Wgdi is a wonderful tool for genomic evolution analysis, but i m in plight when run wgdi -a
here is STDERR when run this comman
gff1 = BhD.wgdi.gff
gff2 = Bdis.wgdi.gff
lens1 = BhD.wgdi.lens
lens2 = Bdis.wgdi.lens
genome1_name = BhD
genome2_name = Bdis
markersize = 0.5
position = order
colors = red
figsize = 10,10
savefile = BhD-Bdis.alignment.csv
savefig = BhD-Bdis.alignment.png
blockinfo = BhD-Bdis.blockinfo.list.csv
classid = class1
ks_area = -1,0.3
blockinfo_reverse = false
Traceback (most recent call last):
File "/data/00/user/user112/.local/bin//wgdi", line 11, in <module>
sys.exit(main())
File "/data/00/user/user112/.local/lib/python3.6/site-packages/wgdi/run.py", line 148, in main
module_to_run(arg, value)
File "/data/00/user/user112/.local/lib/python3.6/site-packages/wgdi/run.py", line 110, in module_to_run
run_subprogram(program, conf, name)
File "/data/00/user/user112/.local/lib/python3.6/site-packages/wgdi/run.py", line 78, in run_subprogram
r.run()
File "/data/00/user/user112/.local/lib/python3.6/site-packages/wgdi/align_dotplot.py", line 88, in run
gff2 = base.gene_location(gff2, lens2, step2, self.position)
File "/data/00/user/user112/.local/lib/python3.6/site-packages/wgdi/base.py", line 208, in gene_location
gff.loc[:, 'loc'] = ''
File "/data/00/user/user112/.local/lib/python3.6/site-packages/pandas/core/indexing.py", line 670, in __setitem__
iloc._setitem_with_indexer(indexer, value)
File "/data/00/user/user112/.local/lib/python3.6/site-packages/pandas/core/indexing.py", line 1589, in _setitem_with_indexer
"cannot set a frame with no "
ValueError: cannot set a frame with no defined index and a scalar
and all files needed in this step has been uploaded in appendix.
I don't know anything about pandas and python, so i can't fix this problem by myself, i will be very grateful if you tell me what's wrong with it and how to solve it.
Dear Sun,
Wgdi is a wonderful tool for genomic evolution analysis, but i m in plight when run
wgdi -a
here is STDERR when run this commanand all files needed in this step has been uploaded in appendix. I don't know anything about
pandas
and python, so i can't fix this problem by myself, i will be very grateful if you tell me what's wrong with it and how to solve it.Nemo Wu wgdi_nemowu.zip