pipeline

Breakdancer   v1.4.5

breakdancer	v1.4.5
delly	v.1.2.6

conda create -n breakdancer
conda activate breakdancer
conda install bioconda::breakdancer
conda deactivate

conda create -n delly
conda activate delly
conda install bioconda::delly
conda deactivate

survivor

mkdir SURVIVOR
git clone https://github.com/fritzsedlazeck/SURVIVOR.git
cd SURVIVOR
cd Debug
make
/lustre/home/.../path/./SURVIVOR/SURVIVOR/Debug

vcflib

conda create -n vcflib
conda activate vcflib
conda install bioconda::vcflib
conda deactivate

svtyper

conda create -n svtyper
conda activate svtyper
conda install bioconda::svtyper
conda deactivate

Can't load '/breakdancer/lib/site_perl/5.26.2/x86_64-linux-thread-multi/auto/GD/GD.so' for module GD: libwebp.so.6: cannot open shared object file: No such file or directory at dbreakdancer/lib/5.26.2/x86_64-linux-thread-multi/DynaLoader.pm line 193.

ldd /lustre/home/xxma/anaconda3/envs/breakdancer/lib/site_perl/5.26.2/x86_64-linux-thread-multi/auto/GD/GD.so

libwebp.so.6 => not found

ln -s libwebp.so.7.1.8 libwebp.so.6

libwebp-base              1.3.2                h5eee18b_0

libwebp                   1.2.4                h1daa5a0_1    conda-forge