diff --git a/README.md b/README.md index e859353..3696e8d 100644 --- a/README.md +++ b/README.md @@ -62,7 +62,7 @@ Users should first ensure they have a functioning docker installation. ### Pull container The docker image can be downloaded from docker hub using the following command: -`docker pull eawag/sencast:0.0.1` +`docker pull eawag/sencast:0.0.2` ### Run Tests @@ -72,7 +72,7 @@ functioning of the processors. **This must be run from inside the sencast reposi The option `-v /DIAS:/DIAS` maps the input/ output folders to a location outside the container. This should be updated to the appropriate location, e.g. `-v /home/user/DIAS:/DIAS` -`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -t` +`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -t` `-e` name of the environment file in `sencast/environments` `-t` flag to indicate a test should be run @@ -81,7 +81,7 @@ the appropriate location, e.g. `-v /home/user/DIAS:/DIAS` In order to run a parameters file it can be passed to the command as follows using the `-p` flag. -`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -p example.ini` +`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -p example.ini` `-p` name of the parameter file in `sencast/parameters` @@ -89,8 +89,8 @@ In order to run a parameters file it can be passed to the command as follows usi Sometimes it is desirable to interact directly with the container, this can be achieved with the following command: -`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.1` +`docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.2` ### Locally build container -`docker build -t eawag/sencast:0.0.1 .` +`docker build -t eawag/sencast:0.0.2 .` diff --git a/docs/_build/doctrees/adapters/datalakes.doctree b/docs/_build/doctrees/adapters/datalakes.doctree index 7cb0757..6aea834 100644 Binary files a/docs/_build/doctrees/adapters/datalakes.doctree and b/docs/_build/doctrees/adapters/datalakes.doctree differ diff --git a/docs/_build/doctrees/apis/coah.doctree b/docs/_build/doctrees/apis/coah.doctree index 36bd39c..dbe7190 100644 Binary files a/docs/_build/doctrees/apis/coah.doctree and b/docs/_build/doctrees/apis/coah.doctree differ diff --git a/docs/_build/doctrees/apis/creodias.doctree b/docs/_build/doctrees/apis/creodias.doctree index 11a5d0a..44a1cbd 100644 Binary files a/docs/_build/doctrees/apis/creodias.doctree and b/docs/_build/doctrees/apis/creodias.doctree differ diff --git a/docs/_build/doctrees/cscs.doctree b/docs/_build/doctrees/cscs.doctree index 4872fd5..fe69e76 100644 Binary files a/docs/_build/doctrees/cscs.doctree and b/docs/_build/doctrees/cscs.doctree differ diff --git a/docs/_build/doctrees/environment.pickle b/docs/_build/doctrees/environment.pickle index 83f5365..1d9ca41 100644 Binary files a/docs/_build/doctrees/environment.pickle and b/docs/_build/doctrees/environment.pickle differ diff --git a/docs/_build/doctrees/index.doctree b/docs/_build/doctrees/index.doctree index 4771fc2..04bbd29 100644 Binary files a/docs/_build/doctrees/index.doctree and b/docs/_build/doctrees/index.doctree differ diff --git a/docs/_build/doctrees/install/linux.doctree b/docs/_build/doctrees/install/linux.doctree index b69efd0..2e5d511 100644 Binary files a/docs/_build/doctrees/install/linux.doctree and b/docs/_build/doctrees/install/linux.doctree differ diff --git a/docs/_build/doctrees/processors/polymer.doctree b/docs/_build/doctrees/processors/polymer.doctree index 3a82940..f1a00ed 100644 Binary files a/docs/_build/doctrees/processors/polymer.doctree and b/docs/_build/doctrees/processors/polymer.doctree differ diff --git a/docs/_build/doctrees/utils/product_fun.doctree b/docs/_build/doctrees/utils/product_fun.doctree index 4f3bb4c..2e1dc45 100644 Binary files a/docs/_build/doctrees/utils/product_fun.doctree and b/docs/_build/doctrees/utils/product_fun.doctree differ diff --git a/docs/_build/html/_sources/cscs.rst.txt b/docs/_build/html/_sources/cscs.rst.txt index b9ba1a4..be6067a 100644 --- a/docs/_build/html/_sources/cscs.rst.txt +++ b/docs/_build/html/_sources/cscs.rst.txt @@ -72,7 +72,7 @@ Pull the image you want from dockerhub: .. code-block:: bash - srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.1 + srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.2 then enter your credentials for the repository (There is no prompt) @@ -118,7 +118,7 @@ Create a submission script containing the following (adjust details to match you export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK module load daint-mc module load sarus - image='eawag/sencast:0.0.1' + image='eawag/sencast:0.0.2' envvars='docker.ini' params='parameters.ini' filepath="${SCRATCH}/DIAS" diff --git a/docs/_build/html/_sources/index.rst.txt b/docs/_build/html/_sources/index.rst.txt index 7c7d717..1cf05a1 100644 --- a/docs/_build/html/_sources/index.rst.txt +++ b/docs/_build/html/_sources/index.rst.txt @@ -151,7 +151,7 @@ The docker image can be downloaded from docker hub using the following command: .. code-block:: bash - docker pull eawag/sencast:0.0.1 + docker pull eawag/sencast:0.0.2 Run Tests ~~~~~~~~~~~ @@ -164,7 +164,7 @@ the appropriate location, e.g. `-v /home/user/DIAS:/DIAS` .. code-block:: bash - docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -t + docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -t `-e` name of the environment file in `sencast/environments` `-t` flag to indicate a test should be run @@ -176,7 +176,7 @@ In order to run a parameters file it can be passed to the command as follows usi .. code-block:: bash - docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -p example.ini + docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -p example.ini `-p` name of the parameter file in `sencast/parameters` @@ -187,14 +187,14 @@ Sometimes it is desirable to interact directly with the container, this can be a .. code-block:: bash - docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.1 + docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.2 Locally build container ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. code-block:: bash - docker build -t eawag/sencast:0.0.1 . + docker build -t eawag/sencast:0.0.2 . .. toctree:: diff --git a/docs/_build/html/_sources/install/linux.rst.txt b/docs/_build/html/_sources/install/linux.rst.txt index cef4680..a00f314 100644 --- a/docs/_build/html/_sources/install/linux.rst.txt +++ b/docs/_build/html/_sources/install/linux.rst.txt @@ -41,36 +41,16 @@ First, uninstall all old versions of SNAP and remove associated data. You may ne $ cd ~ $ curl -O http://step.esa.int/downloads/9.0/installers/esa-snap_all_unix_9_0_0.sh && chmod 755 esa-snap_all_unix_9_0_0.sh && bash esa-snap_all_unix_9_0_0.sh && rm esa-snap_all_unix_9_0_0.sh - [o, Enter] - [1, Enter] - [Enter] - [Enter] - [n, Enter] - [n, Enter] - [n, Enter] - $ echo "export SNAP_HOME=/home/username/snap" >> ~/.bashrc - $ export SNAP_HOME=/home/username/snap - $ $SNAP_HOME/bin/snap --nosplash --nogui --modules --update-all - $ $SNAP_HOME/bin/snap --nosplash --nogui --modules --install org.esa.snap.idepix.core org.esa.snap.idepix.probav org.esa.snap.idepix.modis org.esa.snap.idepix.spotvgt org.esa.snap.idepix.landsat8 org.esa.snap.idepix.viirs org.esa.snap.idepix.olci org.esa.snap.idepix.seawifs org.esa.snap.idepix.meris org.esa.snap.idepix.s2msi - $ echo "#SNAP configuration 's3tbx'" >> ~/.snap/etc/s3tbx.properties - $ echo "#Fri Mar 27 12:55:00 CET 2020" >> ~/.snap/etc/s3tbx.properties - $ echo "s3tbx.reader.olci.pixelGeoCoding=true" >> ~/.snap/etc/s3tbx.properties - $ echo "s3tbx.reader.meris.pixelGeoCoding=true" >> ~/.snap/etc/s3tbx.properties - $ echo "s3tbx.reader.slstrl1b.pixelGeoCodings=true" >> ~/.snap/etc/s3tbx.properties -Note: if you encounter any strange error message with X11GraphicsEnvironment, try unsetting the DISPLAY variable (and don't question why) +This will launch a interactive window where you can install the SNAP software. -Note: there are many strange error messages, but it seems to work in the end when updating and installing plugins +You need to add the path to gpt to the environment file it is typically something like /home/username/snap/bin/gpt -To remove warning "WARNING: org.esa.snap.dataio.netcdf.util.MetadataUtils: Missing configuration property ‘snap.dataio.netcdf.metadataElementLimit’. Using default (100).":: - - $ echo "" >> $SNAP_HOME/etc/snap.properties - $ echo "# NetCDF options" >> $SNAP_HOME/etc/snap.properties - $ echo "snap.dataio.netcdf.metadataElementLimit=10000" >> $SNAP_HOME/etc/snap.properties - -To remove warning "SEVERE: org.esa.s2tbx.dataio.gdal.activator.GDALDistributionInstaller: The environment variable LD_LIBRARY_PATH is not set. It must contain the current folder '.'.":: +IDEPIX +-------- - $ echo "export LD_LIBRARY_PATH=." >> ~/.bashrc +Idepix is a plugin from SNAP that can be installed by opening SNAP and going Tools -> Plugins. From the available +plugins download all the Idepix plugins. They will be available in Sencast once you restart SNAP. POLYMER -------- @@ -99,29 +79,6 @@ In shell do following:: Configure path to l8_angles in your environment file. -CDS API -________ - -Setup credentials for CDS API:: - - $ echo "url: https://cds.climate.copernicus.eu/api/v2" > ~/.cdsapirc - $ echo key: [uid]:[api-key] >> ~/.cdsapirc (Note: replace [uid] and [api-key] by your actual credentials, see https://cds.climate.copernicus.eu/api-how-to ) - $ chmod 600 ~/.cdsapirc - - -NASA Earthdata API --------------------- - -Have a NASA Earthdata account ready, otherwise create one: https://urs.earthdata.nasa.gov/ - -In shell do following:: - - $ touch ~/.netrc - $ touch ~/.urs_cookies - $ echo "machine urs.earthdata.nasa.gov login password " >> ~/.netrc - $ chmod 0600 ~/.netrc - - Acolite -------- @@ -135,6 +92,13 @@ In shell do following:: Configure your Acolite path in you environment file. +OCSMART +-------- + +Download the OCSMART linux package from http://www.rtatmocn.com/oc-smart/ + +Unzip the package somewhere and then add a path the the folder that contains OCSMART.py to your environment file + FLUO ----- diff --git a/docs/_build/html/adapters/datalakes.html b/docs/_build/html/adapters/datalakes.html index 33d0e1c..6d2a243 100644 --- a/docs/_build/html/adapters/datalakes.html +++ b/docs/_build/html/adapters/datalakes.html @@ -91,11 +91,6 @@

