Hello, I've been trying to install EnrichM and I keep running into t

Issues installing/referencing the database about enrichm HOT 3 OPEN

geronimp commented on August 29, 2024

Issues installing/referencing the database

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Comments (3)

Abonacolta commented on August 29, 2024

I've been having the same issue. Let me know if you found a solution

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DennyPopp commented on August 29, 2024

I had the same issue after manually installing the database (v10). I could solve it by creating a folder within the enrichm_database_v10 folder called '26-11-2018' and copying the VERSION file into this new folder. To my surprise - it worked! enrichM is happily running.

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liupfskygre commented on August 29, 2024

Hi DennyPopp,
Could you share how you manually installing the database and setup. thanks.

I installed enrichm using pip and have

  Version: 0.6.3

For what I have done, I do download the v10 and uncompress it here

~/bio_db/enrichm_db/

now set env path

ENRICHM_DB=~/bio_db/enrichm_db/enrichm_database_v10

I creati a folder within the enrichm_database_v10 folder called '26-11-2018' and copying the VERSION file into this new folder.
but
still error

any ideas

Traceback (most recent call last):
  File "/usr/local/bin/enrichm", line 352, in <module>
    run.run_enrichm(args, sys.argv)
  File "/usr/local/lib/python3.8/dist-packages/enrichm/run.py", line 409, in run_enrichm
    pipeline(args)
  File "/usr/local/lib/python3.8/dist-packages/enrichm/run.py", line 282, in run_annotate
    annotate = Annotate(# Define inputs and outputs
  File "/usr/local/lib/python3.8/dist-packages/enrichm/annotate.py", line 113, in __init__
    self.databases = Databases()
  File "/usr/local/lib/python3.8/dist-packages/enrichm/databases.py", line 71, in __init__
    raise Exception(f"\nNo database version file found. Have you: \n\
Exception: 
No database version file found. Have you: 
- Installed the EnrichM database using the 'enrichm data' command?
- Specified the location of the EnrichM database by exporting a bash variable called ENRICHM_DB? (Currently I'm looking here: /home/dell/bio_db/enrichm_db/enrichm_database_v10)

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