Note: this is a pre-release.

0.9.0-rc1

Changed

• pandora discover now receives read index files describing samples and reads, and discover denovo sequences in these samples. To improve performance on discovering denovo sequences on several samples, pandora discover is now multithreaded, but the performance is still the same as the previous version, i.e. each sample is processed in a single-threaded way;
• pandora discover output changed to a proprietary format. See example for the new output;
• pandora can now communicate with a make_prg prototype that is able to update PRGs without needing to realign and remake the PRG. This provides major performance upgrades to running the full pandora pipeline with denovo discovery enabled, and there is no need anymore to use a snakemake pipeline (see this example to how to run the full pipeline);
• We now use musl libc instead of Holy Build Box to build a precompiled portable binary, removing the dependency on OpenMP 4.0+ or GCC 4.9+, and GLIBC;