DIAS API's

@@ -134,49 +124,8 @@
-
-

COAH API

-

EO data access - COAH API

-
-
-dias_apis.coah.coah.authenticate(env)
-
- -
-
-dias_apis.coah.coah.do_download(auth, product, env, max_attempts=4, wait_time=30)
-
- -
-
-dias_apis.coah.coah.get_dataset_id(sensor, resolution)
-
- -
-
-dias_apis.coah.coah.get_download_requests(auth, start_date, completion_date, sensor, resolution, wkt, env)
-
- -
-
-dias_apis.coah.coah.get_token(username, password)
-
- -
-
-dias_apis.coah.coah.search(satellite, query, env)
-
- -
-
-dias_apis.coah.coah.server_authenticate(auth, env, max_attempts=5, wait_time=5)
-
- -
-
-dias_apis.coah.coah.timeliness_filter(products)
-
- +
+

COAH API

diff --git a/docs/_build/html/apis/creodias.html b/docs/_build/html/apis/creodias.html index 83b6ba5..bb7d536 100644 --- a/docs/_build/html/apis/creodias.html +++ b/docs/_build/html/apis/creodias.html @@ -96,18 +96,7 @@

DIAS API's

@@ -135,54 +124,8 @@
-
-

CREODIAS API

-

EO data access - CREODIAS API

-
-
-dias_apis.creodias.creodias.authenticate(env)
-
- -
-
-dias_apis.creodias.creodias.do_download(auth, product, env, max_attempts=4, wait_time=30, bucket_name='DIAS')
-
- -
-
-dias_apis.creodias.creodias.get_dataset_id(sensor, resolution)
-
- -
-
-dias_apis.creodias.creodias.get_download_requests(auth, start_date, completion_date, sensor, resolution, wkt, env)
-
- -
-
-dias_apis.creodias.creodias.get_token(username, password, totp)
-
- -
-
-dias_apis.creodias.creodias.get_totp(totp_key)
-
- -
-
-dias_apis.creodias.creodias.search(satellite, query, env)
-
- -
-
-dias_apis.creodias.creodias.server_authenticate(auth, env, max_attempts=5, wait_time=5)
-
- -
-
-dias_apis.creodias.creodias.timeliness_filter(products)
-
- +
+

CREODIAS API

diff --git a/docs/_build/html/cscs.html b/docs/_build/html/cscs.html index 52d39cb..ee5968d 100644 --- a/docs/_build/html/cscs.html +++ b/docs/_build/html/cscs.html @@ -189,7 +189,7 @@

Install Sencast
srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.1
+
srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.2
 

 

 
then enter your credentials for the repository (There is no prompt)

@@ -226,7 +226,7 @@ 
Run Sencastexport OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK
 module load daint-mc
 module load sarus
-image='eawag/sencast:0.0.1'
+image='eawag/sencast:0.0.2'
 envvars='docker.ini'
 params='parameters.ini'
 filepath="${SCRATCH}/DIAS"
diff --git a/docs/_build/html/genindex.html b/docs/_build/html/genindex.html
index 446bca3..1355d87 100644
--- a/docs/_build/html/genindex.html
+++ b/docs/_build/html/genindex.html
@@ -172,10 +172,10 @@ 
A

         
  • module
 
    • 
       
-      
  • append_to_valid_pixel_expression() (in module utils.product_fun)
-
    • 
   
   
      
+      
    • append_to_valid_pixel_expression() (in module utils.product_fun)
+
      • 
       
