Can't exec "/home/ubuntu/Documents/WGDdetector/bin/protein_mmseqs2_cluster.pl":

karthickbrlab commented 7 months ago

sh 00.run.sh Thursday 18 April 2024 04:26:57 PM IST

phasing the raw input cds and pep

Thursday 18 April 2024 04:26:58 PM IST

running protein clustering

Can't exec "/home/ubuntu/Documents/WGDdetector/bin/protein_mmseqs2_cluster.pl": No such file or directory at ../bin/wgddetector.pl line 53. Thursday 18 April 2024 04:26:58 PM IST

running ks estimating

no such file: output/01.cluster/all-protein-clustering.result Error in file(file, "rt") : cannot open the connection Calls: read.table -> file In addition: Warning message: In file(file, "rt") : cannot open file 'output/04.final_paralogs_ks/final.ks.distribution.list': No such file or directory Execution halted

ilaydagulmez commented 7 months ago

Hi, do you have any solution? I have the same problem

ilaydagulmez commented 7 months ago

I did it! Here is my solution:

Please find your ./wgddetector/config file and open the software.config with the command vi, then you can see the paths of all programs. Please write your path of mmseq instead of "/home/share/users/yangyongzhi2012/tools..."

Best

İlayda

karthickbrlab commented 7 months ago

thank you ilayda..worked well

AttributeError: 'Graph' object has no attribute 'node'. Did you mean: '_node'? system /home/ubuntu/Documents/WGDdetector/tools/BlastGraphMetrics/blast2graphs.py td/01.running_cluster/all-vs-all.blast.out td/01.running_cluster/mcl.input failed: 256 im getting this error now..

any suggestions

yongzhiyang2012 / WGDdetector