Trimmomatic 0.36.5 fails

usegalaxy-no / galaxyadmin

A repository for managing the work of the usegalaxy.no GalaxyAdmin team

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Trimmomatic 0.36.5 fails #22

Closed torfinnnome closed 3 years ago

torfinnnome commented 3 years ago

Stderr
--
readlink: invalid option -- 'e'
BusyBox v1.22.1 (2014-05-23 01:24:27 UTC) multi-call binary. 

Usage: readlink [-fnv] FILE 
Display the value of a symlink
    -f  Canonicalize by following all symlinks
    -n  Don't add newline
    -v  Verbose

When updating to version 0.38.1:

java: error while loading shared libraries: libz.so.1: cannot open shared object file: No such file or directory

Sigh. Looking into it.

torfinnnome commented 3 years ago

Fixed by modifying /srv/galaxy/var/shed_tools/toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/d94aff5ee623/trimmomatic/trimmomatic.xml:

<requirement type="package" version="1.2.11">zlib</requirement>

Will push this upstream.