wgd sync

[Bio1nform]

Hi, This question was solved. Thanks

[Bio1nform]

Hi, This is working,

But new error with : wgd ksd wgd_globalmrbh/global_MRBH.tsv --extraparanomeks wgd_ksd/Aquilegia_coerulea.tsv.ks.tsv -sp speciestree.nw --reweight -o wgd_globalmrbh_ks1 --spair "Aquilegia_coerulea;Protea_cynaroides" --spair "Aquilegia_coerulea;Vitis_vinifera" --spair "Aquilegia_coerulea;Acorus_americanus" --spair "Aquilegia_coerulea;Aquilegia_coerulea" --plotkde -ap wgd_syn/iadhore-out/anchorpoints.txt Aquilegia_coerulea Protea_cynaroides Acorus_americanus Vitis_vinifera

/home/.conda/envs/wgd2/lib/python3.8/site-packages/Bio/Seq.py:2855: BiopythonWarning: Partial codon, len(sequence) not a multiple of three. Explicitly trim the sequence or add trailing N before translation. This may become an error in future. warnings.warn( Traceback (most recent call last): File "/home/.conda/envs/wgd2/bin/wgd", line 10, in sys.exit(cli()) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/click/core.py", line 829, in call return self.main(args, kwargs) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/click/core.py", line 782, in main rv = self.invoke(ctx) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/click/core.py", line 1259, in invoke return _process_result(sub_ctx.command.invoke(sub_ctx)) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/click/core.py", line 1066, in invoke return ctx.invoke(self.callback, ctx.params) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/click/core.py", line 610, in invoke return callback(args, kwargs) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/cli.py", line 449, in ksd _ksd(kwargs) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/cli.py", line 487, in _ksd if len(spair)!= 0: multi_sp_plot(df,spair,spgenemap,outdir,onlyrootout,title=prefix,ylabel=ylabel,ksd=True,reweight=reweight,sptree=speciestree,extraparanomeks=extraparanomeks, ap = anchorpoints,plotkde=plotkde,plotapgmm=plotapgmm,plotelmm=plotelmm,components=components) File "/home/.conda/envs/wgd2/lib/python3.8/site-packages/wgd/viz.py", line 537, in multi_sp_plot ax.quiver(mode,maxim*scale, corrected_ks_spair[pair]-mode, 0, angles='xy', scale_units='xy', scale=1,color=cs[i],width=0.005,headwidth=2,headlength=2,headaxislength=2) NameError: name 'scale' is not defined

Thanks

[heche-psb]

Same with my last reply, could you make sure the latest version in the github repository is installed for your wgd v2?