    • apply() (in module adapters.datalakes.datalakes)
 
       
      • 
-      
    • authenticate() (in module dias_apis.coah.coah)
-
-      
      • 
       
    • authenticate_cds_anc() (in module utils.auxil)
 
      • 
       
    • authenticate_earthdata_anc() (in module utils.auxil)
@@ -205,19 +199,15 @@ 
      C
      
 
-  
+  
-  
+  
@@ -308,6 +278,8 @@ 
      G
    • get_band_from_nc() (in module utils.product_fun)
 
    • get_band_names_from_nc() (in module utils.product_fun)
+
      • 
+      
    • get_bounds_from_nc() (in module utils.product_fun)
 
    • get_corner_pixels_roi_msi() (in module processors.polymer.polymer)
 
      • 
@@ -317,23 +289,13 @@ 
      G
    • get_datarequest_results() (in module dias_apis.hda.hda)
 
      • 
-      
    • get_dataset_id() (in module dias_apis.coah.coah)
-
-      
      • 
-      
    • get_download_requests() (in module dias_apis.coah.coah)
-
-      
    • get_FU_class() (in module processors.forelule.forelule)
+
      • 
+      
    • get_horizontal_cs_code() (in module processors.polymer.polymer)
 
    • get_hue_angle() (in module processors.forelule.forelule)
 
      • 
@@ -346,12 +308,10 @@ 
      G
    • get_legend_str() (in module adapters.qlsingleband.qlsingleband)
 
    • get_lons_lats() (in module utils.product_fun)
-
      • 
-      
    • get_main_file_from_product_path() (in module utils.product_fun)
 
      • 
   
       
    • dominant_wavelength_wrapper() (in module processors.forelule.forelule)
 
      • 
         		
       
       
       
 
       
       
       
       
       
   
   
        
-      
      • get_mask_from_geojson() (in module adapters.datalakes.datalakes)
+      
      • get_main_file_from_product_path() (in module utils.product_fun)
 
        • 
       
      • get_name_width_height_from_nc() (in module utils.product_fun)
 
        • 
@@ -359,9 +319,7 @@ 
        G
        
 
       
      • get_pixel_pos() (in module utils.product_fun)
 
        • 
-      
      • get_pixel_pos_msi() (in module processors.polymer.polymer)
-
        • 
-      
      • get_pixel_pos_oli() (in module processors.polymer.polymer)
+      
      • get_pixel_pos_gdal() (in module processors.polymer.polymer)
 
        • 
       
      • get_pixel_value_xy() (in module utils.product_fun)
 
        • 
@@ -385,13 +343,7 @@ 
        G
        
 
       
      • get_south_east_north_west_bound() (in module utils.product_fun)
 
        • 
-      
      • get_token() (in module dias_apis.coah.coah)
-
-      
        • 
-      
      • get_totp() (in module dias_apis.creodias.creodias)
+      
      • get_tile_name_from_product_name() (in module utils.product_fun)
 
        • 
       
      • get_valid_pe_from_nc() (in module utils.product_fun)
 
        • 
@@ -463,10 +415,6 @@ 
        M
        
         
      • adapters.qlrgb.qlrgb
 
        • 
         
      • adapters.qlsingleband.qlsingleband
-
        • 
-        
      • dias_apis.coah.coah
-
        • 
-        
      • dias_apis.creodias.creodias
 
        • 
         
      • dias_apis.hda.hda
 
        • 
@@ -531,8 +479,6 @@ 
        O
        
 
        P
        
 
        
   
          
-      
        • parse_bands() (in module adapters.datalakes.datalakes)
-
          • 
       
        • parse_date_from_name() (in module utils.product_fun)
 
          • 
       
        • parse_s3_name() (in module utils.product_fun)
@@ -790,12 +736,6 @@ 
          R
          
 
          S
          
 
-  
          
   
 
          
 
 
          U
          
 
-     
-       
-       
-     
-       
-       
          
   
@@ -553,11 +556,6 @@ 
          Locally build container
 
        • Datalakes
 
          • 
 
        • QLRGB
          		• 
        dias_apis
        
             
-       dias_apis.coah.coah
-       
             
-       dias_apis.creodias.creodias
-       
          
      
          
        
           
diff --git a/docs/_build/html/searchindex.js b/docs/_build/html/searchindex.js
index e517480..27a5706 100644
--- a/docs/_build/html/searchindex.js
+++ b/docs/_build/html/searchindex.js
@@ -1 +1 @@
-Search.setIndex({"docnames": ["README", "adapters/datalakes", "adapters/qlrgb", "adapters/qlsingleband", "apis/coah", "apis/creodias", "apis/hda", "cscs", "environment_config", "index", "install/linux", "install/windows", "main", "parameters_config", "processors/acolite", "processors/c2rcc", "processors/fluo", "processors/forelule", "processors/icor", "processors/idepix", "processors/lswt", "processors/mdn", "processors/merge", "processors/mph", "processors/ndwi", "processors/oc3", "processors/polymer", "processors/primaryproduction", "processors/s2res", "processors/secchidepth", "processors/sen2cor", "processors/whiting", "utils/auxil", "utils/earthdata", "utils/product_fun"], "filenames": ["README.md", "adapters/datalakes.rst", "adapters/qlrgb.rst", "adapters/qlsingleband.rst", "apis/coah.rst", "apis/creodias.rst", "apis/hda.rst", "cscs.rst", "environment_config.rst", "index.rst", "install/linux.rst", "install/windows.rst", "main.rst", "parameters_config.rst", 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"rewrite_xml() (in module processors.sen2cor.sen2cor)": [[30, "processors.sen2cor.sen2cor.rewrite_xml"]], "process() (in module processors.whiting.whiting)": [[31, "processors.whiting.whiting.process"]], "processors.whiting.whiting": [[31, "module-processors.whiting.whiting"]], "rewrite_xml() (in module processors.whiting.whiting)": [[31, "processors.whiting.whiting.rewrite_xml"]], "authenticate_cds_anc() (in module utils.auxil)": [[32, "utils.auxil.authenticate_cds_anc"]], "authenticate_earthdata_anc() (in module utils.auxil)": [[32, "utils.auxil.authenticate_earthdata_anc"]], "error() (in module utils.auxil)": [[32, "utils.auxil.error"]], "gpt_subprocess() (in module utils.auxil)": [[32, "utils.auxil.gpt_subprocess"]], "init_hindcast() (in module utils.auxil)": [[32, "utils.auxil.init_hindcast"]], "load_environment() (in module utils.auxil)": [[32, "utils.auxil.load_environment"]], "load_params() (in module utils.auxil)": [[32, "utils.auxil.load_params"]], "load_properties() (in 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utils.product_fun)": [[34, "utils.product_fun.get_s2_tile_name_from_product_name"]], "get_satellite_name_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_satellite_name_from_product_name"]], "get_sensing_date_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_sensing_date_from_product_name"]], "get_sensing_datetime_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_sensing_datetime_from_product_name"]], "get_south_east_north_west_bound() (in module utils.product_fun)": [[34, "utils.product_fun.get_south_east_north_west_bound"]], "get_valid_pe_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_valid_pe_from_nc"]], "parse_date_from_name() (in module utils.product_fun)": [[34, "utils.product_fun.parse_date_from_name"]], "parse_s3_name() (in module utils.product_fun)": [[34, "utils.product_fun.parse_s3_name"]], "read_pixels_from_band() (in module utils.product_fun)": [[34, 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\ No newline at end of file
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"processors/acolite.rst", "processors/c2rcc.rst", "processors/fluo.rst", "processors/forelule.rst", "processors/icor.rst", "processors/idepix.rst", "processors/lswt.rst", "processors/mdn.rst", "processors/merge.rst", "processors/mph.rst", "processors/ndwi.rst", "processors/oc3.rst", "processors/polymer.rst", "processors/primaryproduction.rst", "processors/s2res.rst", "processors/secchidepth.rst", "processors/sen2cor.rst", "processors/whiting.rst", "utils/auxil.rst", "utils/earthdata.rst", "utils/product_fun.rst"], "titles": ["Sencast Documentation", "Datalakes", "QLRGB", "QLSingleBand", "COAH API", "CREODIAS API", "HDA API", "CSCS", "Environment File", "Sencast", "Linux", "Windows", "main", "Parameter File", "Acolite", "C2RCC", "FLUO", "ForelUle", "ICOR", "IDEPIX", "LSWT", "MDN", "Merge", "MPH", "NDWI", "OC3", "Polymer", "Primary Production", "S2Res", "Secchi Depth", "Sen2cor", "Whiting", "auxil", "Earth Data", "product_fun"], "terms": {"us": [0, 3, 6, 8, 9, 10, 11, 13, 15, 21, 22, 23, 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"processors.forelule.forelule": [[17, "module-processors.forelule.forelule"]], "create_args_msi() (in module processors.icor.icor)": [[18, "processors.icor.icor.create_args_msi"]], "create_args_olci() (in module processors.icor.icor)": [[18, "processors.icor.icor.create_args_olci"]], "create_args_oli_tirs() (in module processors.icor.icor)": [[18, "processors.icor.icor.create_args_oli_tirs"]], "process() (in module processors.icor.icor)": [[18, "processors.icor.icor.process"]], "processors.icor.icor": [[18, "module-processors.icor.icor"]], "get_reproject_params_from_msi() (in module processors.idepix.idepix)": [[19, "processors.idepix.idepix.get_reproject_params_from_msi"]], "process() (in module processors.idepix.idepix)": [[19, "processors.idepix.idepix.process"]], "processors.idepix.idepix": [[19, "module-processors.idepix.idepix"]], "rewrite_xml() (in