specifysystems/lmpy

Issues

• Consider adding a spatial thinning occurrence data wrangler

  #294 opened a year ago by cjgrady
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• Consider adding a one point per raster cell occurrence data wrangler

  #295 opened a year ago by cjgrady
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• New tools not accessible as CLI

  #372 opened 2 years ago by zzeppozz
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• Find and correct copy / paste errors and typos and minor code fixes

  #322 opened 2 years ago by cjgrady
  2

• Document wrangle species list tool for tutorial

  #334 opened 2 years ago by cjgrady
  1

• Create a common entrypoint script for all lmpy tools

  #275 opened 2 years ago by cjgrady
  1

• Document how to use wrangle_matrix tool for tutorial

  #332 opened 2 years ago by cjgrady
  1

• PAM stats tutorial

  #335 opened 2 years ago by cjgrady
  1

• Accepted name wranglers don't fail gracefully if the name map file does not exist

  #337 opened 2 years ago by cjgrady
  1

• covariance species stats matrix has wrong column headers

  #370 opened 2 years ago by zzeppozz
  1

• wrangle_occurrences reports 0 wrangled records, and does not indicate wrangler_type in output report

  #343 opened 2 years ago by zzeppozz
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• Visualizations (heatmap, geojson) do not work correctly

  #368 opened 2 years ago by zzeppozz
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• Logger logs all INFO lines twice

  #340 opened 2 years ago by zzeppozz
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• Add stats to AcceptedNameWrangler reporting - count names modified, names identical.

  #344 opened 2 years ago by zzeppozz
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• pre-commit errors and testing exceptions

  #353 opened 2 years ago by zzeppozz
  3

• Fix geojsonify

  #365 opened 2 years ago by zzeppozz
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• Site statistics matrix returns un-mappable matrix

  #366 opened 2 years ago by zzeppozz
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• Consistently allow logging and report options in CLI tools

  #342 opened 2 years ago by zzeppozz
  1

• split_occurrence_data uses the fields encountered in the first file for all records

  #361 opened 2 years ago by zzeppozz
  0

• for multiple SDMs, use env files from static location

  #359 opened 2 years ago by zzeppozz
  1

• Standalone SDM (maxent and rare-species) would be logical here

  #357 opened 2 years ago by zzeppozz
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• Missing input file exception is not handled, returns confusing traceback

  #347 opened 2 years ago by zzeppozz
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• specifying key_field parameter for split_occurrence_data causes exception

  #341 opened 2 years ago by zzeppozz
  2

• Creating multiple accepted name data wranglers can overwrite each other

  #339 opened 2 years ago by cjgrady
  0

• Add an outlier detection occurrence data wrangler (spatial distance)

  #338 opened 2 years ago by cjgrady
  1

• Automatically avoid having too many files in a directory when splitting occurrences

  #284 opened 2 years ago by cjgrady
  3

• Document wrangle tree tool for tutorial

  #333 opened 2 years ago by cjgrady
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• Add example usage documentation based on CJ's expectations for how to use the tools

  #316 opened 2 years ago by cjgrady
  1

• Document null hypothesis tutorial

  #336 opened 2 years ago by cjgrady
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• Need a tree data wrangler to handle trees from open tree

  #288 opened 2 years ago by cjgrady
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• Split occurrences tool should optionally output a species list

  #291 opened 2 years ago by cjgrady
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• Release drafter does not intitiate github actions on publish

  #325 opened 2 years ago by cjgrady
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• Extend data wrangler factory so that it can instantiate data wranglers not included with lmpy

  #317 opened 2 years ago by cjgrady
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• Add release drafter bot to lmpy repo

  #315 opened 2 years ago by cjgrady
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• Create a visualization tool for showing significant site statistics

  #304 opened 2 years ago by cjgrady
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• Update contributing doc and project readme to contain more information about build, usage, and release process

  #318 opened 2 years ago by cjgrady
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• Add a scatter plot visualization tool

  #303 opened 2 years ago by cjgrady
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• Create a matrix heat map tool

  #302 opened 2 years ago by cjgrady
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• Add a tool to encode a tree for mcpa

  #301 opened 2 years ago by cjgrady
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• Add a GitHub action for testing Sphinx builds on Pull Request

  #309 opened 2 years ago by cjgrady
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• Rename build_shapegrid tool to build_grid

  #307 opened 2 years ago by cjgrady
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• Add logging capabilities to data wranglers

  #297 opened 2 years ago by cjgrady
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• Add README explanatory files to modules

  #305 opened 2 years ago by zzeppozz
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• Rename clean_occurrences tool to wrangle_occurrences for consistency

  #298 opened 2 years ago by cjgrady
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• Accepted name modifiers failing for GBIF when sending "bad" data

  #289 opened 2 years ago by cjgrady
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• GBIF DWCA data with double quote characters not processed correctly

  #286 opened 2 years ago by cjgrady
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• Accepted name modifier needs to periodically write mapping to file

  #282 opened 2 years ago by cjgrady
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• PointDwcaReader does not support iDigBio DWCAs out of the box

  #277 opened 2 years ago by cjgrady
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• Deprecate running_stats.py

  #278 opened 2 years ago by cjgrady
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• Update wording around key_field to clarify what it is for (split_occurrences)

  #276 opened 2 years ago by cjgrady
  0