When trying to parse the output, I have run into some troubles. After parsing the output of run_pfam_scan.sh using K-parse_Pfam_domains_v3.1.pl (using a verbose output), I am getting the following errors when using the K-parse_Pfam_domains_NLR-fusions-v2.2.pl script:
defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 172.
(Maybe you should just omit the defined()?)
defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 179.
(Maybe you should just omit the defined()?)
defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 249.
(Maybe you should just omit the defined()?)
I've been using the following command to use this script:
perl ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl -i ./master_dir/ -o ./master_dir/ -d ./master_dir/Ssisymbriifolium/pfam/db_description.txt
Any advice on what needs to be changed to get this to work?
When trying to parse the output, I have run into some troubles. After parsing the output of run_pfam_scan.sh using K-parse_Pfam_domains_v3.1.pl (using a verbose output), I am getting the following errors when using the K-parse_Pfam_domains_NLR-fusions-v2.2.pl script: defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 172. (Maybe you should just omit the defined()?)
defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 179. (Maybe you should just omit the defined()?)
defined(@array) is deprecated at ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl line 249. (Maybe you should just omit the defined()?)
I've been using the following command to use this script: perl ./processing_scripts/K-parse_Pfam_domains_NLR-fusions-v2.2.pl -i ./master_dir/ -o ./master_dir/ -d ./master_dir/Ssisymbriifolium/pfam/db_description.txt
Any advice on what needs to be changed to get this to work?
Thank you for your time and help,
Alex