Closed SUPERI-SAI closed 7 months ago
[ancestral_karyotype_repertoire] blockinfo = Cipangopaludina_cathayensis.ANC.block.correspondence.csv blockinfo_reverse = true gff2 = Cipangopaludina_cathayensis.gff4.txt gff1 = allspe.ancestor.gff.txt gap = 5 mark = ANC.on.Cipangopaludina_cathayensis ancestor = allspe.ancestor.txt ancestor_new = allspe.ancestor.on.Cipangopaludina_cathayensis.txt ancestor_pep = allspe.ancestor.on.Cipangopaludina_cathayensis.pep ancestor_pep_new = allspe.ancestor.on.Cipangopaludina_cathayensis.pep_new ancestor_gff = allspe.ancestor.on.Cipangopaludina_cathayensis.gff ancestor_lens = allspe.ancestor.on.Cipangopaludina_cathayensis.lens
I don't have the file named 'allspe.ancestor.on.Cipangopaludina_cathayensis.pep'. ancestor_pep = ancestor pep file
Adjustments are needed for gff1, gff2, and blockinfo_reverse to align seamlessly with the provided blockinfo and ancestor, ensuring consistent order. Could you please give it another try now?
blockinfo_reverse
Thank you for your prompt reply! I changed the order of gff1 and gff2 and changed the ‘blockinfo_reverse’ parameter to ‘true’, and now it works! Thanks again for your help!
Hello, thank you very much for this program !
I am doing the step of ancestral_karyotype_repertoire, and now i have a problem about it. Here is my script (ANC.akr.conf):
and i run it with the commond:
wgdi -akr ANC.akr.conf
I got the error message as follows:This is the file I used to run it. To avoid the uploading error, i changed the suffix of the gff file to gff.txt allspe.ancestor.txt Cipangopaludina_cathayensis.ANC.block.correspondence.csv allspe.ancestor.gff.txt Cipangopaludina_cathayensis.gff4.txt
Could you please help me check the problem?