MODIStsp 1.3.6

MODIStsp 1.3.6

Main changes

Maintenance release to solve CRAN build errors on debian, due to the test_resetindexesx
test. The test is now skipped on CRAN. Additionally, the MODIStsp_addindex
function was modified to require explicit permission by the user to write on
the MODIStsp_previous.json file

Bug fixing

• Fixed a bug leading to errors if only "Aqua" platform was selected for download #133

MODIStsp v. 1.3.5

MODIStsp 1.3.5

Main changes

Maintenance release to solve CRAN build errors on debian, due to the test_addindex
test. The test is now skipped on CRAN. Additionally, the MODIStsp_addindex
function was modified to require explicit permission by the user to write on
the MODIStsp_previous.json file

Bug fixing

• Fixed bug leading to errors in processing extent when switching products with different Native projection (4008 vs sinusoidal), the projection string was not properly updated. 77f5693e9

• Fixed warnings on check for uniqueness in http addresses

MODIStsp v1.3.4

MODIStsp 1.3.4

Main changes

Breaking changes

• Due to improvements and changes in the GUI (see below), MODIStsp .json options
  files saved with older versions are no longer supported. Users will be informed of
  this if trying to use an obsolete json file.

• Removed support for FTP download due to switch-off of NASA servers.

Updates in supported products

• Removed all v005 and earlier products, due to discontinuation of their
  distribution by NASA servers

• Added support for the following products:

  MCD64A1; MCD12C1; MCD18A1; MCD18A2; MCD12Q1; MOD44B; MOD44W; MCD12C1; MCD12Q1;
  MOD12A2; MOD12A3

Improvements in download functions

• Improvements in GUI. It is now possible to set the processing extent interactively
  using the "Select on Map" button. This opens a browser window allowing to select
  and extent.

• Use of httr::RETRY to improve behavior while navigating the servers to
  retrieve available files and while downloading hdf file (when use_aria == FALSE),
  thus removing dependency to RCurl.

Improvements in processing functions

• Improved functionality for dealing with NoData for products with multiple
  fill-values. If "Change NoData" is set to "Yes", then in case a layer
  has multiple Nodata values all those values are set to NA in the output
  (see github.com/#113)

Extensive code refactoring for submission to ropensci.

• Long functions were simplified/split into smaller functions to allow for
  easier maintenance
• GUI event handlers were moved into dedicated "R" files
• Extensive code linting to abide to ropensci standards
• Switch to jsonlite/xml2 to abide to ropensci standards
• Removal of some less-used dependencies (e.g., hash)

Improvements in documentation and website

• More detailed documentation for the main functions
• Improvements in pkgdown articles to include some "worked examples" (e.g.,
  MODIStsp_Extract)
• New article in pkgdown showing a list of supported products

Improvements in test coverage

• Several new tests added, bringing coverage above 90%

New functions

• Added MODIStsp_resetindexes to remove all custom indexes from a MODIStsp
  json options file and MODIStsp_reset_options to reset MODIStsp options to
  default.

Bug fixing

• Fixed bug affecting extent selection when working with non-tiled (MCD) products
  #122

• Fixed bugs affecting the "Seasonal" time series download

MODIStsp 1.3.3

1.3.3 Release Notes

v1.3.3 was released on 10/08/2017

Major Changes

• Improved speed in computation of spectral indexes, quality indicators and in
  computation of scaled variables by usind raster::calc() and raster::overlay
  (commits 0f5d76d, 0f5d76d, e462721)

• Added functionality for unit testing using testthat and codecov integration.
  (commit 0c00fc6
  and others)

• Added "testing mode" to allow users to test proper functioning. Now, runnning
  MODIStsp(test = X) (with X in (0,6)) runs the processing using default processing
  parameters (commit 0c00fc6 and others)

Minor Changes

• Suppression of verbose messages and (useless) warning messages while parsing the NASA
  servers and downloading data using "ftp" ( 3775d60);

Bug fixing

• Fxed a bug preventing the "last" choice (or that present in the json file) from
  correctly showing in the GUI upon launch/restore of a saved json file (commit
  633c2dd)

• Fixed a bug affecting MODIS layers coded as Unsigned Integer - 32 bit (Thanks to Rob Critchlow for signaling this). The bug was due to improper handling of UInt32 data in gdalbuildvrt, causing sometimes an incorrect translation from HDF to output formats (#72).

