convert xml failed

[duqiyao]

Hello, teacher, when I run the GitHub command, the following error occurs and I can't find the relevant solution on the Internet, so please help to check it, thank you
nohup python /data/software/PhaBOX-main/main.py --contigs final-viral-combined-for-dramv.fa --threads 8 --len 1000 --rootpth simple_test --out out/ --dbdir database/ --parampth parameters/ &

blastxml_to_tabular.py -o simple_test/midfolder//phamer_results.tab -c qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,sstart,send,evalue simple_test/midfolder//phamer_results.xml
convert xml failed

[KennthShang]

Did you follow the guidelines and place the file into the right place:

# move the script to where the conda located
cp blastxml_to_tabular.py {path_to_conda}/envs/phabox/bin/blastxml_to_tabular.py
chmod 777 {path_to_conda}/envs/phabox/bin/blastxml_to_tabular.py

you can try to run the command below:

blastxml_to_tabular.py

to see whether the python script is executable.

[duqiyao]

Thanks for the teacher's quick reply. The annotation has been successfully modified. Thank you very much

…

------------------ 原始邮件 ------------------ 发件人: "KennthShang/PhaBOX" ***@***.***>; 发送时间: 2023年2月15日(星期三) 上午9:54 ***@***.***>; ***@***.******@***.***>; 主题: Re: [KennthShang/PhaBOX] convert xml failed (Issue #1) Did you follow the guidelines and place the file into the right place: # move the script to where the conda located cp blastxml_to_tabular.py {path_to_conda}/envs/phabox/bin/blastxml_to_tabular.py chmod 777 {path_to_conda}/envs/phabox/bin/blastxml_to_tabular.py you can try to run the command below: blastxml_to_tabular.py to see whether the python script is executable. — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you authored the thread.Message ID: ***@***.***>

[KennthShang]

good to know