search

arq5x / gemini

a lightweight db framework for exploring genetic variation.
http://gemini.readthedocs.org
MIT License
318 stars 120 forks source link

lof_sieve error #870

Open marivalen opened 7 years ago

marivalen commented 7 years ago

Hi,

As I was running the lof_sieve on my db I noticed that it does output a couple of lines as shown in the example in the documentation but then it quits with the following error:

Traceback (most recent call last): File "/scratch/mam01sr/test-gemini/gemini/bin/gemini", line 7, in gemini_main.main() File "/scratch/mam01sr/test-gemini/gemini/anaconda/lib/python2.7/site-packages/gemini/gemini_main.py", line 1232, in main args.func(parser, args) File "/scratch/mam01sr/test-gemini/gemini/anaconda/lib/python2.7/site-packages/gemini/gemini_main.py", line 769, in lof_sieve_fn tool_lof_sieve.lof_sieve(parser, args) File "/scratch/mam01sr/test-gemini/gemini/anaconda/lib/python2.7/site-packages/gemini/tool_lof_sieve.py", line 87, in lof_sieve get_ind_lof(conn, metadata, args) File "/scratch/mam01sr/test-gemini/gemini/anaconda/lib/python2.7/site-packages/gemini/tool_lof_sieve.py", line 64, in get_ind_lof transcript_pct = float(transcript_pos) / float(aa_length) ValueError: could not convert string to float:

What can I do about this?