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brinkmanlab / islandpath

IslandPath standalone software
GNU General Public License v3.0
31 stars 4 forks source link

perl version ?? #5

Closed yangzuokun closed 3 years ago

yangzuokun commented 6 years ago

perl Dimob.pl example/NC_000913.embl NC_003210_gis.txt

Unescaped left brace in regex is illegal here in regex; marked by <-- HERE in m/{{ <-- HERE .+}}/ at /home/yzk/software/islandpath/lib/Dimob/Config.pm line 81. Compilation failed in require at /home/yzk/software/islandpath/lib/GenomeUtils.pm line 50. BEGIN failed--compilation aborted at /home/yzk/software/islandpath/lib/GenomeUtils.pm line 50. Compilation failed in require at ./Dimob.pl line 45. BEGIN failed--compilation aborted at ./Dimob.pl line 45.

cbertell commented 6 years ago

Perl version available in the pre-installed docker container is 5.16.3.
For a ready-to go solution: to get the pre-installed version of IslandPath, install docker and run

docker pull brinkmanlab/islandpath:1.0.0

Then follow instructions on how to run it: https://hub.docker.com/r/brinkmanlab/islandpath/
I'll try to update the code to the newer perl version when I can.