[Error] Cannot run Falcon_unzip on greg200k-sv2 data set because of unsupported sequencing chemistry combination

[AxelMacFoly]

Hello, I tried to run the example data set mentioned on the pb-assembly wiki page called "greg200k-sv2". Unfortunately the pipeline exits and the following error can be found within the 4-polish/quiver-run/000000F/run-P84ae2390cfc3af.bash.stderr file:

gcpp --algorithm=arrow -x 5 -X 120 -q 0 -j $nproc -r ../../../quiver-split/refs/000000F/ref.fasta aln-000000F.bam -o ${fasta_fn},${fastq_fn},cns.vcf

• gcpp --algorithm=arrow -x 5 -X 120 -q 0 -j 1 -r ../../../quiver-split/refs/000000F/ref.fasta aln-000000F.bam -o cns.fasta,cns.fastq,cns.vcf |> 20191030 08:35:11.567 -|- FATAL -|- Run -|- 0x7fef459d57c0|| -|- unsupported sequencing chemistry combination: binding kit: 100372700 sequencing kit: 100356200 basecaller version: 2.3.0.1.142990

I think that means the actual Falcon version has skipped a previous chemistries. Is there another test set which can you provide to the community instead?

I used the following Falcon version: falcon-kit 1.5.2 (pip thinks "falcon-kit 1.5.2") pypeflow 2.3.0

Thanks in advance and best regards Axel

[pb-cdunn]

Yes, I need to upload a new version. It's mostly synthetic data, so the "chemistry" is faked. But we do have a version with updated chemistry...

[mdeloger]

+1 It is important to understand actually if pb-assembly do not technically work or if it is related to our dataset. Thank you very much in advance @pb-cdunn

[pb-cdunn]

I updated the chemistry, and the new tarball will be pulled by git-sym via FALCON-examples. You can see it here:

https://downloads.pacbcloud.com/public/data/git-sym/

called greg200k-sv2.3.tar now.