  M*D09A1 - 500m Reflectance Band Quality (V005 and V006); M*DO9CMG - Coarse Resolution QA (V005 and V006); M*D09CMG - Coarse Resolution Number Mapping (V006); M*D09GA - 500m Reflectance Band Quality (V005 and V006); M*DOCGA - Band quality for MODIS bands 8-15 (V006); M*D11C3 - Days with clear-sky conditions and validated LSTs; Nights with clear-sky conditions and validated LSTs (V005 and V006); MCD43A2 - BRDF_Albedo_Band_Quality (V005 and V006).

• Fixed a bug affecting creation of time series files (RData and virtual rasters) on all MCD products (#77)

• Fixed a bug a error on creation of "burn_date" layers for MCD45A1 product (#77)

• Fixed bugs on specifying spatial extent files on non-interactive execution (#75)

MODIStsp v 1.3.2 Release Notes

MODIStsp v1.3.2

MODIStsp v1.3.2 was released on 2017-03-10.

Major Changes:

Added functionality to apply scale and offset coeeficients on MODIS original values according with the specifications of single MODIS products.

Details:

NASA provides outputs as integer values, indicating a potential scale factor and/or an offset to apply in order to obtain values in the indicated measure units.

• Leaving the "Scale output values" option to "No", output files are left as provided by NASA, and additional indices are produced as integer values with a 10000 factor scale;
• Setting the "Scale output values" option to "Yes", scale factor and offsets are applied if existing (for example, in this case Land Surface Temperature values in the output raster will be in °K), and spectral indices are floating point values (for example, NDVI is between -1 and 1, etcetera).

Minor Changes:

• Some product names and output layer names were modified to reduce the length of output file names, homogenize the names of the output and correct some naming errors.
  For compatibility with already created output files (versions up to 1.3.1), the old "XML" file specifying output files format is still available in inst/ExtData/MODIStsp_ProdOpts_old_v1.3.1.xml. To use the old file naming conventions, users have to

1. delete inst/ExtData/MODIStsp_ProdOpts.xml and rename MODIStsp_ProdOpts_old_v1.3.1.xml to MODIStsp_ProdOpts.xml.
2. delete MODIStsp_ProdOpts.RData from the Previous folder within your_R-library_path/MODIStsp/Previous
3. Restart MODIStsp

• Some changes were done in timeouts of httr/ftp requests to prevent timeout problems

Bug fixing:

• Fixed bug on FTP download speed (Issue #65)
• Fixed bug on download of tile 0, preventing download of images with DOY 001 and of all "yearly based" products (e.g., MOD17)(Issue #64)
• Fixed other bugs affecting FTP download (efbf1b4, 1dc53a5, fa6c7b4)

MODIStsp v 1.3.1 Release Notes

MODIStsp v1.3.1

MODIStsp v1.3.1 was released on 13/02/2017

Major Changes

• Added functionality for processing of Snow Cover datasets: MOD10A1, MOD10A2, MOD10C1, MOD10C2, MOD10CM (Issue #55)
• Added functionality for downloading data for only one part of the year (e.g., spring), for multiple consecutive years (Issue #54)
• Added functionality for computing vegetation indexes on MCD43A4 (v5-v6), MCD43B4 (v5), MCD43C4 (v5-v6) (Issue #59)
• Added functionality for accelerating download using aria2c (Issue #55)

Bug fixing

• Fixed bug on download with aria2c, throwing an error on failed download on http (6fbc875)
• Fixed bug on M*D15A2 processing (Issue #60)
• Fixed bug on MCD12Q1 processing (Issue #58)
• Fixed bug on MOD13C2 processing (Issue #52)
• Fixed bug on insertion of custom projection (Issue #57)
• Fixed bug on selection of custom index (Issue #53)

