step2.MCL issues

[yingchun323]

Hello, I have a problem with this, I don't know how to solve it

!/bin/bash

SBATCH --job-name=xall ##任务名

SBATCH --partition=low,big,smp01 ##partition 名字

SBATCH --nodes=1 ##节点数

SBATCH --ntasks-per-node=20 ##线程数

SBATCH --error=xall.err ##log文件

SBATCH --output=xall.out ##log文件

cd /public/home/zhangyingchun/data/SY_grapegenome/allX.pep source /public/home/zhangyingchun/anaconda3/bin/activate Tree2gd Tree2gd -i /public/home/zhangyingchun/data/SY_grapegenome/allX.pep -tree /public/home/zhangyingchun/data/SY_grapegenome/allX.pep/SY.tree -t 20

Traceback (most recent call last): File "/public/home/zhangyingchun/anaconda3/envs/Tree2gd/bin/Tree2gd", line 8, in sys.exit(main()) File "/public/home/zhangyingchun/anaconda3/envs/Tree2gd/lib/python3.8/site-packages/tree2gd_main.py", line 239, in main run_tree2gd(step1out,args,cf,step2out,step4out) File "/public/home/zhangyingchun/anaconda3/envs/Tree2gd/lib/python3.8/site-packages/tree2gd/wgd.py", line 118, in run_tree2gd fa_list=mcl2fasta(int(minimal_taxa),os.sep.join([step4out,'all_fa/']),step2out,step1out,args) File "/public/home/zhangyingchun/anaconda3/envs/Tree2gd/lib/python3.8/site-packages/tree2gd/wgd.py", line 24, in mcl2fasta with open(os.sep.join([step2out,'allmcl.out.OGs.group']),"rU") as infile: FileNotFoundError: [Errno 2] No such file or directory: '/public/home/zhangyingchun/data/SY_grapegenome/allX.pep/output/step2.MCL/allmcl.out.OGs.group'

[manoharbisht1998]

Hey,

Did you resolve this?

[ZaakZoeng]

Maybe the tips can help you!

https://github.com/Dee-chen/Tree2gd/issues/23