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syn -gff3 file #35
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Just a quick check, is there a gene id in your |
Yes, I generated But as I wrote, those inputs are the same. I don't understand why there is a problem like this. Thanks for your time |
Hi, the gene ids in your family file need to be the same as presented in your |
Yes I know and understand but already the cds file which is the input for Thanks |
I don't get it. You mean that the |
Yes |
I see. Could you please share me with the correct family file and gff3 file? I will try to reproduce your error. |
Okey, thank you. Here is my https://transfer.adttemp.com.br/EDzFs/20628-8.gff my Thanks for your help! |
Hi, you just need to add the option |
What a great news! Thanks for your help, I will try and (hope) close the issue! 😊 |
Hi again, am I install |
Hi, you need to install |
May I add to the path of the Thanks |
If you type in |
This is what I got using your data. You just need to make sure
|
Hi again, thanks for your help! As I saidi-adhore installed and got the Usage: i-adhore [configuration file]. But it's run only in i-adhore/build/src folder so wgd syn did not see i-adhore normally. That's why I asked if any command or parameter for add i-adhore path. So is it possible to write to.pyor command for path? Thanks! |
Hi, did you try with command like |
Hi, apparently the node at which your job ran didn't have |
Yes got the same error again :( |
Hi, I have just added the parameter of the path to
|
Hi, what a great news! Many thanks for your solution! I reinstalled |
Hi, you may install
|
Hi, I wrote about another step. I successfully finished others so thank you for your help!
Little question about step
syn
. I have a gff3 file from the Augustus , but when I run the command:wgd syn
/wgd_dmd/sample.cds.fasta.tsv /Augustus/sample.gffgff3 file looks like:
I got the error like this:
Actually it's the same cds.fasta input for gff and
wgd
I didn't understand, so do you have any suggestions for getting the right gff3 file?Many thanks for your time and help!
İlayda
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