module processors.idepix.idepix)": [[19, "processors.idepix.idepix.rewrite_xml"]], "process() (in module processors.lswt.lswt)": [[20, "processors.lswt.lswt.process"]], "processors.lswt.lswt": [[20, "module-processors.lswt.lswt"]], "rewrite_xml() (in module processors.lswt.lswt)": [[20, "processors.lswt.lswt.rewrite_xml"]], "process() (in module processors.mdn.mdn)": [[21, "processors.mdn.mdn.process"]], "processors.mdn.mdn": [[21, "module-processors.mdn.mdn"]], "apply() (in module processors.merge.merge)": [[22, "processors.merge.merge.apply"]], "processors.merge.merge": [[22, "module-processors.merge.merge"]], "rewrite_xml() (in module processors.merge.merge)": [[22, "processors.merge.merge.rewrite_xml"]], "process() (in module processors.mph.mph)": [[23, "processors.mph.mph.process"]], "processors.mph.mph": [[23, "module-processors.mph.mph"]], "rewrite_xml() (in module processors.mph.mph)": [[23, "processors.mph.mph.rewrite_xml"]], "process() (in module processors.ndwi.ndwi)": [[24, "processors.ndwi.ndwi.process"]], "processors.ndwi.ndwi": [[24, "module-processors.ndwi.ndwi"]], "rewrite_xml() (in module processors.ndwi.ndwi)": [[24, "processors.ndwi.ndwi.rewrite_xml"]], "qascores() (in module processors.oc3.oc3)": [[25, "processors.oc3.oc3.QAscores"]], "interpolate_spectra() (in module processors.oc3.oc3)": [[25, "processors.oc3.oc3.interpolate_spectra"]], "ocx() (in module processors.oc3.oc3)": [[25, "processors.oc3.oc3.ocx"]], "process() (in module processors.oc3.oc3)": [[25, "processors.oc3.oc3.process"]], "processors.oc3.oc3": [[25, "module-processors.oc3.oc3"]], "read_rrs_polymer() (in module processors.oc3.oc3)": [[25, "processors.oc3.oc3.read_rrs_polymer"]], "get_corner_pixels_roi_msi() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.get_corner_pixels_roi_msi"]], "get_corner_pixels_roi_olci() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.get_corner_pixels_roi_olci"]], "get_corner_pixels_roi_oli() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.get_corner_pixels_roi_oli"]], "get_horizontal_cs_code() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.get_horizontal_cs_code"]], "get_pixel_pos_gdal() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.get_pixel_pos_gdal"]], "process() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.process"]], "processors.polymer.polymer": [[26, "module-processors.polymer.polymer"]], "rewrite_xml() (in module processors.polymer.polymer)": [[26, "processors.polymer.polymer.rewrite_xml"]], "fpar() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.Fpar"]], "m() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.M"]], "pp() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.PP"]], "phytoplanktontochlorophyll() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.PhytoplanktonToChlorophyll"]], "qstarpar() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.Qstarpar"]], "absorption() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.absorption"]], "datetomonth() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.datetomonth"]], "pp_trapezoidal_numerical_integration() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.pp_trapezoidal_numerical_integration"]], "process() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.process"]], "processors.primaryproduction.primaryproduction": [[27, "module-processors.primaryproduction.primaryproduction"]], "q0par() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.q0par"]], "qpar0_lookup() (in module processors.primaryproduction.primaryproduction)": [[27, "processors.primaryproduction.primaryproduction.qpar0_lookup"]], "process() (in module processors.s2res.s2res)": [[28, "processors.s2res.s2res.process"]], "processors.s2res.s2res": [[28, "module-processors.s2res.s2res"]], "rewrite_xml() (in module processors.s2res.s2res)": [[28, "processors.s2res.s2res.rewrite_xml"]], "process() (in module processors.secchidepth.secchidepth)": [[29, "processors.secchidepth.secchidepth.process"]], "processors.secchidepth.secchidepth": [[29, "module-processors.secchidepth.secchidepth"]], "secchi_s2() (in module processors.secchidepth.secchidepth)": [[29, "processors.secchidepth.secchidepth.secchi_s2"]], "secchi_s3() (in module processors.secchidepth.secchidepth)": [[29, "processors.secchidepth.secchidepth.secchi_s3"]], "process() (in module processors.sen2cor.sen2cor)": [[30, "processors.sen2cor.sen2cor.process"]], "processors.sen2cor.sen2cor": [[30, "module-processors.sen2cor.sen2cor"]], "rewrite_xml() (in module processors.sen2cor.sen2cor)": [[30, "processors.sen2cor.sen2cor.rewrite_xml"]], "process() (in module processors.whiting.whiting)": [[31, "processors.whiting.whiting.process"]], "processors.whiting.whiting": [[31, "module-processors.whiting.whiting"]], "rewrite_xml() (in module processors.whiting.whiting)": [[31, "processors.whiting.whiting.rewrite_xml"]], "authenticate_cds_anc() (in module utils.auxil)": [[32, "utils.auxil.authenticate_cds_anc"]], "authenticate_earthdata_anc() (in module utils.auxil)": [[32, "utils.auxil.authenticate_earthdata_anc"]], "error() (in module utils.auxil)": [[32, "utils.auxil.error"]], "gpt_subprocess() (in