After installing the program Netoglyc

Question

[schriscar]

When I run the program I get these following error messages:

Netoglyc: surface prediction failed in entry "sequence name"
grep:infile.howlin: file or directory not found
gawk: ./netoglyc/bin/combine:36:fatal:impossible to open file infile.fsa for reading (File or directory not found)

I've already checked the patches for: echo, awk, paste, gnuplot, ppmagif and signalp and I corrected them when needed in netoglyc script.

I've checked the other scripts and changed gawk's patch to the right patch installed in my computer.

The netoglyc and temporary files folders where set to allow reading and writing. I tried to download again the program and redo all the settings, but I had to success.

Do you have any suggestions on how to solve this problem?

Thanks!

[Daniel]

This is the important part: "impossible to open file infile.fsa for reading (File or directory not found)". If in doubt, always give the full path to the program, i.e. "/home/schriscar/data/infile.fasta".

The holy trinity of Linux problem solving: Paths, Permissions, Parameters (in that order)

[yyyyy111]

Hi, have you solved this problem? I have the same question.

Answer 1

[schriscar]

​The file infile.fsa is generated during the script running, the folder in which the temporary files are generated has the permission for reading and writing.​ The complete patch of the test sequence was typed. I'm sending along the main script for a better understanding of the problem.