search

Gaius-Augustus / TSEBRA

TSEBRA: Transcript Selector for BRAKER
48 stars 5 forks source link

long_reads branch issue #36

Open gbdias opened 1 year ago

gbdias commented 1 year ago

Hi,

I tried running tsebra using the long_reads branch but I'm getting this error. 

### BUILD OVERLAP GRAPH
Traceback (most recent call last):
  File "/home/guibo205/git/TSEBRA/bin/tsebra.py", line 224, in <module>
    main()
  File "/home/guibo205/git/TSEBRA/bin/tsebra.py", line 106, in main
    graph.build()
  File "/home/guibo205/git/TSEBRA/bin/overlap_graph.py", line 182, in build
    open_intervals.remove(interval[0])
ValueError: list.remove(x): x not in list

This is my command:

"$TSEBRA" -g "$BRAKER_PREDS","$GALBA_PREDS" -e "$BRAKER_HINTS","$GALBA_HINTS" \
 -l "$ISOSEQ_PREDS" -c long_reads.cfg -f -o tsebra_rm_short.gtf

Any tips appreciated.