marbl
parsnp run error due to readlinelib
I installed parsnp 1) via conda as part of a pipeline I want to use which brings its own envs. After recieving the error below: 2) via conda (bioconda) in an own dedicated parsnp env, and 3) from source as descibed on the redthedocs page. Im am working on Linux SUSE/SLES12. In all approaches I get the following error as soon as I start pasnp wih a test data set (parsnp -c -f GCF000008985.fasta -d assemby-folder/ -o outdir -p 8 -v) and even only with option -h:
Warning: Cannot determine OS, defaulting to linux |--Parsnp v1.2--| For detailed documentation please see --> http://harvest.readthedocs.org/en/latest sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference option -f not recognized
#below that error the usage manual is shown:
parsnp [options] [-g|-r|-q](see below) -d <genome_dir> -p
Any help woul be appraciated. Thank you so much!
I installed parsnp 1) via conda as part of a pipeline I want to use which brings its own envs. After recieving the error below: 2) via conda (bioconda) in an own dedicated parsnp env, and 3) from source as descibed on the redthedocs page. Im am working on Linux SUSE/SLES12. In all approaches I get the following error as soon as I start pasnp wih a test data set (parsnp -c -f GCF000008985.fasta -d assemby-folder/ -o outdir -p 8 -v) and even only with option -h:
Warning: Cannot determine OS, defaulting to linux |--Parsnp v1.2--| For detailed documentation please see --> http://harvest.readthedocs.org/en/latest sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference sh: /tmp/_MEIgucblW/libreadline.so.6: no version information available (required by sh) sh: relocation error: sh: symbol rl_filename_stat_hook, version READLINE_6.3 not defined in file libreadline.so.6 with link time reference option -f not recognized #below that error the usage manual is shown: parsnp [options] [-g|-r|-q](see below) -d <genome_dir> -p ...Any help woul be appraciated. Thank you so much!
@alexadn Sorry for the late reply. These errors suggest that one of the binaries does not support your distribution of Linux. I'll look into seeing if we can get SUSE recognized/supported.
Can you try the 1.5 release? We've changed the binary to be more compatible w/ other OSs