pycmap_depth_profile.html @@ -243,20 +243,20 @@ by depth: at each depth level the mean and standard deviation of the variable values within the space-time constraints are computed. The sequence of these values construct the depth profile.

-

Change the APIs vizEngine parameter if you wish to use a different +

Change the APIs vizEngine parameter if you wish to use a different visualization library. Returns the generated graph objects in form of a python list. One may use the returned objects to modify the graph properties.

Note

-

This method requires a valid API key. It is not necessary to set the +

This method requires a valid API key. It is not necessary to set the API key every time because the API properties are stored locally after being called the first time.


-
+
Parameters
tables: list of string

Table names (each dataset is stored in a table). A full list of table names can be found in Data Catalog.

@@ -264,23 +264,23 @@
variable: list of string

Variable short name which directly corresponds to a field name in the table. A full list of variable short names can be found in Data Catalog.

dt1: string

Start date or datetime. This parameter sets the lower bound of the temporal cut. -Example values: ‘2016-05-25’ or ‘2017-12-10 17:25:00’

+Example values: ‘2016-05-25’ or ‘2017-12-10 17:25:00’.

-
dt2: string

End date or datetime. This parameter sets the upper bound of the temporal cut.

+
dt2: string

End date or datetime. This parameter sets the upper bound of the temporal cut. Example values: ‘2016-05-25’ or ‘2017-12-10 17:25:00’.

lat1: float

Start latitude [degree N]. This parameter sets the lower bound of the meridional cut. Note latitude ranges from -90° to 90°.

lat2: float

End latitude [degree N]. This parameter sets the upper bound of the meridional cut. Note latitude ranges from -90° to 90°.

-
lon1: float

Start longitude [degree E]. This parameter sets the lower bound of the zonal cut. Note latitude ranges from -180° to 180°.

+
lon1: float

Start longitude [degree E]. This parameter sets the lower bound of the zonal cut. Note longitude ranges from -180° to 180°.

-
lon2: float

End longitude [degree E]. This parameter sets the upper bound of the zonal cut. Note latitude ranges from -180° to 180°.

+
lon2: float

End longitude [degree E]. This parameter sets the upper bound of the zonal cut. Note longitude ranges from -180° to 180°.

-
depth1: float

Start depth [m]. This parameter sets the lower bound of the vertical cut. Note depth is a positive number (it is 0 at surface and grows towards ocean floor).

+
depth1: float

Start depth [m]. This parameter sets the lower bound of the vertical cut. Note depth is a positive number (it is 0 at the surface and increases towards the ocean floor).

-
depth2: float

End depth [m]. This parameter sets the upper bound of the vertical cut. Note depth is a positive number (it is 0 at surface and grows towards ocean floor).

+
depth2: float

End depth [m]. This parameter sets the upper bound of the vertical cut. Note depth is a positive number (it is 0 at the surface and increases towards the ocean floor).

-
exportDataFlag: boolean, default: False

If True, the graph data points are stored on the local machine. The export path and file format are set by the APIs parameters.

+
exportDataFlag: boolean, default: False

If True, the graph data points are stored on the local machine. The export path and file format are set by the APIs parameters.

show: boolean, default: True

If True, the graph object is returned and is displayed. The graph file is saved on the local machine at the figureDir directory. If False, the graph object is returned but not displayed.

@@ -288,8 +288,8 @@
Returns:
-

list of graph objects -A list of graph objects. Below are the graph’s properties and methods.

+

list of graph objects

+

A list of graph objects. Below are the graph’s properties and methods.

Properties
@@ -303,11 +303,11 @@
width: int

Graph’s width in pixels.

-
xlabel: str

The graphs’s x-axis label.

+
xlabel: str

Graphs’s x-axis label.

-
ylabel: str

The graphs’s y-axis label.

+
ylabel: str

Graphs’s y-axis label.

-
title: str

The graphs’s title.

+
title: str

Graphs’s title.

@@ -360,20 +360,7 @@

Example:>

-
# here is how to modify a graph:
-
-go[1].cmap = 'PRGn'
-go[1].vmin = 0
-go[1].vmax = 5e-5
-go[1].width = 900
-go[1].height = 700
-go[1].render()
-
-
-
-

-
-