GO::parser

[tingting]

Dear,

The running job completed with COACH failing:

7 run COACH to predict function: Ligand-binding site,EC number,GO terms...
/lustre1/scratch/351/vsc35107/I-TASSER5.2/I-TASSERmod/runCOACH.pl -pkgdir /lustre1/scratch/351/vsc35107/I-TASSER5.2 -libdir /lustre1/scratch/351/vsc35107/ITLIB -runstyle serial -protname seq.fasta -model model1.pdb -datadir /lustre1/scratch/351/vsc35107/monkeypox-virus/data/filtered_proteome/splitted_files/A32.5L -homoflag real -idcut 1 -LBS true -EC true -GO true
Can't locate GO/Parser.pm in @INC (you may need to install the GO::Parser module) (@INC contains: /usr/local/lib64/perl5 /usr/local/share/perl5 /usr/lib64/perl5/vendor_perl /usr/share/perl5/vendor_perl /usr/lib64/perl5 /usr/share/perl5) at /lustre1/scratch/351/vsc35107/monkeypox-virus/data/filtered_proteome/splitted_files/A32.5L/model1/cofactor/CF_seq.fasta_model1.pl line 3.
BEGIN failed--compilation aborted at /lustre1/scratch/351/vsc35107/monkeypox-virus/data/filtered_proteome/splitted_files/A32.5L/model1/cofactor/CF_seq.fasta_model1.pl line 3.
mv: cannot stat '/scratch/leuven/351/vsc35107/monkeypox-virus/data/filtered_proteome/splitted_files/C20.5L/C20.5L.fasta': No such file or directory

I downloaded GO::PARSER from https://metacpan.org/pod/GO::Parser, and locate it in ITLIB dir

✔ [Sep/20 22:20] vsc35107@tier2-p-login-3 /scratch/leuven/351/vsc35107/ITLIB/go-perl-0.15 $ ls -l
total 164
drwxr-x--- 8 vsc35107 vsc35107 4096 Sep 20 17:40 blib
-rw-r----- 1 vsc35107 vsc35107 6391 Aug 2 2011 Changes
-rwxr-x--- 1 vsc35107 vsc35107 209 Aug 2 2011 create-manifest.sh
drwxr-x--- 2 vsc35107 vsc35107 4096 Sep 20 17:37 doc
drwxr-x--- 8 vsc35107 vsc35107 4096 Sep 20 17:37 GO
-rw-r----- 1 vsc35107 vsc35107 7768 Jun 12 2013 go-perl.pod
-rw-r----- 1 vsc35107 vsc35107 10131 Aug 2 2011 INSTALL
-rw-r----- 1 vsc35107 vsc35107 17184 Aug 2 2011 INSTALL.html
-rw-r--r-- 1 vsc35107 vsc35107 61852 Sep 20 17:39 Makefile
-rw-r----- 1 vsc35107 vsc35107 5220 Jun 12 2013 Makefile.PL
-rw-r----- 1 vsc35107 vsc35107 4693 Jun 12 2013 MANIFEST
-rw-r----- 1 vsc35107 vsc35107 888 Jun 12 2013 META.json
-rw-r----- 1 vsc35107 vsc35107 486 Jun 12 2013 META.yml
-rw-r----- 1 vsc35107 vsc35107 0 Sep 20 17:40 pm_to_blib
-rw-r----- 1 vsc35107 vsc35107 512 Aug 2 2011 README
drwxr-x--- 2 vsc35107 vsc35107 4096 Sep 20 17:37 scripts
drwxr-x--- 3 vsc35107 vsc35107 4096 Jun 12 2013 t

However, the issue persists, but I have no clue on how to solve this. I could really use some help on this one.

Kind regards,
tingting

[jlspzw]

Dear user,

You should add the GO::parser to PERL5LIB (environment variable in your system) if you did not use cpan to manage your Perl module.

Best
IT Team