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  1. IGB
  2. IGBF-3677

Run and check output from makeAnnotsXml.py with new sample spreadsheets

        Details

        • Type: Task
        • Status: To-Do (View Workflow)
        • Priority: Major
        • Resolution: Unresolved
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None

          Description

          This needs to be run to ensure that the new sample sheets made for new collections of samples can actually work and make sense.

          Script:

          For this task, check that the new samples sheets can be added to the script without error.

          To review the output, you run the script, it makes a local Quickload site on your computer, and then you open the QL site in IGB and review the Data Access Panel.

          Note that links to files that are not yet deployed on our infrastructure won't work and will give an error when you click on them in IGB. But all the others should work fine.

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              Mdavis4290 Molly Davis added a comment - - edited 
              conda install conda=24.3.0

              conda create -c conda-forge -n name_of_my_env python pandas

              source activate name_of_my_env

              export PYTHONPATH=/Users/mollydavis333/Desktop/igbquickload

              python -m pip install requests

              pip3 install  openpyxl

              ./makeAnnotsXml.py

              Note: Make sure directories referenced in the script are cloned on your local machine also.

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              Mdavis4290 Molly Davis added a comment - - edited conda install conda=24.3.0 conda create -c conda-forge -n name_of_my_env python pandas source activate name_of_my_env export PYTHONPATH=/Users/mollydavis333/Desktop/igbquickload python -m pip install requests pip3 install openpyxl ./makeAnnotsXml.py Note: Make sure directories referenced in the script are cloned on your local machine also.

                People

                • Assignee:
                  Unassigned
                  Reporter:
                  ann.loraine Ann Loraine
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                  • Created:
                    Updated: