issue with deal_gff.py

[B10inform]

Hi, Its a great tool. I have some issues with wgdi. I get following error:

/home/wgdi-example/genome/Aquilegia_coerulea/Aquilegia_coerulea/deal_gff.py:24: FutureWarning: The default value of regex will change from True to False in a future version. gff[0] = gff[0].str.replace('Chr0?','') Traceback (most recent call last): File "/home/.local/lib/python3.10/site-packages/pandas/core/indexes/base.py", line 3080, in get_loc return self._engine.get_loc(casted_key) File "pandas/_libs/index.pyx", line 70, in pandas._libs.index.IndexEngine.get_loc File "pandas/_libs/index.pyx", line 101, in pandas._libs.index.IndexEngine.get_loc File "pandas/_libs/hashtable_class_helper.pxi", line 4554, in pandas._libs.hashtable.PyObjectHashTable.get_item File "pandas/_libs/hashtable_class_helper.pxi", line 4562, in pandas._libs.hashtable.PyObjectHashTable.get_item KeyError: 2

The above exception was the direct cause of the following exception:

Traceback (most recent call last): File "/home/wgdi-example/genome/Aquilegia_coerulea/Aquilegia_coerulea/deal_gff.py", line 20, in gff = gff[gff[2] == 'CDS'] File "/home/.local/lib/python3.10/site-packages/pandas/core/frame.py", line 3024, in getitem indexer = self.columns.get_loc(key) File "/home/.local/lib/python3.10/site-packages/pandas/core/indexes/base.py", line 3082, in get_loc raise KeyError(key) from err KeyError: 2

Thanks

[SunPengChuan]

I can’t see other information and feel like a column of CDS is missing. Can you upload more information?

[baoyl818]

直接说中文吧，看得懂。