module utils.auxil)": [[32, "utils.auxil.gpt_subprocess"]], "init_hindcast() (in module utils.auxil)": [[32, "utils.auxil.init_hindcast"]], "load_environment() (in module utils.auxil)": [[32, "utils.auxil.load_environment"]], "load_params() (in module utils.auxil)": [[32, "utils.auxil.load_params"]], "load_properties() (in module utils.auxil)": [[32, "utils.auxil.load_properties"]], "load_wkt() (in module utils.auxil)": [[32, "utils.auxil.load_wkt"]], "log() (in module utils.auxil)": [[32, "utils.auxil.log"]], "log_output() (in module utils.auxil)": [[32, "utils.auxil.log_output"]], "set_memory_parameters() (in module utils.auxil)": [[32, "utils.auxil.set_memory_parameters"]], "utils.auxil": [[32, "module-utils.auxil"]], "utils.earthdata": [[33, "module-utils.earthdata"]], "append_to_valid_pixel_expression() (in module utils.product_fun)": [[34, "utils.product_fun.append_to_valid_pixel_expression"]], "copy_band() (in module utils.product_fun)": [[34, "utils.product_fun.copy_band"]], "copy_nc() (in module utils.product_fun)": [[34, "utils.product_fun.copy_nc"]], "create_band() (in module utils.product_fun)": [[34, "utils.product_fun.create_band"]], "create_chunks() (in module utils.product_fun)": [[34, "utils.product_fun.create_chunks"]], "filter_for_baseline() (in module utils.product_fun)": [[34, "utils.product_fun.filter_for_baseline"]], "filter_for_tiles() (in module utils.product_fun)": [[34, "utils.product_fun.filter_for_tiles"]], "generate_l8_angle_files() (in module utils.product_fun)": [[34, "utils.product_fun.generate_l8_angle_files"]], "get_band_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_band_from_nc"]], "get_band_names_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_band_names_from_nc"]], "get_bounds_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_bounds_from_nc"]], "get_l1product_path() (in module utils.product_fun)": [[34, "utils.product_fun.get_l1product_path"]], "get_lat_lon_from_x_y() (in module utils.product_fun)": [[34, "utils.product_fun.get_lat_lon_from_x_y"]], "get_lat_lon_from_x_y_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_lat_lon_from_x_y_from_nc"]], "get_lons_lats() (in module utils.product_fun)": [[34, "utils.product_fun.get_lons_lats"]], "get_main_file_from_product_path() (in module utils.product_fun)": [[34, "utils.product_fun.get_main_file_from_product_path"]], "get_name_width_height_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_name_width_height_from_nc"]], "get_np_data_type() (in module utils.product_fun)": [[34, "utils.product_fun.get_np_data_type"]], "get_pixel_pos() (in module utils.product_fun)": [[34, "utils.product_fun.get_pixel_pos"]], "get_pixel_value_xy() (in module utils.product_fun)": [[34, "utils.product_fun.get_pixel_value_xy"]], "get_pixels_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_pixels_from_nc"]], "get_reproject_params_from_jp2() (in module utils.product_fun)": [[34, "utils.product_fun.get_reproject_params_from_jp2"]], "get_reproject_params_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_reproject_params_from_nc"]], "get_reproject_params_from_wkt() (in module utils.product_fun)": [[34, "utils.product_fun.get_reproject_params_from_wkt"]], "get_s2_tile_name_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_s2_tile_name_from_product_name"]], "get_satellite_name_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_satellite_name_from_product_name"]], "get_sensing_date_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_sensing_date_from_product_name"]], "get_sensing_datetime_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_sensing_datetime_from_product_name"]], "get_south_east_north_west_bound() (in module utils.product_fun)": [[34, "utils.product_fun.get_south_east_north_west_bound"]], "get_tile_name_from_product_name() (in module utils.product_fun)": [[34, "utils.product_fun.get_tile_name_from_product_name"]], "get_valid_pe_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.get_valid_pe_from_nc"]], "parse_date_from_name() (in module utils.product_fun)": [[34, "utils.product_fun.parse_date_from_name"]], "parse_s3_name() (in module utils.product_fun)": [[34, "utils.product_fun.parse_s3_name"]], "read_pixels_from_band() (in module utils.product_fun)": [[34, "utils.product_fun.read_pixels_from_band"]], "read_pixels_from_nc() (in module utils.product_fun)": [[34, "utils.product_fun.read_pixels_from_nc"]], "remove_superseded_products() (in module utils.product_fun)": [[34, "utils.product_fun.remove_superseded_products"]], "utils.product_fun": [[34, "module-utils.product_fun"]], "write_all_pixels_to_nc() (in module utils.product_fun)": [[34, "utils.product_fun.write_all_pixels_to_nc"]], "write_pixels_to_band() (in module utils.product_fun)": [[34, "utils.product_fun.write_pixels_to_band"]], "write_pixels_to_nc() (in module utils.product_fun)": [[34, "utils.product_fun.write_pixels_to_nc"]]}})
\ No newline at end of file
diff --git a/docs/_build/html/utils/product_fun.html b/docs/_build/html/utils/product_fun.html
index 64a606f..3c99c74 100644
--- a/docs/_build/html/utils/product_fun.html
+++ b/docs/_build/html/utils/product_fun.html
@@ -75,6 +75,7 @@
 
