Biocode.gff module error

PlantDr430 commented 5 years ago

Hello,

I kept getting an error that the module biocode.gff doesn't contain the function "column_9_value" even though I checked the module and I see that the function exists.

stephenwyka@bspmgenomics:/data/wyka/funannotate/LM470$ python3 /data/wyka/biocode/gff/convert_glimmerHMM_gff_to_gff3.py -i LM470_glimmerhmm.gff -o LM470_glimmerhmm.gff3
Traceback (most recent call last):
  File "/data/wyka/biocode/gff/convert_glimmerHMM_gff_to_gff3.py", line 104, in <module>
    main()
  File "/data/wyka/biocode/gff/convert_glimmerHMM_gff_to_gff3.py", line 66, in main
    id = gff.column_9_value(cols[8], 'ID')
AttributeError: module 'biocode.gff' has no attribute 'column_9_value'
stephenwyka@bspmgenomics:/data/wyka/funannotate/LM470$

jorvis commented 5 years ago

I see that you closed this, is there actually no issue here?

PlantDr430 commented 5 years ago

Yea, after I put up the issue. I realized I had set the wrong path for the module. Sorry about that.

On Thu, Nov 29, 2018 at 5:28 PM Joshua Orvis notifications@github.com wrote:

I see that you closed this, is there actually no issue here?

— You are receiving this because you modified the open/close state. Reply to this email directly, view it on GitHub https://github.com/jorvis/biocode/issues/58#issuecomment-443045324, or mute the thread https://github.com/notifications/unsubscribe-auth/AcPRPyxrSaH2HfyLGvN_SgtrbUGT8CWYks5u0HubgaJpZM4Y6vYE .

jorvis / biocode

Biocode.gff module error #58