• The Vocabulary Tagging tool is a python adapter which takes in a transcript and searches through a text file looking for occurrences of those words or phrases.

• galaxy/tools/amp_stt/vocabulary_tagging.xml
  Tool configuration detailing tool execution, input file, output file, and labeling.
• galaxy/tools/amp_stt/vocabulary_tagging.py
  Python script to handle the input parameters and call the code to search for the list of words. 

Running the tool

• The tool can be invoked from Galaxy UI as other tools. User needs to supply input data in the form of standardized speech to text output, as well as a text file containing a list of words to search for. 

• $amp_transcript: Transcript in AMP Speech to Text format
• $words_to_tag: Text file containing a list of words to search for.  Each line contains a single phrase or word

• $tagged_words: Output CSV file containing the word text matched and the start time of each occurrence.  

• This tool will remove periods, commas, and exclamation points from tagged words. 
• Punctuation (periods, commas, exclamation points) act as boundaries in the transcript text.  For instance, "potato sack" will not match "potato. Sack"
• The list of words to tag is deduplicated
• Matching is case insensitive and words are trimmed for excess whitespace before, after and between words.