MODIStsp v 1.3.0 Release Notes

v1.3.0 was released on 11/05/2016

Major Changes

1. Added functionality for downloading and preprocessing MODIS collection 006 datasets. For products with both 005 and 006 collections, the user can select the version using a new droplist in the GUI.
2. Added functionality for off-line processing. This allows both to i) reprocessing already downloaded data (for example, to create time series for an additional layer) without the need to connect to NASA servers, and ii) process HDF files downloaded outside MODIStsp (e.g., directly from NASA ftp) and stored on the user's PC, without the need of an active internet connection.
3. Improved the way in which options are saved. Much more readable .JSON files are now used instead than .RData. User options are no longer saved alongside products characteristics. This will allow to re-use an "old" options file even if changes are made on the XML file descriving the products.
4. Improved the GUI inteface for specifying additional Spectral Indexes. Hints are now showed to the user, and multiple indexes can be added in the same session.

Minor Changes

1. General improvements in the GUI inteface. Products are now grouped by categories, to allow easier identification and selection.
2. Improvements in the README file and vignettes, providing more instructions on package use.
3. Improved functionality for checking for "complete" download, by comparing the size of the downloaded files with that of files on the server.
4. Added "configure" file for Linux installation.
5. Temporary files necessary for processing (e.g., vrt files) are now created (and destroyed) within the "R" temporary folder.
6. Miscellaneous bug-fixing.

MODIStsp v.1.2.2

WHAT'S NEW in version 1.2.2

• Modified download method, now exploiting "httr" package;
• Added possibility to select if downloading via http or via ftp;
• If downloading via http, user now has to specify valid credentials for accessing the LPDAAC data pool. These can be obtained at: https://urs.earthdata.nasa.gov/home
• Corrected a bug in MODIStsp_extract which generated errors/erroneous results for shapefiles partially outside the rasters extent, or with small features.

MODIStsp v1.2.1

MODIStsp v 1.2.1 Release Notes

v1.2.1 was released on 20/04/2016

Major Changes

1. Modified format of "R" output time series from rts objects to RasterStack objects with temporal information added in the
   "z" attribute via setZ()
2. Major changes/improvements in MODIStsp_extract function:
   • Use of plain rasterstack with "z" attribute instead than rasterstackts
   • Use of gdal_rasterize (gdalUtils) instead of rasterize (rgdal) to improve speed. Temporary shapes and rasters necessay are saved in "R" temporary folder and removed automatically
   • Fixed bugs on functionality for point/lines shapefiles, according to what specified by the "small" and "small_method" parameters
   • Added functionality for retrieving data for small polygons
   • Added out_format selection - xts or plain data.frame
   • Added possibility to use a shp filename as input directly
   • Added conformity checks on inputs
   • Added functionality to run without specifying start and end dates
   • Added id_field parameter for choosing which column of the input SP object should be used for "naming" the columns of the output
3. Removed possibility to use "complex" resampling methods when reprojecting (e.g., bilinear, cubic, etc.) to avoid incorrect resampling on categorical variables and "contamination" of good pixels' data.

Minor Changes

• Changed the input method for starting and ending dates selection in the GUI. Now a text field is used
• Added functionaluty for writing data ignore value on ENVI files
• Removed automatic deletion of XML files created by writeRaster to keep metadata information
• Changed names of products in the GUI for products with both TERRA and AQUA dataset to MD09A1, MD13Q1, etc...
• Modified code syntax to satisfy R code styling guidelines
• Modified roxygen parameters so that only required functions are imported from imported packages
• Updated and corrected the list of dependencies
• Updated required "R" version to 3.2, and minimum versions for dependent packages to current versions.
• Added Welcome message
• Updated links to LPDAAC product description pages
• Changed all "print" and "cat" calls to show messages/warnings to "message" or "warning" to allow easy disabling MODIStsp verbose messages
• Using "R" tempfile/tempdir to save vrt files

Bug Fixes

• Corrected a bug that threw an error in case incorrect bounding box specified

Bug Fixing on v1.2

This release fixes a couple of minor bugs:

Corrected a bug in MODIStsp_check_files that caused the already processed dates not to be skipped correctly if Reprocess = No

Fixing an error with the presence of .gwindow when gui=FALSE

Fixing an error (intersect does not support yet the clip of SP by extent; using crop() instead)