Cortex assembler : libgsl.so.0: cannot open shared object file
I am repeatedly trying to run example1_simple_snp in cortex_var but unfortunately it is throwing error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory
According to google group (https://groups.google.com/forum/#!forum/cortex_var), this problem has been marked as duplicate but unfortunately I am unable to find the link where this problem has been solved. I am attaching the error as well as my LD_LIBRARY_PATH variable.
kshitij@kshitij-ThinkCentre-M91P:~/Downloads/CORTEX_release_v1.0.5.21/demo/example1_simple_snp$ /home/kshitij/Downloads/CORTEX_release_v1.0.5.21/bin/cortex_var_31_c1 --se_list list_full_genome_fasta --kmer_size 31 --max_read_len 100 --format FASTA --detect_bubbles1 0/0 --output_bubbles1 bubbles_called_from_genome
/home/kshitij/Downloads/CORTEX_release_v1.0.5.21/bin/cortex_var_31_c1: error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory
echo $LD_LIBRARY_PATH
/home/kshitij/Downloads/CORTEX_release_v1.0.5.whatever/libs/gsl-1.15/:/home/kshitij/Download CORTEX_release_v1.0.5.whatever/libs/gsl-1.15/.libs:/home/kshitij/Downloads/CORTEX_release_v1.0.5.whatever/libs/gsl-1.15/blas/.libs/
Can anybody comment on how to solve this?
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kshitijtayal •
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Check 1: Have you exported your LD_LIBRARY_PATH or just set the variable?
Check 2: Does the corresponding file "libgsl.so.0" actually exist in any of the directories specified in you library path?
You beat me by 2 minutes :P
BTW, nice user name!
Gotcha! ;-P
And thank you but it's actually my family name :D If I bump into you (been living in Freiburg as well), I will show you my passport ;-)
Hah! I do enjoy that Germans often have meaningful last names.
Have you looked for libgsl.so in the directories in your LD_LIBRARY_PATH?
BTW, you'll likely get better support for this type of problem on stackoverflow.