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Fix hardcoded pantools target dir

Workum, Dirk-Jan van requested to merge fix_hardcoded_pantools_target_dir into develop

Since the distribution of a single jar file for PanTools is hindered by the dependency of the jar file to be located in a specific directory, this is fixed in this merge request.

Still to do:

  • Update documentation
  • A wild bug appeared: 'alt_id' is overwritten when buidling the GO hierarchy, even though a GO identifier can have multiple 'alt_id's (edit: part of !118 (merged))
  • Another wild bug appeared: pantools msa --method functions with a GO term only searches for a match with the 'id' of a GO term, not its 'alt_id'. (edit: part of !118 (merged))
  • Update CHANGELOG.md

Closes #32 (closed) when merged.

Edited by Workum, Dirk-Jan van

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