        • generate_l8_angle_files()
          • 
 
        • get_band_from_nc()
          • 
 
        • get_band_names_from_nc()
          • 
+
        • get_bounds_from_nc()
          • 
 
        • get_l1product_path()
          • 
 
        • get_lat_lon_from_x_y()
          • 
 
        • get_lat_lon_from_x_y_from_nc()
          • 
@@ -93,6 +94,7 @@
 
        • get_sensing_date_from_product_name()
          • 
 
        • get_sensing_datetime_from_product_name()
          • 
 
        • get_south_east_north_west_bound()
          • 
+
        • get_tile_name_from_product_name()
          • 
 
        • get_valid_pe_from_nc()
          • 
 
        • parse_date_from_name()
          • 
 
        • parse_s3_name()
          • 
@@ -218,6 +220,11 @@
 
          Returns a list containing all band names of a given product.
          
 
          
 
+
          
+
          
+utils.product_fun.get_bounds_from_nc(nc, lat_var_name=None, lon_var_name=None)
          
+
          
+
 
          
 
          
 utils.product_fun.get_l1product_path(env, product_name)
          
@@ -324,6 +331,11 @@
 
          Return south, east, north, and west boundery of a given wkt.
          
 
          
 
+
          
+
          
+utils.product_fun.get_tile_name_from_product_name(product_name)
          
+
          
+
 
          
 
          
 utils.product_fun.get_valid_pe_from_nc(nc, band_name=None)
          
diff --git a/docs/cscs.rst b/docs/cscs.rst
index b9ba1a4..be6067a 100644
--- a/docs/cscs.rst
+++ b/docs/cscs.rst
@@ -72,7 +72,7 @@ Pull the image you want from dockerhub:
 
 .. code-block:: bash
 
-   srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.1
+   srun -C mc -A em09 sarus pull --login eawag/sencast:0.0.2
 
 then enter your credentials for the repository (There is no prompt)
 
@@ -118,7 +118,7 @@ Create a submission script containing the following (adjust details to match you
    export OMP_NUM_THREADS=$SLURM_CPUS_PER_TASK
    module load daint-mc
    module load sarus
-   image='eawag/sencast:0.0.1'
+   image='eawag/sencast:0.0.2'
    envvars='docker.ini'
    params='parameters.ini'
    filepath="${SCRATCH}/DIAS"
diff --git a/docs/index.rst b/docs/index.rst
index 7c7d717..1cf05a1 100644
--- a/docs/index.rst
+++ b/docs/index.rst
@@ -151,7 +151,7 @@ The docker image can be downloaded from docker hub using the following command:
 
 .. code-block:: bash
 
-   docker pull eawag/sencast:0.0.1
+   docker pull eawag/sencast:0.0.2
 
 Run Tests
 ~~~~~~~~~~~
@@ -164,7 +164,7 @@ the appropriate location, e.g. `-v /home/user/DIAS:/DIAS`
 
 .. code-block:: bash
 
-   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -t
+   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -t
 
 `-e` name of the environment file in `sencast/environments`
 `-t` flag to indicate a test should be run
@@ -176,7 +176,7 @@ In order to run a parameters file it can be passed to the command as follows usi
 
 .. code-block:: bash
 
-   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.1 -e docker.ini -p example.ini
+   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it eawag/sencast:0.0.2 -e docker.ini -p example.ini
 
 `-p` name of the parameter file in `sencast/parameters`
 
@@ -187,14 +187,14 @@ Sometimes it is desirable to interact directly with the container, this can be a
 
 .. code-block:: bash
 
-   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.1
+   docker run -v /DIAS:/DIAS -v $(pwd):/sencast --rm -it --entrypoint /bin/bash eawag/sencast:0.0.2
 
 Locally build container
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 
 .. code-block:: bash
 
-   docker build -t eawag/sencast:0.0.1 .
+   docker build -t eawag/sencast:0.0.2 .
 
 
 .. toctree::